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2019

Identification and regulation of the long non-coding RNA Heat2 in heart failure.
Boeckel, J.N. and Perret, M.F. and Glaser, S.F. and Seeger, T. and Heumüller, A.W. and Chen, W. and John, D. and Kokot, K.E. and Katus, H.A. and Haas, J. and Lackner, M.K. and Kayvanpour, E. and Grabe, N. and Dieterich, C. and von Haehling, S. and Ebner, N. and Hünecke, S. and Leuschner, F. and Fichtlscherer, S. and Meder, B. and Zeiher, A.M. and Dimmeler, S. and Keller, T.
Journal of Molecular and Cellular Cardiology 126 : 13-22. January 2019

2018

The immunoproteasome-specific inhibitor ONX 0914 reverses susceptibility to acute viral myocarditis.
Althof, N. and Goetzke, C.C. and Kespohl, M. and Voss, K. and Heuser, A. and Pinkert, S. and Kaya, Z. and Klingel, K. and Beling, A.
EMBO Molecular Medicine 10 (2): 200-218. 1 February 2018

Proteomics, post-translational modifications, and integrative analyses reveal molecular heterogeneity within medulloblastoma subgroups.
Archer, T.C. and Ehrenberger, T. and Mundt, F. and Gold, M.P. and Krug, K. and Mah, C.K. and Mahoney, E.L. and Daniel, C.J. and LeNail, A. and Ramamoorthy, D. and Mertins, P. and Mani, D.R. and Zhang, H. and Gillette, M.A. and Clauser, K. and Noble, M. and Tang, L.C. and Pierre-François, J. and Silterra, J. and Jensen, J. and Tamayo, P. and Korshunov, A. and Pfister, S.M. and Kool, M. and Northcott, P.A. and Sears, R.C. and Lipton, J.O. and Carr, S.A. and Mesirov, J.P. and Pomeroy, S.L. and Fraenkel, E.
Cancer Cell 34 (3): 396-410. 10 September 2018

Allosteric inhibition of a mammalian lectin.
Aretz, J. and Anumala, U.R. and Fuchsberger, F.F. and Molavi, N. and Ziebart, N. and Zhang, H. and Nazaré, M. and Rademacher, C.
Journal of the American Chemical Society 140 (44): 14915-14925. 7 November 2018

A Canadian genome-wide association study and meta-analysis confirm HLA as a risk factor for peanut allergy independent of asthma.
Asai, Y. and Eslami, A. and van Ginkel, C.D. and Akhabir, L. and Wan, M. and Yin, D. and Ellis, G. and Ben-Shoshan, M. and Marenholz, I. and Martino, D. and Ferreira, M.A. and Allen, K. and Mazer, B. and de Groot, H. and de Jong, N.W. and Gerth van Wijk, R. and Dubois, A.E.J. and Grosche, S. and Ashley, S. and Rüschendorf, F. and Kalb, B. and Beyer, K. and Nöthen, M.M. and Lee, Y.A. and Chin, R. and Cheuk, S. and Hoffman, J. and Jorgensen, E. and Witte, J.S. and Melles, R.B. and Hong, X. and Wang, X. and Hui, J. and Musk, A.W.B. and Hunter, M. and James, A.L. and Koppelman, G.H. and Sandford, A.J. and Clarke, A.E. and Daley, D.
Journal of Allergy and Clinical Immunology 141 (4): 1513-1516. April 2018

7 Tesla MRI of Balo's concentric sclerosis versus multiple sclerosis lesions.
Behrens, J.R. and Wanner, J. and Kuchling, J. and Ostendorf, L. and Harms, L. and Ruprecht, K. and Niendorf, T. and Jarius, S. and Wildemann, B. and Gieß, R.M. and Scheel, M. and Bellmann-Strobl, J. and Wuerfel, J. and Paul, F. and Sinnecker, T.
Annals of Clinical and Translational Neurology 5 (8): 900-912. August 2018

Kinetic modelling of quantitative proteome data predicts metabolic reprogramming of liver cancer.
Berndt, N. and Egners, A. and Mastrobuoni, G. and Vvedenskaya, O. and Fragoulis, A. and Dugourd, A. and Bulik, S. and Pietzke, M. and Bielow, C. and van Gassel, R. and Olde Damink, S. and Erdem, M. and Saez-Rodriguez, J. and Holzhütter, H.G. and Kempa, S. and Cramer, T.
bioRxiv : 275040. 5 March 2018

Identification and ranking of recurrent neo-epitopes in cancer.
Blanc, E. and Holtgrewe, M. and Dhamodaran, A. and Messerschmidt, C. and Willimsky, G. and Blankenstein, T. and Beule, D.
bioRxiv : 389437. 10 August 2018

The anti-amyloid compound DO1 decreases plaque pathology and neuroinflammation-related expression changes in 5xFAD transgenic mice.
Boeddrich, A. and Babila, J.T. and Wiglenda, T. and Diez, L. and Jacob, M. and Nietfeld, W. and Huska, M.R. and Haenig, C. and Groenke, N. and Buntru, A. and Blanc, E. and Meier, J.C. and Vannoni, E. and Erck, C. and Friedrich, B. and Martens, H. and Neuendorf, N. and Schnoegl, S. and Wolfer, D.P. and Loos, M. and Beule, D. and Andrade-Navarro, M.A. and Wanker, E.E.
Cell Chemical Biology 21 October 2018 (In Press)

Gadolinium deposition in the brain after contrast-enhanced MRI: are the data valid?
Boyken, J. and Niendorf, T. and Flemming, B. and Seeliger, E.
Radiology 288 (2): 630-632. 19 June 2018

Interpretation of functional renal MRI findings : where physiology and imaging sciences need to talk across domains.
Brix, S. and Cantow, K. and Flemming, B. and Pohlmann, A. and Niendorf, T. and Seeliger, E.
Journal of Magnetic Resonance Imaging 47 (4): 1140-1141. April 2018

The C/EBPβ LIP isoform rescues loss of C/EBPβ function in the mouse.
Bégay, V. and Baumeier, C. and Zimmermann, K. and Heuser, A. and Leutz, A.
Scientific Reports 8 (1): 8417. 30 May 2018

Adaptive and reversible resistance to Kras inhibition in pancreatic cancer cells.
Chen, P.Y. and Muzumdar, M.D. and Dorans, K.J. and Robbins, R.A. and Bhutkar, A. and Del Rosario, A.M. and Mertins, P. and Qiao, J. and Schaefer, C. and Gertler, F.B. and Carr, S.A. and Jacks, T.
Cancer Research 78 (4): 985-1002. 15 February 2018

Small and large ribosomal subunit deficiencies lead to distinct gene expression signatures that reflect cellular growth rate.
Cheng, Z. and Mugler, C.F. and Keskin, A. and Hodapp, S. and Chan, L.Y.L. and Weis, K. and Mertins, P. and Regev, A. and Jovanovic, M. and Brar, G.A.
Molecular Cell 29 November 2018 (In Press)

Pervasive, coordinated protein-level changes driven by transcript isoform switching during meiosis.
Cheng, Z. and Otto, G.M. and Powers, E.N. and Keskin, A. and Mertins, P. and Carr, S.A. and Jovanovic, M. and Brar, G.A.
Cell 172 (5): 910-923. 22 February 2018

MetExplore: collaborative edition and exploration of metabolic networks.
Cottret, L. and Frainay, C. and Chazalviel, M. and Cabanettes, F. and Gloaguen, Y. and Camenen, E. and Merlet, B. and Heux, S. and Portais, J.C. and Poupin, N. and Vinson, F. and Jourdan, F.
Nucleic Acids Research 46 (W1): W495-W502. 2 July 2018

The transcription factor STAT6 mediates direct repression of inflammatory enhancers and limits activation of alternatively polarized macrophages.
Czimmerer, Z. and Daniel, B. and Horvath, A. and Rückerl, D. and Nagy, G. and Kiss, M. and Peloquin, M. and Budai, M.M. and Cuaranta-Monroy, I. and Simandi, Z. and Steiner, L. and Nagy, B. and Poliska, S. and Banko, C. and Bacso, Z. and Schulman, I.G. and Sauer, S. and Deleuze, J.F. and Allen, J.E. and Benko, S. and Nagy, L.
Immunity 48 (1): 75-90. 16 January 2018

Extensive and functional overlap of the STAT6 and RXR cistromes in the active enhancer repertoire of human CD14+ monocyte derived differentiating macrophages.
Czimmerer, Z. and Nagy, Z.S. and Nagy, G. and Horvath, A. and Silye-Cseh, T. and Kriston, A. and Jonas, D. and Sauer, S. and Steiner, L. and Daniel, B. and Deleuze, J.F. and Nagy, L.
Molecular and Cellular Endocrinology 471 : 63-74. 15 August 2018

The nuclear receptor PPARγ controls progressive macrophage polarization as a ligand-insensitive epigenomic ratchet of transcriptional memory.
Daniel, B. and Nagy, G. and Czimmerer, Z. and Horvath, A. and Hammers, D.W. and Cuaranta-Monroy, I. and Poliska, S. and Tzerpos, P. and Kolostyak, Z. and Hays, T.T. and Patsalos, A. and Houtman, R. and Sauer, S. and Francois-Deleuze, J. and Rastinejad, F. and Balint, B.L. and Sweeney, H.L. and Nagy, L.
Immunity 49 (4): 615-626. 16 October 2018

The IL-4/STAT6/PPARγ signaling axis is driving the expansion of the RXR heterodimer cistrome, providing complex ligand responsiveness in macrophages.
Daniel, B. and Nagy, G. and Horvath, A. and Czimmerer, Z. and Cuaranta-Monroy, I. and Poliska, S. and Hays, T.T. and Sauer, S. and Francois-Deleuze, J. and Nagy, L.
Nucleic Acids Research 46 (9): 4425-4439. 18 May 2018

Nuclear organization in the spinal cord depends on motor neuron lamination orchestrated by catenin and afadin function.
Dewitz, C. and Pimpinella, S. and Hackel, P. and Akalin, A. and Jessell, T.M. and Zampieri, N.
Cell Reports 22 (7): 1681-1694. 13 February 2018

On the relation between filament density, force generation and protrusion rate in mesenchymal cell motility.
Dolati, S. and Kage, F. and Mueller, J. and Müsken, M. and Kirchner, M. and Dittmar, G. and Sixt, M. and Rottner, K. and Falcke, M.
Molecular Biology of the Cell 29 (22): 2674-2686. 1 November 2018

S-palmitoylation is required for the control of growth cone morphology of DRG neurons by CNP-induced cGMP signaling.
Dumoulin, A. and Dagane, A. and Dittmar, G. and Rathjen, F.G.
Frontiers in Molecular Neuroscience 11 : 345. 24 September 2018

In vivo imaging of MMP-13 activity using a specific polymer-FRET peptide conjugate detects early osteoarthritis and inhibitor efficacy.
Duro-Castano, A. and Lim, N.H. and Tranchant, I. and Amoura, M. and Beau, F. and Wieland, H. and Kingler, O. and Herrmann, M. and Nazaré, M. and Plettenburg, O. and Dive, V. and Vicent, M.J. and Nagase, H.
Advanced Functional Materials 28 (37): 1802738. 12 September 2018

The choice of embedding media affects image quality, tissue R(2)*, and susceptibility behaviors in post‐mortem brain MR microscopy at 7.0T.
Dusek, P. and Madai, V.I. and Huelnhagen, T. and Bahn, E. and Matej, R. and Sobesky, J. and Niendorf, T. and Acosta-Cabronero, Julio and Wuerfel, J.
Magnetic Resonance in Medicine 2 December 2018 (In Press)

Brain iron accumulation in Wilson's disease: a longitudinal imaging case study during anticopper treatment using 7.0T MRI and transcranial sonography.
Dusek, P. and Skoloudik, D. and Maskova, J. and Huelnhagen, T. and Bruha, R. and Zahorakova, D. and Niendorf, T. and Ruzicka, E. and Schneider, S.A. and Wuerfel, J.
Journal of Magnetic Resonance Imaging 47 (1): 282-285. January 2018

Silent witness: dual-species transcriptomics reveals epithelial immunological quiescence to helminth larval encounter and fostered larval development.
Ebner, F. and Kuhring, M. and Radonic, A. and Midha, A. and Renard, B.Y. and Hartmann, S.
Frontiers in Immunology 9 : 1868. 15 August 2018

Clathrin coat controls synaptic vesicle acidification by blocking vacuolar ATPase activity.
Farsi, Z. and Gowrisankaran, S. and Krunic, M. and Rammner, B. and Woehler, A. and Lafer, E.M. and Mim, C. and Jahn, R. and Milosevic, I.
eLife 7 : e32569. 13 April 2018

Eleven loci with new reproducible genetic associations with allergic disease risk.
Ferreira, M.A. and Vonk, J.M. and Baurecht, H. and Marenholz, I. and Tian, C. and Hoffman, J.D. and Helmer, Q. and Tillander, A. and Ullemar, V. and Lu, Y. and Rüschendorf, F. and Hinds, D.A. and Hübner, N. and Weidinger, S. and Magnusson, P.K. and Jorgenson, E. and Lee, Y.A. and Boomsma, D.I. and Karlsson, R. and Almqvist, C. and Koppelman, G.H. and Paternoster, L.
Journal of Allergy and Clinical Immunology 19 April 2018 (In Press)

Alterations of mTOR signaling impact metabolic stress resistance in colorectal carcinomas with BRAF and KRAS mutations.
Fritsche-Guenther, R. and Zasada, C. and Mastrobuoni, G. and Royla, N. and Rainer, R. and Roßner, F. and Pietzke, M. and Klipp, E. and Sers, C. and Kempa, S.
Scientific Reports 8 (1): 9204. 15 June 2018

Desmoglein 2, but not desmocollin 2, protects intestinal epithelia from injury.
Gross, A. and Pack, L.A.P. and Schacht, G.M. and Kant, S. and Ungewiss, H. and Meir, M. and Schlegel, N. and Preisinger, C. and Boor, P. and Guldiken, N. and Krusche, C.A. and Sellge, G. and Trautwein, C. and Waschke, J. and Heuser, A. and Leube, R.E. and Strnad, P.
Mucosal Immunology 11 (6): 1630-1639. 1 November 2018

An eicosanoid protects from statin-induced myopathic changes in primary human cells.
Grunwald, S. and Popp, O. and Haafke, S. and Jedraszczak, N. and Grieben, U. and Saar, K. and Patone, G. and Kress, W. and Steinhagen-Thiessen, E. and Dittmar, G. and Spuler, S.
bioRxiv : 271932. 26 February 2018

Transcriptional and translational differences of microglia from male and female brains.
Guneykaya, D. and Ivanov, A. and Perez Hernandez, D. and Haage, V. and Wojtas, B. and Meyer, N. and Maricos, M. and Jordan, P. and Buonfiglioli, A. and Gielniewski, B. and Ochocka, N. and Cömert, C. and Friedrich, C. and Suarez Artiles, L. and Kaminska, B. and Mertins, P. and Beule, D. and Kettenmann, H. and Wolf, S.A.
Cell Reports 24 (10): 2773-2783. 4 September 2018

Faecal microbiota composition associates with abdominal pain in the general population.
Hadizadeh, F. and Bonfiglio, F. and Belheouane, M. and Vallier, M. and Sauer, S. and Bang, C. and Bujanda, L. and Andreasson, A. and Agreus, L. and Engstrand, L. and Talley, N.J. and Rafter, J. and Baines, J.F. and Walter, S. and Franke, A. and D'Amato, M.
Gut 67 (4): 778-779. 8 March 2018

MRG-1/MRG15 is a barrier for germ cell to neuron reprogramming in Caenorhabditis elegans.
Hajduskova, M. and Baytek, G. and Kolundzic, E. and Gosdschan, A. and Kazmierczak, M. and Ofenbauer, A. and Beato del Rosal, M.L. and Herzog, S. and ul Fatima, N. and Mertins, P. and Seelk-Müthel, S. and Tursun, B.
Genetics 13 November 2018 (In Press)

Preserved heart function after left ventricular pressure overload in adult mice subjected to neonatal cardiac hypoplasia.
Heinecke, K. and Heuser, A. and Blaschke, F. and Jux, C. and Thierfelder, L. and Drenckhahn, J.D.
Journal of Developmental Origins of Health and Disease 9 (1): 112-124. February 2018

Embryos and embryonic stem cells from the white rhinoceros.
Hildebrandt, T.B. and Hermes, R. and Colleoni, S. and Diecke, S. and Holtze, S. and Renfree, M.B. and Stejskal, J. and Hayashi, K. and Drukker, M. and Loi, P. and Göritz, F. and Lazzari, G. and Galli, C.
Nature Communications 9 (1): 2589. 4 July 2018

Multisite de novo mutations in human offspring after paternal exposure to ionizing radiation.
Holtgrewe, M. and Knaus, A. and Hildebrand, G. and Pantel, J.T. and de Los Santos, M.R. and Neveling, K. and Goldmann, J. and Schubach, M. and Jäger, M. and Coutelier, M. and Mundlos, S. and Beule, D. and Sperling, K. and Krawitz, P.M.
Scientific Reports 8 (1): 14611. 2 October 2018

Genetics of intellectual disability in consanguineous families.
Hu, H. and Kahrizi, K. and Musante, L. and Fattahi, Z. and Herwig, R. and Hosseini, M. and Oppitz, C. and Abedini, S.S. and Suckow, V. and Larti, F. and Beheshtian, M. and Lipkowitz, B. and Akhtarkhavari, T. and Mehvari, S. and Otto, S. and Mohseni, M. and Arzhangi, S. and Jamali, P. and Mojahedi, F. and Taghdiri, M. and Papari, E. and Soltani Banavandi, M.J. and Akbari, S. and Tonekaboni, S.H. and Dehghani, H. and Ebrahimpour, M.R. and Bader, I. and Davarnia, B. and Cohen, M. and Khodaei, H. and Albrecht, B. and Azimi, S. and Zirn, B. and Bastami, M. and Wieczorek, D. and Bahrami, G. and Keleman, K. and Vahid, L.N. and Tzschach, A. and Gärtner, J. and Gillessen-Kaesbach, G. and Varaghchi, J.R. and Timmermann, B. and Pourfatemi, F. and Jankhah, A. and Chen, W. and Nikuei, P. and Kalscheuer, V.M. and Oladnabi, M. and Wienker, T.F. and Ropers, H.H. and Najmabadi, H.
Molecular Psychiatry 4 January 2018 (In Press)

Myocardial effective transverse relaxation time T(2)* is elevated in hypertrophic cardiomyopathy: a 7.0 T magnetic resonance imaging study.
Huelnhagen, T. and Ku, M.C. and Reimann, H.M. and Serradas Duarte, T. and Pohlmann, A. and Flemming, B. and Seeliger, E. and Eichhorn, C. and Ferrari, V.A. and Prothmann, M. and Schulz-Menger, J. and Niendorf, T.
Scientific Reports 8 (1): 3974. 5 March 2018

Quantification of myocardial effective transverse relaxation time with magnetic resonance at 7.0 tesla for a better understanding of myocardial (patho)physiology.
Huelnhagen, T. and Serradas-Duarte, Teresa and Hezel, Fabian and Paul, K. and Niendorf, T.
In: Quantification of Biophysical Parameters in Medical Imaging. Springer, Cham, Switzerland, 343-372. ISBN 978-3-319-65923-7 2018

Proteomic analysis of chemosensory organs in the honey bee parasite Varroa destructor: a comprehensive examination of the potential carriers for semiochemicals.
Iovinella, I. and McAfee, A. and Mastrobuoni, G. and Kempa, S. and Foster, L.J. and Pelosi, P. and Dani, F.R.
bioRxiv : 260539. 7 February 2018

Chromatin accessibility is dynamically regulated across C. elegans development and ageing.
Janes, J. and Dong, Y. and Schoof, M. and Serizay, J. and Appert, A. and Cerrato, C. and Woodbury, C. and Chen, R. and Gemma, C. and Huang, N. and Kissiov, D. and Stempor, P. and Steward, A. and Zeiser, E. and Sauer, S. and Ahringer, J.
bioRxiv : 279158. 10 June 2018

High peak and high average radiofrequency power transmit/receive switch for thermal magnetic resonance.
Ji, Y. and Hoffmann, W. and Pham, M. and Dunn, A.E. and Han, H. and Özerdem, C. and Waiczies, H. and Rohloff, M. and Endemann, B. and Boyer, C. and Lim, M. and Niendorf, T. and Winter, L.
Magnetic Resonance in Medicine 80 (5): 2246-2255. November 2018

Chromatin accessibility dynamics across C. elegans development and ageing.
Jänes, J. and Dong, Y. and Schoof, M. and Serizay, J. and Appert, A. and Cerrato, C. and Woodbury, C. and Chen, R. and Gemma, C. and Huang, N. and Kissiov, D. and Stempor, P. and Steward, A. and Zeiser, E. and Sauer, S. and Ahringer, J.
eLife 7 : e37344. 26 October 2018

PPM1D truncating mutations confer resistance to chemotherapy and sensitivity to PPM1D inhibition in hematopoietic cells.
Kahn, J.D. and Miller, P.G. and Silver, A.J. and Sellar, R.S. and Bhatt, S. and Gibson, C. and McConkey, M. and Adams, D. and Mar, B. and Mertins, P. and Fereshetian, S. and Krug, K. and Zhu, H. and Letai, A. and Carr, S.A. and Doench, J. and Jaiswal, S. and Ebert, B.L.
Blood 132 (11): 1095-1105. 13 September 2018

Reproducible inference of transcription factor footprints in ATAC-seq and DNase-seq datasets via protocol-specific bias modeling.
Karabacak Calviello, A. and Hirsekorn, A. and Wurmus, R. and Yusuf, D. and Ohler, U.
bioRxiv : 284364. 19 March 2018

Maf links Neuregulin1 signaling to cholesterol synthesis in myelinating Schwann cells.
Kim, M. and Wende, H. and Walcher, J. and Kühnemund, J. and Cheret, C. and Kempa, S. and McShane, E. and Selbach, M. and Lewin, G.R. and Birchmeier, C.
Genes & Development 32 (9-10): 645-657. 10 May 2018

Preanalytical processing and biobanking procedures of biological samples for metabolomics research: a white paper, community perspective (for "Precision Medicine and Pharmacometabolomics Task Group"-The Metabolomics Society Initiative).
Kirwan, J.A. and Brennan, L. and Broadhurst, D. and Fiehn, O. and Cascante, M. and Dunn, W.B. and Schmidt, M.A. and Velagapudi, V.
Clinical Chemistry 64 (8): 1158-1182. August 2018

FACT sets a barrier for cell fate reprogramming in Caenorhabditis elegans and human cells.
Kolundzic, E. and Ofenbauer, A. and Bulut, S.I. and Uyar, B. and Baytek, G. and Sommermeier, A. and Seelk, S. and He, M. and Hirsekorn, A. and Vucicevic, D. and Akalin, A. and Diecke, S. and Lacadie, S.A. and Tursun, B.
Developmental Cell 46 (5): 611-626. 10 September 2018

Autologous iPSC-based vaccines elicit anti-tumor responses in vivo.
Kooreman, N.G. and Kim, Y. and de Almeida, P.E. and Termglinchan, V. and Diecke, S. and Shao, N.Y. and Wei, T.T. and Yi, H. and Dey, De. and Nelakanti, R. and Brouwer, T.P. and Paik, D.T. and Sagiv-Barfi, I. and Han, A. and Quax, P.H.A. and Hamming, J.F. and Levy, R. and Davis, M.M. and Wu, J.C.
Cell Stem Cell 22 (4): 501-513. 5 April 2018

Cardiac MRI in small animals.
Ku, M.C. and Huelnhagen, T. and Niendorf, T. and Pohlmann, A.
Methods in Molecular Biology 1718 : 269-284. 2018

Assessment of blood brain barrier leakage with gadolinium-enhanced MRI.
Ku, M.C. and Waiczies, S. and Niendorf, T. and Pohlmann, A.
Methods in Molecular Biology 1718 : 395-408. 2018

Muscle atrophy due to nerve damage is accompanied by elevated myofibrillar protein synthesis rates.
Langer, H.T. and Senden, J.M.G. and Gijsen, A.P. and Kempa, S. and van Loon, Luc J. C. and Spuler, S.
Frontiers in Physiology 9 : 1220. August 2018

The IgCAM CLMP regulates expression of connexin43 and connexin45 in intestinal and ureteral smooth muscle contraction in mice.
Langhorst, H. and Jüttner, R. and Groneberg, D. and Mohtashamdolatshahi, A. and Pelz, L. and Purfürst, B. and Schmidt-Ott, K.M. and Friebe, A. and Rathjen, F.G.
Disease Models & Mechanisms 11 (2): dmm032128. 22 February 2018

A novel nitroreductase-enhanced MRI contrast agent and its potential application in bacterial imaging.
Liu, Y. and Zhang, L. and Nazare, M. and Yao, Q. and Hu, H.Y.
Acta Pharmaceutica Sinica B 8 (3): 401-408. May 2018

Transient N-6-methyladenosine transcriptome sequencing reveals a regulatory role of m6A in splicing efficiency.
Louloupi, A. and Ntini, E. and Conrad, T. and Ørom, U.A.V.
Cell Reports 23 (12): 3429-3437. 19 June 2018

Degradation and remobilization of endogenous retroviruses by recombination during the earliest stages of a germ-line invasion.
Löber, U. and Hobbs, M. and Dayaram, A. and Tsangaras, K. and Jones, K. and Alquezar-Planas, D.E. and Ishida, Y. and Meers, J. and Mayer, J. and Quedenau, C. and Chen, W. and Johnson, R.N. and Timms, P. and Young, P.R. and Roca, A.L. and Greenwood, A.D.
Proceedings of the National Academy of Sciences of the United States of America 115 (34): 8609-8614. 21 August 2018

A new highly thyrotropin receptor-selective small molecule antagonist with potential for the treatment of Graves' orbitopathy.
Marcinkowski, P. and Hoyer, I. and Specker, E. and Furkert, J. and Rutz, C. and Neuenschwander, M. and Sobottka, S. and Sun, H. and Nazare, M. and Berchner-Pfannschmidt, U. and von Kries, J.P. and Eckstein, A. and Schülein, R. and Krause, G.
Thyroid 23 October 2018 (In Press)

Inhibition of the MID1 protein complex: a novel approach targeting APP protein synthesis.
Matthes, F. and Hettich, M.M. and Schilling, J. and Flores-Dominguez, D. and Blank, N. and Wiglenda, T. and Buntru, A. and Wolf, H. and Weber, S. and Vorberg, I. and Dagane, A. and Dittmar, G. and Wanker, E. and Ehninger, D. and Krauss, S.
Cell Death Discovery 4 : 4. 29 January 2018

Reproducible workflow for multiplexed deep-scale proteome and phosphoproteome analysis of tumor tissues by liquid chromatography-mass spectrometry.
Mertins, P. and Tang, L.C. and Krug, K. and Clark, D.J. and Gritsenko, M.A. and Chen, L. and Clauser, K.R. and Clauss, T.R. and Shah, P. and Gillette, M.A. and Petyuk, V.A. and Thomas, S.N. and Mani, D.R. and Mundt, F. and Moore, R.J. and Hu, Y. and Zhao, R. and Schnaubelt, M. and Keshishian, H. and Monroe, M.E. and Zhang, Z. and Udeshi, N.D. and Mani, D. and Davies, S.R. and Townsend, R.R. and Chan, D.W. and Smith, R.D. and Zhang, H. and Liu, T. and Carr, S.A.
Nature Protocols 13 (7): 1632-1661. July 2018

Silencing the CSF-1 axis using nanoparticle encapsulated siRNA mitigates viral and autoimmune myocarditis.
Meyer, I.S. and Goetzke, C.C. and Kespohl, M. and Sauter, M. and Heuser, A. and Eckstein, V. and Vornlocher, H.P. and Anderson, D.G. and Haas, J. and Meder, B. and Katus, H.A. and Klingel, K. and Beling, A. and Leuschner, F.
Frontiers in Immunology 9 : 2303. 8 October 2018

Mutations in disordered regions can cause disease by creating dileucine motifs.
Meyer, K. and Kirchner, M. and Uyar, B. and Cheng, J.Y. and Russo, G. and Hernandez-Miranda, L.R. and Szymborska, A. and Zauber, H. and Rudolph, I.M. and Willnow, T.E. and Akalin, A. and Haucke, V. and Gerhardt, H. and Birchmeier, C. and Kühn, R. and Krauss, M. and Diecke, S. and Pascual, J.M. and Selbach, M.
Cell 175 (1): 239-253. 20 September 2018

The IκB kinase complex is a regulator of mRNA stability.
Mikuda, N. and Kolesnichenko, M. and Beaudette, P. and Popp, O. and Uyar, B. and Sun, W. and Tufan, A.B. and Perder, B. and Akalin, A. and Chen, W. and Mertins, P. and Dittmar, G. and Hinz, M. and Scheidereit, C.
EMBO Journal 22 November 2018 (In Press)

Senescence-associated reprogramming promotes cancer stemness.
Milanovic, M. and Fan, D.N.Y. and Belenki, D. and Däbritz, J.H.M. and Zhao, Z. and Yu, Y. and Dörr, J.R. and Dimitrova, L. and Lenze, D. and Monteiro Barbosa, I.A. and Mendoza-Parra, M.A. and Kanashova, T. and Metzner, M. and Pardon, K. and Reimann, M. and Trumpp, A. and Dörken, B. and Zuber, J. and Gronemeyer, H. and Hummel, M. and Dittmar, G. and Lee, S. and Schmitt, C.A.
Nature 553 (7686): 96-100. 4 January 2018

Structural basis of gene regulation by the Grainyhead/CP2 transcription factor family.
Ming, Q. and Roske, Y. and Schuetz, A. and Walentin, K. and Ibraimi, I. and Schmidt-Ott, K.M. and Heinemann, U.
Nucleic Acids Research 46 (4): 2082-2095. 28 February 2018

Deciphering human ribonucleoprotein regulatory networks.
Mukherjee, N. and Wessels, H.H. and Lebedeva, S. and Sajek, M. and Ghanbari, M. and Garzia, A. and Munteanu, A. and Yusuf, D. and Farazi, T. and Hoell, J.I. and Akat, K.M. and Akalin, A. and Tuschl, T. and Ohler, U.
Nucleic Acids Research 5 December 2018 (In Press)

Mass spectrometry-based proteomics reveals potential roles of NEK9 and MAP2K4 in resistance to PI3K inhibitors in triple-negative breast cancers.
Mundt, F. and Rajput, S. and Li, S. and Ruggles, K.V. and Mooradian, A.D. and Mertins, P. and Gillette, M.A. and Krug, K. and Guo, Z. and Hoog, J. and Erdmann-Gilmore, P. and Primeau, T. and Huang, S. and Edwards, D.P. and Wang, X. and Wang, X. and Kawaler, E. and Mani, D.R. and Clauser, K.R. and Gao, F. and Luo, J. and Davies, S.R. and Johnson, G.L. and Huang, K.L. and Yoon, C.J. and Ding, L. and Fenyö, D. and Ellis, M.J. and Townsend, R.R. and Held, J.M. and Carr, S.A. and Ma, C.X.
Cancer Research 78 (10): 2732-2746. May 2018

Validation of simulations in multiphase flow metrology by comparison with experimental video observations.
Olbrich, M. and Schmeyer, E. and Riazy, L. and Oberleithner, K. and Bär, M. and Schmelter, S.
Journal of Physics: Conference Series 1065 (9): 092015. 13 November 2018

Systematic pharmacological screens uncover novel pathways involved in cerebral cavernous malformations.
Otten, C. and Knox, J. and Boulday, G. and Eymery, M. and Haniszewski, M. and Neuenschwander, M. and Radetzki, S. and Vogt, I. and Hähn, K. and De Luca, C. and Cardoso, C. and Hamad, S. and Igual Gil, C. and Roy, P. and Albiges‐Rizo, C. and Faurobert, E. and von Kries, J.P. and Campillos, M. and Tournier‐Lasserve, E. and Derry, W.B. and Abdelilah-Seyfried, S.
EMBO Molecular Medicine 10 (10): e9155. 1 October 2018

Multiband diffusion-weighted MRI of the eye and orbit free of geometric distortions using a RARE-EPI hybrid.
Paul, K. and Huelnhagen, T. and Oberacker, E. and Wenz, D. and Kuehne, A. and Waiczies, H. and Schmitter, S. and Stachs, O. and Niendorf, T.
NMR in Biomedicine 31 (3): e3872. March 2018

Isolation of native plasma membrane H(+)-ATPase (Pma1p) in both the active and basal activation states.
Pedersen, J.T. and Kanashova, T. and Dittmar, G. and Palmgren, M.
FEBS Open Bio 8 (5): 774-783. May 2018

FACS single cell index sorting is highly reliable and determines immune phenotypes of clonally expanded T cells.
Penter, L. and Dietze, K. and Bullinger, L. and Westermann, J. and Rahn, H.P. and Hansmann, L.
European Journal of Immunology 48 (7): 1248-1250. July 2018

Toward (19)F magnetic resonance thermometry: spin-lattice and spin-spin-relaxation times and temperature dependence of fluorinated drugs at 9.4 T.
Prinz, C. and Delgado, P.R. and Eigentler, T.W. and Starke, L. and Niendorf, T. and Waiczies, S.
Magnetic Resonance Materials in Physics Biology and Medicine 4 December 2018 (In Press)

De novo mutations implicate novel genes in systemic lupus erythematosus.
Pullabhatla, V. and Roberts, A.L. and Lewis, M.J. and Mauro, D. and Morris, D.L. and Odhams, C.A. and Tombleson, P. and Liljedahl, U. and Vyse, S. and Simpson, M.A. and Sauer, S. and de Rinaldis, E. and Syvänen, A.C. and Vyse, T.J.
Human Molecular Genetics 27 (3): 421-429. 1 February 2018

Long non-coding RNAs defining major subtypes of B cell precursor acute lymphoblastic leukemia.
Rani James, A. and Schroeder, M.P. and Neumann, M. and Bastian, L. and Eckert, C. and Gökbuget, N. and Tanchez, J.O. and Schlee, C. and Isaakidis, K. and Schwartz, S. and Burmeister, T. and von Stackelberg, A. and Rieger, M.A. and Göllner, S. and Horstman, M. and Schrappe, M. and Kirschner-Schwabe, R. and Brüggemann, M. and Müller-Tidow, C. and Serve, H. and Akalin, A. and Baldus, C.D.
bioRxiv : 365429. 9 July 2018

Parasitic nematodes exert antimicrobial activity and benefit from microbiota-driven support for host immune regulation.
Rausch, S. and Midha, A. and Kuhring, M. and Affinass, N. and Radonic, A. and Kühl, A.A. and Bleich, A. and Renard, B.Y. and Hartmann, S.
Frontiers in Immunology 9 : 2282. October 2018

Somatosensory BOLD fMRI reveals close link between salient blood pressure changes and the murine neuromatrix.
Reimann, H.M. and Todiras, M. and Hodge, Russ and Huelnhagen, T. and Millward, J.M. and Turner, R. and Seeliger, E. and Bader, M. and Pohlmann, A. and Niendorf, T.
NeuroImage 172 : 562-574. 15 May 2018

Human and equine endothelial cells in a life cell imaging scratch assay in vitro.
Rieger, J. and Hopperdietzel, C. and Kaessmeyer, S. and Slosarek, I. and Diecke, S. and Richardson, K. and Plendl, J.
Clinical Hemorheology and Microcirculation 29 October 2018 (In Press)

Non-canonical HIF-1 stabilization is essential for intestinal tumorigenesis.
Rohwer, N. and Jumpertz, S. and Erdem, M. and Egners, A. and Warzecha, K.T. and Fragoulis, A. and Kuehl, A.A. and Kramann, R. and Neuss, S. and Rudolph, I. and Endermann, T. and Zasada, C. and Apostolova, I. and Gerling, M. and Kempa, S. and Hughes, R. and Lewis, C.E. and Brenner, W. and Malinowski, M.B. and Stockmann, M. and Schomburg, L. and Faller, W. and Sansom, O.J. and Tacke, F. and Morkel, M. and Cramer, T.
bioRxiv : 273045. 28 February 2018

netSmooth: network-smoothing based imputation for single cell RNA-seq.
Ronen, J. and Akalin, A.
F1000Research 7 : 8. 10 July 2018

Evaluation of colorectal cancer subtypes and cell lines using deep learning.
Ronen, J. and Hayat, S. and Akalin, A.
bioRxiv : 464743. 12 November 2018

Electroconductive biohybrid hydrogel for enhanced maturation and beating properties of engineered cardiac tissues.
Roshanbinfar, K. and Vogt, L. and Greber, B. and Diecke, S. and Boccaccini, A.R. and Scheibel, T. and Engel, F.B.
Advanced Functional Materials : 1803951. 6 September 2018 (In Press)

Combined human genome-wide RNAi and metabolite analyses identify IMPDH as a host-directed target against Chlamydia infection.
Rother, M. and Gonzalez, E. and Teixeira da Costa, A.R. and Wask, L. and Gravenstein, I. and Pardo, M. and Pietzke, M. and Gurumurthy, R.K. and Angermann, J. and Laudeley, R. and Glage, S. and Meyer, M. and Chumduri, C. and Kempa, S. and Dinkel, K. and Unger, A. and Klebl, B. and Klos, A. and Meyer, T.F.
Cell Host & Microbe 23 (5): 661-671. 9 May 2018

Identification of genetic elements in metabolism by high-throughput mouse phenotyping.
Rozman, J. and Rathkolb, B. and Oestereicher, M.A. and Schütt, C. and Ravindranath, A.C. and Leuchtenberger, S. and Sharma, S. and Kistler, M. and Willershäuser, M. and Brommage, R. and Meehan, T.F. and Mason, J. and Haselimashhadi, H. and Hough, T. and Mallon, A.M. and Wells, S. and Santos, L. and Lelliott, C.J. and White, J.K. and Sorg, T. and Champy, M.F. and Bower, L.R. and Reynolds, C. L. and Flenniken, A.M. and Murray, St.A. and Nutter, L.M.J. and Svenson, K.L. and West, D. and Tocchini-Valentini, G.P. and Beaudet, A.L. and Bosch, F. and Braun, R.B. and Dobbie, M.S. and Gao, X. and Herault, Y. and Moshiri, A. and Moore, B.A. and Kent Lloyd, K.C. and McKerlie, C. and Masuya, H. and Tanaka, N. and Flicek, P. and Parkinson, H.E. and Sedlacek, R. and Seong, J.K. and Wang, C.K.L. and Moore, M. and Brown, S.D. and Tschöp, M.H. and Wurst, W. and Klingenspor, M. and Wolf, E. and Beckers, J. and Machicao, F. and Peter, A. and Staiger, H. and Häring, H.U. and Grallert, H. and Campillos, M. and Maier, H. and Fuchs, H. and Gailus-Durner, V. and Werner, T. and Hrabe de Angelis, M.
Nature Communications 9 (1): 288. 18 January 2018

Novel calcineurin A (PPP3CA) variant associated with epilepsy, constitutive enzyme activation and downregulation of protein expression.
Rydzanicz, M. and Wachowska, M. and Cook, E.C. and Lisowski, P. and Kuźniewska, B. and Szymańska, K. and Diecke, S. and Prigione, A. and Szczałuba, K. and Szybińska, A. and Koppolu, A. and Murcia Pienkowski, V. and Kosińska, J. and Wiweger, M. and Kostrzewa, G. and Brzozowska, M. and Domańska-Pakieła, D. and Jurkiewicz, E. and Stawiński, P. and Gromadka, A. and Zielenkiewicz, P. and Demkow, U. and Dziembowska, M. and Kuźnicki, J. and Creamer, T.P. and Płoski, R.
European Journal of Human Genetics 25 September 2018 (In Press)

Adipose tissue ATGL modifies the cardiac lipidome in pressure-overload-induced left ventricular failure.
Salatzki, J. and Foryst-Ludwig, A. and Bentele, K. and Blumrich, A. and Smeir, E. and Ban, Z. and Brix, S. and Grune, J. and Beyhoff, N. and Klopfleisch, R. and Dunst, S. and Surma, M.A. and Klose, C. and Rothe, M. and Heinzel, F.R. and Krannich, A. and Kershaw, E.E. and Beule, D. and Schulze, P.C. and Marx, N. and Kintscher, U.
PLoS Genetics 14 (1): e1007171. 10 January 2018

Regulation of the natriuretic peptide receptor 2 (Npr2) by phosphorylation of juxtamembrane serine and threonine residues is essential for bifurcation of sensory axons.
Schmidt, H. and Dickey, D.M. and Dumoulin, A. and Octave, M. and Robinson, J.W. and Kühn, R. and Feil, R. and Potter, L.R. and Rathjen, F.G.
Journal of Neuroscience 38 (45): 9768-9780. 7 November 2018

A general one-pot synthesis of 2H-indazoles using an organophosphorus-silane system.
Schoene, J. and Bel Abed, H. and Schmieder, P. and Christmann, M. and Nazaré, M.
Chemistry - A European Journal 24 (36): 9090-9100. 26 June 2018

CLCN2 chloride channel mutations in familial hyperaldosteronism type II.
Scholl, U.I. and Stölting, G. and Schewe, J. and Thiel, A. and Tan, H. and Nelson-Williams, C. and Vichot, A.A. and Jin, S.C. and Loring, E. and Untiet, V. and Yoo, T. and Choi, J. and Xu, S. and Wu, A. and Kirchner, M. and Mertins, P. and Rump, L.C. and Onder, A.M. and Gamble, C. and McKenney, D. and Lash, R.W. and Jones, D.P. and Chune, G. and Gagliardi, P. and Choi, M. and Gordon, R. and Stowasser, M. and Fahlke, C. and Lifton, R.P.
Nature Genetics 50 (3): 349-354. March 2018

Perturbation-response genes reveal signaling footprints in cancer gene expression.
Schubert, M. and Klinger, B. and Klünemann, M. and Sieber, A. and Uhlitz, F. and Sauer, S. and Garnett, M.J. and Blüthgen, N. and Saez-Rodriguez, J.
Nature Communications 9 (1): 20. 2 January 2018

CellFy - a cell-based fragment screen against C-type lectins.
Schulze, J. and Baukmann, H. and Wawrzinek, R. and Fuchsberger, F. and Specker, E.. and Aretz, J. and Nazaré, M. and Rademacher, C.
ACS Chemical Biology 27 November 2018 (In Press)

RXR heterodimers orchestrate transcriptional control of neurogenesis and cell fate specification.
Simandi, Z. and Horvath, A. and Cuaranta-Monroy, I. and Sauer, S. and Deleuze, J.F. and Nagy, L.
Molecular and Cellular Endocrinology 471 : 51-62. 15 August 2018

Future brain and spinal cord volumetric imaging in the clinic for monitoring treatment response in MS.
Sinnecker, T. and Granziera, C. and Wuerfel, J. and Schlaeger, R.
Current Treatment Options in Neurology 20 (6): 17. June 2018

Comparison of modified Matyash method to conventional solvent systems for polar metabolite and lipid extractions.
Sostare, J. and Di Guida, R. and Kirwan, J. and Chalal, K. and Palmer, E. and Dunn, W.B. and Viant, M.R.
Analytica Chimica Acta 1037 : 301-315. 11 December 2018

SORCS1 and SORCS3 control energy balance and orexigenic peptide production.
Subkhangulova, A. and Malik, A.R. and Hermey, G. and Popp, O. and Dittmar, G. and Rathjen, T. and Poy, M.N. and Stumpf, A. and Beed, P.S. and Schmitz, D. and Breiderhoff, T. and Willnow, T.E.
EMBO Reports 19 (4): e44810. 1 April 2018

Pervasive allele-specific regulation on RNA decay in hybrid mice.
Sun, W. and Gao, Q. and Schaefke, B. and Hu, Y. and Chen, W.
Life Science Alliance 1 (2): e201800052. May 2018

Loss of the hematopoietic stem cell factor GATA2 in the osteogenic lineage impairs trabecularization and mechanical strength of bone.
Tolkachov, A. and Fischer, C. and Ambrosi, T.H. and Bothe, M. and Han, C.T. and Muenzner, M. and Mathia, S. and Salminen, M. and Seifert, G. and Thiele, M. and Duda, G.N. and Meijsing, S.H. and Sauer, S. and Schulz, T.J. and Schupp, M.
Molecular and Cellular Biology 38 (12): e00599-17. June 2018

Fluorine-19 MRI at 21.1 T: enhanced spin-lattice relaxation of perfluoro-15-crown-5-ether and sensitivity as demonstrated in ex vivo murine neuroinflammation.
Waiczies, S. and Rosenberg, J.T. and Kuehne, A. and Starke, L. and Delgado, P.R. and Millward, J. and Prinz, C. and dos Santos Periquito, J. and Pohlmann, A. and Waiczies, H. and Niendorf, T.
Magnetic Resonance Materials in Physics Biology and Medicine 12 November 2018 (In Press)

A novel allele for inducible Cre expression in germinal center B cells.
Weber, T. and Seagal, J. and Winkler, W. and Wirtz, T. and Chu, V.T. and Rajewsky, K.
European Journal of Immunology 25 October 2018 (In Press)

Millimeter spatial resolution in vivo sodium MRI of the human eye at 7 T using a dedicated radiofrequency transceiver array.
Wenz, D. and Kuehne, A. and Huelnhagen, T. and Nagel, A.M. and Waiczies, H. and Weinberger, O. and Oezerdem, C. and Stachs, O. and Langner, S. and Seeliger, E. and Flemming, B. and Hodge, R. and Niendorf, T.
Magnetic Resonance in Medicine 80 (2): 672-684. August 2018

Nitric oxide-sensitive guanylyl cyclase stimulation improves experimental heart failure with preserved ejection fraction.
Wilck, N. and Markó, L. and Balogh, A. and Kräker, K. and Herse, F. and Bartolomaeus, H. and Szijártó, I.A. and Gollasch, M. and Reichhart, N. and Strauss, O. and Heuser, A. and Brockschnieder, D. and Kretschmer, A. and Lesche, R. and Sohler, F. and Stasch, J.P. and Sandner, P. and Luft, F. and Müller, D.N. and Dechend, R. and Haase, N.
JCI Insight 3 (4): e96006. 22 February 2018

Targeting wild-type KRAS-amplified gastroesophageal cancer through combined MEK and SHP2 inhibition.
Wong, G.S. and Zhou, J. and Liu, J.B. and Wu, Z. and Xu, X. and Li, T. and Xu, D. and Schumacher, S.E. and Puschhof, J. and McFarland, J. and Zou, C. and Dulak, A. and Henderson, L. and Xu, P. and O'Day, E. and Rendak, R. and Liao, W.L. and Cecchi, F. and Hembrough, T. and Schwartz, S. and Szeto, C. and Rustgi, A.K. and Wong, K.K. and Diehl, J.A. and Jensen, K. and Graziano, F. and Ruzzo, A. and Fereshetian, S. and Mertins, P. and Carr, S.A. and Beroukhim, R. and Nakamura, K. and Oki, E. and Watanabe, M. and Baba, H. and Imamura, Y. and Catenacci, D. and Bass, A.J.
Nature Medicine 24 (7): 968-977. July 2018

PiGx: Reproducible genomics analysis pipelines with GNU Guix.
Wurmus, R. and Uyar, B. and Osberg, B. and Franke, V. and Gosdschan, A. and Wreczycka, K. and Ronen, J. and Akalin, A.
GigaScience 7 (12): giy123. 1 December 2018

Reproducible genomics analysis pipelines with GNU Guix.
Wurmus, R. and Uyar, B. and Osberg, B. and Franke, V. and Gosdschan, A. and Wreczycka, K. and Ronen, J. and Akalin, A.
bioRxiv : 298653. 21 April 2018

Structure of Schlafen13 reveals a new class of tRNA/rRNA- targeting RNase engaged in translational control.
Yang, J.Y. and Deng, X.Y. and Li, Y.S. and Ma, X.C. and Feng, J.X. and Yu, B. and Chen, Y. and Luo, Y.L. and Wang, X. and Chen, M.L. and Fang, Z.X. and Zheng, F.X. and Li, Y.P. and Zhong, Q. and Kang, T.B. and Song, L.B. and Xu, R.H. and Zeng, M.S. and Chen, W. and Zhang, H. and Xie, W. and Gao, S.
Nature Communications 9 (1): 1165. 21 March 2018

Picky: a simple online PRM and SRM method designer for targeted proteomics.
Zauber, H. and Kirchner, M. and Selbach, M.
Nature Methods 15 (3): 156-157. 28 February 2018

2017

Discovery of a novel series of tankyrase inhibitors by a hybridization approach.
Anumala, U.R. and Waaler, J. and Nkizinkiko, Y. and Ignatev, A. and Lazarow, K. and Lindemann, P. and Olsen, P.A. and Murthy, S. and Obaji, E. and Majouga, A.G. and Leonov, S. and von Kries, J.P. and Lehtiö, L. and Krauss, S. and Nazaré, M.
Journal of Medicinal Chemistry 60 (24): 10013-10025. 28 December 2017

Enhanced precision and efficiency.
Bashir, S. and Kühn, R.
Nature Biomedical Engineering 1 (11): 856-857. November 2017

Elevated glutaric acid levels in Dhtkd1-/Gcdh- double knockout mice challenge our current understanding of lysine metabolism.
Biagosch, C. and Ediga, R.D. and Hensler, S.V. and Faerberboeck, M. and Kuehn, R. and Wurst, W. and Meitinger, T. and Kölker, S. and Sauer, S. and Prokisch, H.
Biochimica et Biophysica Acta - Molecular Basis of Disease 1863 (9): 2220-2228. September 2017

A large scale hearing loss screen reveals an extensive unexplored genetic landscape for auditory dysfunction.
Bowl, M.R. and Simon, M.M. and Ingham, N.J. and Greenaway, S. and Santos, L. and Cater, H. and Taylor, S. and Mason, J. and Kurbatova, N. and Pearson, S. and Bower, L.R. and Clary, D.A. and Meziane, H. and Reilly, P. and Minowa, O. and Kelsey, L. and Tocchini-Valentini, G.P. and Gao, X. and Bradley, A. and Skarnes, W.C. and Moore, M. and Beaudet, A.L. and Justice, M.J. and Seavitt, J. and Dickinson, M.E. and Wurst, W. and Hrabe de Angelis, M. and Herault, Y. and Wakana, S. and Nutter, L.M.J. and Flenniken, A.M. and McKerlie, C. and Murray, S.A. and Svenson, K.L. and Braun, R.E. and West, D.B. and Lloyd, K.C.K. and Adams, D.J. and White, J. and Karp, N. and Flicek, P. and Smedley, D. and Meehan, T.F. and Parkinson, H.E. and Teboul, L.M. and Wells, S. and Steel, K.P. and Mallon, A.M. and Brown, S.D.M.
Nature Communications 8 (1): 886. 12 October 2017

Stepwise reprogramming of liver cells to a pancreas progenitor state by the transcriptional regulator Tgif2.
Cerdá-Esteban, N. and Naumann, H. and Ruzittu, S. and Mah, N. and Pongrac, I.M. and Cozzitorto, C. and Hommel, A. and Andrade-Navarro, M.A. and Bonifacio, E. and Spagnoli, F.M.
Nature Communications 8 : 14127. 13 February 2017

Transcriptomic and epigenomic differences in human induced pluripotent stem cells generated from six reprogramming methods.
Churko, J.M. and Lee, J. and Ameen, M. and Gu, M. and Venkatasubramanian, M. and Diecke, S. and Sallam, K. and Im, H. and Wang, G. and Gold, J.D. and Salomonis, N. and Snyder, M.P. and Wu, J.C.
Nature Biomedical Engineering 1 (10): 826-837. October 2017

Muscle-relevant genes marked by stable H3K4me2/3 profiles and enriched MyoD binding during myogenic differentiation.
Cui, H. and Bansal, V. and Grunert, M. and Malecova, B. and Dall Agnese, A. and Latella, L. and Gatto, S. and Ryan, T. and Schulz, K. and Chen, W. and Dorn, C. and Puri, P.L. and Sperling, S.R.
PLoS ONE 12 (6): e0179464. 13 June 2017

Control of gene editing by manipulation of DNA repair mechanisms.
Danner, E. and Bashir, S. and Yumlu, S. and Wurst, W. and Wefers, B. and Kühn, R.
Mammalian Genome 28 (7-8): 262-274. August 2017

Untargeted metabolomic analysis and pathway discovery in perinatal asphyxia and hypoxic-ischaemic encephalopathy.
Denihan, N.M. and Kirwan, J.A. and Walsh, B.H. and Dunn, W.B. and Broadhurst, D.I. and Boylan, G.B. and Murray, D.M.
Journal of Cerebral Blood Flow and Metabolism 25 August 2017 (In Press)

Claudin peptidomimetics modulate tissue barriers for enhanced drug delivery.
Dithmer, S. and Staat, C. and Müller, C. and Ku, M.C. and Pohlmann, A. and Niendorf, T. and Gehne, N. and Fallier-Becker, P. and Kittel, Á. and Walter, F.R. and Veszelka, S. and Deli, M.A. and Blasig, R. and Haseloff, R.F. and Blasig, I.E. and Winkler, L.
Annals of the New York Academy of Sciences 1397 (1): 169-184. June 2017

Protein Interaction Screen on Peptide Matrix (PRISMA) reveals interaction footprints and the PTM-dependent interactome of intrinsically disordered C/EBPβ.
Dittmar, G. and Perez-Hernandez, D. and Kowenz-Leutz, E. and Kirchner, M. and Kahlert, G. and Wesolowski, R. and Baum, K. and Knoblich, M. and Muller, A. and Wolf, J. and Reimer, U. and Leutz, A.
bioRxiv : 238709. 22 December 2017

Drug resistance mechanisms in colorectal cancer dissected with cell type-specific dynamic logic models.
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Proton electrochemical gradient: driving and regulating neurotransmitter uptake.
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Imaging activity-dependent signaling dynamics at the neuronal synapse using FRET-based biosensors.
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RNA polymerase II primes Polycomb-repressed developmental genes throughout terminal neuronal differentiation.
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Molecular Systems Biology 13 (10): 946. 16 October 2017

Transmembrane helix connectivity in Orai1 controls two gates for calcium-dependent transcription.
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Tissue optical properties from spatially resolved reflectance: calibration and in vivo application on rat kidney.
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Reliable determination of tissue optical properties from spatially resolved reflectance.
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The RNA workbench: best practices for RNA and high-throughput sequencing bioinformatics in Galaxy.
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Protective function of ahnak1 in vascular healing after wire injury.
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Open source 3D multipurpose measurement system with submillimetre fidelity and first application in magnetic resonance.
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Scientific Reports 7 (1): 13452. 18 October 2017

RNA-seq based transcriptome analysis of the type I interferon host response upon vaccinia virus infection of mouse cells.
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Regulated membrane remodeling by Mic60 controls formation of mitochondrial crista junctions.
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Nature Communications 8 : 15258. 31 May 2017

Proteogenomic integration reveals therapeutic targets in breast cancer xenografts.
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Myocardial effective transverse relaxation time T(2)* correlates with left ventricular wall thickness: a 7.0 T MRI study.
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Magnetic Resonance in Medicine 77 (6): 2381-2389. June 2017

Myocardial T(2)* mapping with ultrahigh field magnetic resonance: physics and frontier applications.
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Frontiers in Physics 5 : 22. June 2017

Tumour ischaemia by interferon-γ resembles physiological blood vessel regression.
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Nature 545 (7652): 98-102. 4 May 2017

A comprehensive TALEN-based knockout library for generating human induced pluripotent stem cell-based models for cardiovascular diseases.
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Circulation Research 120 (10): 1561-1571. 12 May 2017

FACT sets a barrier for cell fate reprogramming in C. elegans and human.
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bioRxiv : 185116. 6 September 2017

Purification and characterisation of the yeast plasma membrane ATP binding cassette transporter Pdr11p.
Laub, K.R. and Marek, M. and Stanchev, L.D. and Herrera, S.A. and Kanashova, T. and Bourmaud, A. and Dittmar, G. and Guenther Pomorski, T.
PLoS ONE 12 (9): e0184236. 18 September 2017

Fusion of SpCas9 to E.coli Rec A protein enhances CRISPR-Cas9 mediated gene knockout in mammalian cells.
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Journal of Biotechnology 247 : 42-49. 10 April 2017

Selective transport of neurotransmitters and modulators by distinct volume-regulated LRRC8 anion channels.
Lutter, D. and Ullrich, F. and Lueck, J.C. and Kempa, S. and Jentsch, T.J.
Journal of Cell Science 130 (6): 1122-1133. 15 March 2017

DNA copy number changes define spatial patterns of heterogeneity in colorectal cancer.
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Nature Communications 8 : 14093. 25 January 2017

Quantitative proteomic analysis of Parkin substrates in Drosophila neurons.
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Molecular Neurodegeneration 12 (1): 29. 11 April 2017

Maternal immune activation results in complex microglial transcriptome signature in the adult offspring that is reversed by minocycline treatment.
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Translational Psychiatry 7 (5): e1120. 9 May 2017

An integrative framework reveals signaling-to-transcription events in toll-like receptor signaling.
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HLA-MA: simple yet powerful matching of samples using HLA typing results.
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Degrons in cancer.
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Science Signaling 10 (470): eaak9982. 14 March 2017

Mutations in disordered regions cause disease by creating endocytosis motifs.
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bioRxiv : 141622. 24 May 2017

Application of europium-doped very small iron oxide nanoparticles to visualize neuroinflammation with MRI and fluorescence microscopy.
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Neuroscience 19 December 2017 (In Press)

Identification of the elementary structural units of the DNA damage response.
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Nature Communications 8 : 15760. 12 June 2017

Radiative RF antenna arrays for cardiac, brain and thermal magnetic resonance at ultrahigh and extreme magnetic field strengths: Concepts, electromagnetic field simulations and applications.
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Low-field cardiac magnetic resonance imaging a compelling case for cardiac magnetic resonance's future response.
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Circulation Cardiovascular Imaging 10 (6): e005446 (7). 13 June 2017

High field cardiac magnetic resonance imaging: a case for ultrahigh field cardiac magnetic resonance.
Niendorf, T. and Schulz-Menger, J. and Paul, K. and Huelnhagen, T. and Ferrari, V.A. and Hodge, R.
Circulation Cardiovascular Imaging 10 (6): e005460. June 2017

Magnetic resonance safety and compatibility of tantalum markers used in proton beam therapy for intraocular tumors: a 7.0 Tesla study.
Oberacker, E. and Paul, K. and Huelnhagen, T. and Oezerdem, C. and Winter, L. and Pohlmann, A. and Boehmert, L. and Stachs, O. and Heufelder, J. and Weber, A. and Rehak, M. and Seibel, I. and Niendorf, T.
Magnetic Resonance in Medicine 78 (4): 1533-1546. October 2017

Rapid eradication of colon carcinoma by Clostridium perfringens Enterotoxin suicidal gene therapy.
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BMC Cancer 17 (1): 129. 13 February 2017

Translation of circRNAs.
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Molecular Cell 66 (1): 9-21. 6 April 2017

Fructose-driven glycolysis supports anoxia resistance in the naked mole-rat.
Park, T.J. and Reznick, J. and Peterson, B.L. and Blass, G. and Omerbašić, D. and Bennett, N.C. and Kuich, P.H.J.L. and Zasada, C. and Browe, B.M. and Hamann, W. and Applegate, D.T. and Radke, M.H. and Kosten, T. and Lutermann, H. and Gavaghan, V. and Eigenbrod, O. and Bégay, V. and Amoroso, V. G. and Govind, V. and Minshall, R.D. and Smith, E.S.J. and Larson, J. and Gotthardt, M. and Kempa, S. and Lewin, G.R.
Science 356 (6335): 307-311. 21 April 2017

Polylox barcoding reveals haematopoietic stem cell fates realized in vivo.
Pei, W. and Feyerabend, T.B. and Rössler, J. and Wang, X. and Postrach, D. and Busch, K. and Rode, I. and Klapproth, K. and Dietlein, N. and Quedenau, C. and Chen, W. and Sauer, S. and Wolf, S. and Höfer, T. and Rodewald, H.Re.
Nature 548 (7668): 456-460. 24 August 2017

The cell adhesion molecule BT-IgSF is essential for a functional blood-testis barrier and male fertility in mice.
Pelz, L. and Purfürst, B. and Rathjen, F.G.
Journal of Biological Chemistry 292 (52): 21490-21503. 29 December 2017

Loss of a mammalian circular RNA locus causes miRNA deregulation and affects brain function.
Piwecka, M. and Glažar, P. and Hernandez-Miranda, L.R. and Memczak, S. and Wolf, S.A. and Rybak-Wolf, A. and Filipchyk, A. and Klironomos, F. and Cerda Jara, C.A. and Fenske, P. and Trimbuch, T. and Zywitza, V. and Plass, M. and Schreyer, L. and Ayoub, S. and Kocks, C. and Kühn, R. and Rosenmund, C. and Birchmeier, C. and Rajewsky, N.
Science 357 (6357): eaam8526. 22 September 2017

Experimental MRI monitoring of renal blood volume fraction variations en route to renal magnetic resonance oximetry.
Pohlmann, A. and Cantow, K. and Huelnhagen, T. and Grosenick, D. and dos Santos Periquito, J. and Boehmert, L. and Gladytz, T. and Waiczies, S. and Flemming, B. and Seeliger, E. and Niendorf, T.
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De novo mutations implicate novel genes with burden of rare variants in systemic lupus erythematosus.
Pullabhatla, V. and Roberts, A.L. and Lewis, M.J. and Mauro, D. and Morris, D.L. and Odhams, C.A. and Tombleson, P. and Liljedahld, U. and Vyse, S. and Simpson, M.A. and Sauer, S. and de Rinaldis, E. and Syvaenen, A.C. and Vyse, T.J.
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Tissue specific labeling in proteomics.
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Proteomes 5 (3): E17. 18 July 2017

Regulation of body weight and energy homeostasis by neuronal cell adhesion molecule 1.
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Nature Neuroscience 20 (8): 1096-1103. August 2017

Initiation of acute graft-versus-host disease by angiogenesis.
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netSmooth: Network-smoothing based imputation for single cell RNA-seq.
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bioRxiv : 234021. 13 December 2017

The answer's in the tail: MYC mRNA has a metabolic sensor that supports cancer chemoresistance.
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Health-beneficial nutraceuticals - myth or reality?
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Applied Microbiology and Biotechnology 101 (3): 951-961. February 2017

A new fate mapping system reveals context-dependent random or clonal expansion of microglia.
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Nature Neuroscience 20 (6): 793-803. June 2017

Probing the lithium-response pathway in hiPSCs implicates the phosphoregulatory set-point for a cytoskeletal modulator in bipolar pathogenesis.
Tobe, B.T.D. and Crain, A.M. and Winquist, A.M. and Calabrese, B. and Makihara, H. and Zhao, W.N. and Lalonde, J. and Nakamura, H. and Konopaske, G. and Sidor, M. and Pernia, C.D. and Yamashita, N. and Wada, M. and Inoue, Y. and Nakamura, F. and Sheridan, S.D. and Logan, R.W. and Brandel, M. and Wu, D. and Hunsberger, J. and Dorsett, L. and Duerr, C. and Basa, R.C.B. and McCarthy, M.J. and Udeshi, N.D. and Mertins, P. and Carr, S.A. and Rouleau, G.A. and Mastrangelo, L. and Li, J. and Gutierrez, G.J. and Brill, L.M. and Venizelos, N. and Chen, G. and Nye, J.S. and Manji, H. and Price, J.H. and McClung, C.A. and Akiskal, H.S. and Alda, M. and Chuang, D.M.M. and Coyle, J.T. and Liu, Y. and Teng, Y.D. and Ohshima, T. and Mikoshiba, K. and Sidman, R.L. and Halpain, S. and Haggarty, S.J. and Goshima, Y. and Snyder, E.Y.
Proceedings of the National Academy of Sciences of the United States of America 114 (22): E4462-E4471. 30 May 2017

Receptor tyrosine kinase activation of RhoA is mediated by AKT phosphorylation of DLC1.
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Journal of Cell Biology 216 (12): 4255. 4 December 2017

RCAS: an RNA centric annotation system for transcriptome-wide regions of interest.
Uyar, B. and Yusuf, D. and Wurmus, R. and Rajewsky, N. and Ohler, U. and Akalin, A.
Nucleic Acids Research 45 (10): e91. 2 June 2017

The B-cell receptor controls fitness of MYC-driven lymphoma cells via GSK3β inhibition.
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Nature 546 (7657): 302-306. 8 June 2017

A multi-step transcriptional and chromatin state cascade underlies motor neuron programming from embryonic stem cells.
Velasco, S. and Ibrahim, M.M. and Kakumanu, A. and Garipler, G. and Aydin, B. and Al-Sayegh, M.A. and Hirsekorn, A. and Abdul-Rahman, F. and Satija, R. and Ohler, U. and Mahony, S. and Mazzoni, E.O.
Cell Stem Cell 20 (2): 205-217. 2 February 2017

Enhanced fluorine-19 MRI sensitivity using a cryogenic radiofrequency probe: technical developments and ex vivo demonstration in a mouse model of neuroinflammation.
Waiczies, S. and Millward, J.M. and Starke, L. and Delgado, P.R. and Huelnhagen, T. and Prinz, C. and Marek, D. and Wecker, D. and Wissmann, R. and Koch, S.P. and Boehm-Sturm, P. and Waiczies, H. and Niendorf, T. and Pohlmann, A.
Scientific Reports 7 (1): 9808. 29 August 2017

Labeling of cell therapies: How can we get it right?
Waiczies, S. and Niendorf, T. and Lombardi, G.
OncoImmunology 6 (10): e1345403. 20 July 2017

Proteome profiling outperforms transcriptome profiling for coexpression based gene function prediction.
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Gene editing in mouse zygotes using the CRISPR/Cas9 system.
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Salt-responsive gut commensal modulates T(H)17 axis and disease.
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Nature 551 (7682): 585-589. 30 November 2017

HOT or not: Examining the basis of high-occupancy target regions.
Wreczycka, K. and Franke, V. and Uyar, B. and Wurmus, R. and Akalin, A.
bioRxiv : 107680. 31 July 2017

Strategies for analyzing bisulfite sequencing data.
Wreczycka, K. and Gosdschan, A. and Yusuf, D. and Gruening, B. and Assenov, Y. and Akalin, A.
bioRxiv : 109512. 9 August 2017

Strategies for analyzing bisulfite sequencing data.
Wreczycka, K. and Gosdschan, A. and Yusuf, D. and Grüning, B. and Assenov, Y. and Akalin, A.
Journal of Biotechnology 261 : 105-115. 10 November 2017

Widespread activation of antisense transcription of the host genome during herpes simplex virus 1 infection.
Wyler, E. and Menegatti, J. and Franke, V. and Kocks, C. and Boltengagen, A. and Hennig, T. and Theil, K. and Rutkowski, A. and Ferrai, C. and Baer, L. and Kermas, L. and Friedel, C. and Rajewsky, N. and Akalin, A. and Dölken, L. and Grässer, F. and Landthaler, M.
Genome Biology 18 (1): 209. 31 October 2017

Myeloid-derived suppressor cells promote B-cell production of IgA in a TNFR2-dependent manner.
Xu, X. and Meng, Q. and Erben, U. and Wang, P. and Glauben, R. and Kuehl, A.A. and Wu, H. and Ma, C.W. and Hu, M. and Wang, Y. and Sun, W. and Jia, J. and Wu, X. and Chen, W. and Siegmund, B. and Qin, Z.
Cellular and Molecular Immunology 14 (7): 597-606. July 2017

RNA localization is a key determinant of neurite-enriched proteome.
Zappulo, A. and van den Bruck, D. and Ciolli Mattioli, C. and Franke, V. and Imami, K. and McShane, E. and Moreno-Estelles, M. and Calviello, L. and Filipchyk, A. and Peguero-Sanchez, E. and Müller, T. and Woehler, A. and Birchmeier, C. and Merino, E. and Rajewsky, N. and Ohler, U. and Mazzoni, E.O. and Selbach, M. and Akalin, A. and Chekulaeva, M.
Nature Communications 8 (1): 583. 19 September 2017

Guidelines on severity assessment and classification of genetically altered mouse and rat lines.
Zintzsch, A. and Noe, E. and Reissmann, M. and Ullmann, K. and Kraemer, S. and Jerchow, B. and Kluge, R. and Goesele, C. and Nickles, H. and Puppe, A. and Ruelicke, T.
Laboratory Animals 51 (6): 573-582. 1 December 2017

Synthesis of europium-doped VSOP, customized enhancer solution and improved microscopy fluorescence methodology for unambiguous histological detection.
de Schellenberger, A.A. and Hauptmann, R. and Millward, J.M. and Schellenberger, E. and Kobayashi, Y. and Taupitz, M. and Infante-Duarte, C. and Schnorr, J. and Wagner, S.
Journal of Nanobiotechnology 15 (1): 71. 10 October 2017

2016

The SIB Swiss Institute of Bioinformatics' resources: focus on curated databases.

Nucleic Acids Research 44 (D1): D27-D37. 4 January 2016

Proteomic techniques to probe the ubiquitin landscape.
Beaudette, P. and Popp, O. and Dittmar, G.
Proteomics 16 (2): 273-287. January 2016

Metabolomics enables precision medicine: "A White Paper, Community Perspective".
Beger, R.D. and Dunn, W. and Schmidt, M.A. and Gross, S.S. and Kirwan, J.A. and Cascante, M. and Brennan, L. and Wishart, D.S. and Oresic, M. and Hankemeier, T. and Broadhurst, D.I. and Lane, A.N. and Suhre, K. and Kastenmüller, G. and Sumner, S.J. and Thiele, I. and Fiehn, O. and Kaddurah-Daouk, R.
Metabolomics 12 (9): 149. September 2016

Proteomics quality control : a quality control software for MaxQuant results.
Bielow, C. and Mastrobuoni, G. and Kempa, S.
Journal of Proteome Research 15 (3): 777-787. 4 March 2016

Widespread inflammation in CLIPPERS syndrome indicated by autopsy and ultra-high-field 7T MRI.
Blaabjerg, M. and Ruprecht, K. and Sinnecker, T. and Kondziella, D. and Niendorf, T. and Kerrn-Jespersen, B.M. and Lindelof, M. and Lassmann, H. and Kristensen, B.W. and Paul, F. and Illes, Z.
Neurology Neuroimmunology & Neuroinflammation 3 (3): e226. June 2016

ANP system activity predicts variability of fat mass reduction and insulin sensitivity during weight loss.
Brachs, M. and Wiegand, S. and Leupelt, V. and Ernert, A. and Kintscher, U. and Jumpertz von Schwarzenberg, R. and Decker, A.M. and Bobbert, T. and Hübner, N. and Chen, W. and Krude, H. and Spranger, J. and Mai, K.
Metabolism 65 (6): 935-943. June 2016

Circular RNAs in brain and other tissues: a functional enigma.
Chen, W. and Schuman, E.
Trends in Neurosciences 39 (9): 597-604. September 2016

Efficient CRISPR-mediated mutagenesis in primary immune cells using CrispRGold and a C57BL/6 Cas9 transgenic mouse line.
Chu, V.T. and Graf, R. and Wirtz, T. and Weber, T. and Favret, J. and Li, X. and Petsch, K. and Tran, N.T. and Sieweke, M.H. and Berek, C. and Kühn, R. and Rajewsky, K.
Proceedings of the National Academy of Sciences of the United States of America 113 (44): 12514-12519. 1 November 2016

Efficient generation of Rosa26 knock-in mice using CRISPR/Cas9 in C57BL/6 zygotes.
Chu, V.T. and Weber, T. and Graf, R. and Sommermann, T. and Petsch, K. and Sack, U. and Volchkov, P. and Rajewsky, K. and Kühn, R.
BMC Biotechnology 16 (1): 4. 16 January 2016

Serial interactome capture of the human cell nucleus.
Conrad, T. and Albrecht, A.-S. and Rodrigues de Melo Costa, V. and Sauer, S. and Meierhofer, D. and Ørom, U.A.
Nature Communications 7 : 11212. 4 April 2016

Bimodal antagonism of PKA signalling by ARHGAP36.
Eccles, R.L. and Czajkowski, M.T. and Barth, C. and Müller, P.M. and McShane, E. and Grunwald, S. and Beaudette, P. and Mecklenburg, N. and Volkmer, R. and Zühlke, K. and Dittmar, G. and Selbach, M. and Hammes, A. and Daumke, O. and Klussmann, E. and Urbé, S. and Rocks, O.
Nature Communications 7 : 12963. 7 October 2016

Characterization of a single genomic locus encoding the clustered protocadherin receptor diversity in Xenopus tropicalis.
Etlioglu, H.E. and Sun, W. and Huang, Z. and Chen, W. and Schmucker, D.
G3 : Genes Genomes Genetics 6 (8): 2309-2318. 1 August 2016

Single-vesicle imaging reveals different transport mechanisms between glutamatergic and GABAergic vesicles.
Farsi, Z. and Preobraschenski, J. and van den Bogaart, G. and Riedel, D. and Jahn, R. and Woehler, A.
Science 351 (6276): 981-984. 26 February 2016

Advanced light microscopy core facilities: Balancing service, science and career.
Ferrando-May, E. and Hartmann, H. and Reymann, J. and Ansari, N. and Utz, N. and Fried, H.U. and Kukat, C. and Peychl, J. and Liebig, C. and Terjung, S. and Laketa, V. and Sporbert, A. and Weidtkamp-Peters, S. and Schauss, A. and Zuschratter, W. and Avilov, S.
Microscopy Research and Technique 79 (6): 463-479. June 2016

Effects of RAF inhibitors on PI3K/AKT signalling depend on mutational status of the RAS/RAF signalling axis.
Fritsche-Guenther, R. and Witzel, F. and Kempa, S. and Brummer, T. and Sers, C. and Blüthgen, N.
Oncotarget 7 (7): 7960-7969. 20 January 2016

Genome-wide profiling reveals remarkable parallels between insertion site selection properties of the MLV retrovirus and the piggyBac transposon in primary human CD4(+) T cells.
Gogol-Döring, A. and Ammar, I. and Gupta, S. and Bunse, M. and Miskey, C. and Chen, W. and Uckert, W. and Schulz, T.F. and Izsvák, Z. and Ivics, Z.
Molecular Therapy 24 (3): 592-606. March 2016

Comparative DNA methylation and gene expression analysis identifies novel genes for structural congenital heart diseases.
Grunert, M. and Dorn, C. and Cui, H. and Dunkel, I. and Schulz, K. and Schoenhals, S. and Sun, W. and Berger, F. and Chen, W. and Sperling, S.R.
Cardiovascular Research 112 (1): 464-477. 1 October 2016

Mass spectrometry based metabolomics comparison of liver grafts from donors after circulatory death (DCD) and donors after brain death (DBD) used in human orthotopic liver transplantation.
Hrydziuszko, O. and Perera, M.T.P.R. and Laing, R. and Kirwan, J. and Silva, M.A. and Richards, D.A. and Murphy, N. and Mirza, D.F. and Viant, M.R.
PLoS ONE 11 (11): e0165884. 11 November 2016

X-exome sequencing of 405 unresolved families identifies seven novel intellectual disability genes.
Hu, H. and Haas, S.A. and Chelly, J. and Van Esch, H. and Raynaud, M. and de Brouwer, A.P.M. and Weinert, S. and Froyen, G. and Frints, S.G.M. and Laumonnier, F. and Zemojtel, T. and Love, M.I. and Richard, H. and Emde, A.K. and Bienek, M. and Jensen, C. and Hambrock, M. and Fischer, U. and Langnick, C. and Feldkamp, M. and Wissink-Lindhout, W. and Lebrun, N. and Castelnau, L. and Rucci, J. and Montjean, R. and Dorseuil, O. and Billuart, P. and Stuhlmann, T. and Shaw, M. and Corbett, M.A. and Gardner, A. and Willis-Owen, S. and Tan, C. and Friend, K.L. and Belet, S. and van Roozendaal, K.E.P. and Jimenez-Pocquet, M. and Moizard, M.P. and Ronce, N. and Sun, R. and O'Keeffe, S. and Chenna, R. and van Bömmel, A. and Goeke, J. and Hackett, A. and Field, M. and Christie, L. and Boyle, J. and Haan, E. and Nelson, J. and Turner, G. and Baynam, G. and Gillessen-Kaesbach, G. and Mueller, U. and Steinberger, D. and Budny, B. and Badura-Stronka, M. and Latos-Bieleńska, A. and Ousager, L.B. and Wieacker, P. and Rodríguez Criado, G. and Bondeson, M.L. and Annerén, G. and Dufke, A. and Cohen, M. and Van Maldergem, L. and Vincent-Delorme, C. and Echenne, B. and Simon-Bouy, B. and Kleefstra, T. and Willemsen, M. and Fryns, J.P. and Devriendt, K. and Ullmann, R. and Vingron, M. and Wrogemann, K. and Wienker, T.F. and Tzschach, A. and van Bokhoven, H. and Gecz, J. and Jentsch, T.J. and Chen, W. and Ropers, H.H. and Kalscheuer, V.M.
Molecular Psychiatry 21 (1): 133-148. January 2016

Activation of peroxisome proliferator-activated receptor-δ as novel therapeutic strategy to prevent in-stent restenosis and stent thrombosis.
Hytönen, J. and Leppänen, O. and Braesen, J.H. and Schunck, W.H. and Mueller, D. and Jung, F. and Mrowietz, C. and Jastroch, M. and von Bergwelt-Baildon, M. and Kappert, K. and Heuser, A. and Drenckhahn, J.D. and Pieske, B. and Thierfelder, L. and Ylä-Herttuala, S. and Blaschke, F.
Arteriosclerosis Thrombosis and Vascular Biology 36 (8): 1534-1548. August 2016

Data integration for identification of important transcription factors of STAT6-mediated cell fate decisions.
Jargosch, M. and Kroeger, S. and Gralinska, E. and Klotz, U. and Fang, Z. and Chen, W. and Leser, U. and Selbig, J. and Groth, D. and Baumgrass, R.
Genetics and Molecular Research 15 (2): gmr.15028493. 24 June 2016

Genome wide conditional mouse knockout resources.
Kaloff, C. and Anastassiadis, K. and Ayadi, A. and Baldock, R. and Beig, J. and Birling, M.C. and Bradley, A. and Brown, S.D.M. and Buerger, A. and Bushell, W. and Chiani, F. and Collins, F.S. and Doe, B. and Eppig, J.T. and Finnell, R.H. and Fletcher, C. and Flicek, P. and Fray, M. and Friedel, R.H. and Gambadoro, A. and Gates, H. and Hansen, J. and Herault, Y. and Hicks, G.G. and Hoerlein, A. and Hrabe de Angelis, M. and Iyer, V. and de Jong, P.J. and Koscielny, G. and Kuehn, R. and Liu, P. and Lloyd, K.C.K and Lopez, R.G. and Marschall, S. and Martinez, S. and McKerlie, C. and Meehan, T. and von Melchner, H. and Moore, M. and Murray, S.A. and Nagy, A. and Nutter, L.M.J. and Pavlovic, G. and Pombero, A. and Prosser, H. and Ramirez-Solis, R. and Ringwald, M. and Rosen, B. and Rosenthal, N. and Rossant, J. and Ruiz Noppinger, P. and Ryder, E. and Skarnes, W.C. and Schick, J. and Schnuetgen, F. and Schofield, P. and Seisenberger, C. and Selloum, M. and Smedley, D. and Simpson, E.M. and Stewart, A.F. and Teboul, L. and Tocchini Valentini, G.P. and Valenzuela, D. and West, A.P. and Wurst, W.
Drug Discovery Today: Disease Models 20 : 3-12. 2016

SPIRE, a modular pipeline for eQTL analysis of RNA-Seq data, reveals a regulatory hotspot controlling miRNA expression in C. elegans.
Kel, I. and Chang, Z. and Galluccio, N. and Romeo, M. and Beretta, S. and Diomede, L. and Mezzelani, A. and Milanesi, L. and Dieterich, C. and Merelli, I.
Molecular BioSystems 12 (11): 3447-3458. 1 November 2016

reChIP-seq reveals widespread bivalency of H3K4me3 and H3K27me3 in CD4(+) memory T cells.
Kinkley, S. and Helmuth, J. and Polansky, J.K. and Dunkel, I. and Gasparoni, G. and Froehler, S. and Chen, W. and Walter, J. and Hamann, A. and Chung, H.R.
Nature Communications 7 : 12514. 17 August 2016

Genetic causes of MCPH in consanguineous Pakistani families.
Kraemer, N. and Picker-Minh, S. and Abbasi, A.A. and Froehler, S. and Ninnemann, O. and Khan, M.N. and Ali, G. and Chen, W. and Kaindl, A.M.
Clinical Genetics 89 (6): 744-745. June 2016

Bi-allelic truncating mutations in TANGO2 cause infancy-onset recurrent metabolic crises with encephalocardiomyopathy.
Kremer, L.S. and Distelmaier, F. and Alhaddad, B. and Hempel, M. and Iuso, A. and Küpper, C. and Mühlhausen, C. and Kovacs-Nagy, R. and Satanovskij, R. and Graf, E. and Berutti, R. and Eckstein, G. and Durbin, R. and Sauer, S. and Hoffmann, G.F. and Strom, T.M. and Santer, R. and Meitinger, T. and Klopstock, T. and Prokisch, H. and Haack, T.B.
American Journal of Human Genetics 98 (2): 358-362. 4 February 2016

ERK1 as a therapeutic target for dendritic cell vaccination against high-grade gliomas.
Ku, M.C. and Edes, I. and Bendix, I. and Pohlmann, A. and Waiczies, H. and Prozorovski, T. and Günther, M. and Martin, C. and Pagès, G. and Wolf, S.A. and Kettenmann, H. and Uckert, W. and Niendorf, T. and Waiczies, S.
Molecular Cancer Therapeutics 15 (8): 1975-1987. August 2016

TALENs : Methods and Protocols.
Kuehn, R. and Wurst, W. and Wefers, B.
Methods in Molecular Biology, 1338 . Springer, New York. ISBN 978-1-4939-2931-3 2016

Generation of functional cardiomyocytes from the synoviocytes of patients with rheumatoid arthritis via induced pluripotent stem cells.
Lee, J. and Jung, S.M. and Ebert, A.D. and Wu, H. and Diecke, S. and Kim, Y. and Yi, H. and Park, S.H. and Ju, J.H.
Scientific Reports 6 : 32669. 9 September 2016

Epigenetic profiling in CD4+ and CD8+ T cells from Graves' disease patients reveals changes in genes associated with T cell receptor signaling.
Limbach, M. and Saare, M. and Tserel, L. and Kisand, K. and Eglit, T. and Sauer, S. and Axelsson, T. and Syvänen, A.C. and Metspalu, A. and Milani, L. and Peterson, P.
Journal of Autoimmunity 67 : 46-56. February 2016

Muscle RING-finger 2 and 3 maintain striated-muscle structure and function.
Lodka, D. and Pahuja, A. and Geers-Knörr, C. and Scheibe, R. and Nowak, M. and Hamati, J. and Köhncke, C. and Purfürst, B. and Kanashova, T. and Schmidt, S. and Glass, D.J. and Morano, I. and Heuser, A. and Kraft, T. and Bassel-Duby, R. and Olson, E.N. and Dittmar, G. and Sommer, T. and Fielitz, J.
Journal of Cachexia Sarcopenia and Muscle 7 (2): 165-180. May 2016

Identification of novel genetic causes of Rett syndrome-like phenotypes.
Lopes, F. and Barbosa, M. and Ameur, A. and Soares, G. and de Sá, J. and Dias, A.I. and Oliveira, G. and Cabral, P. and Temudo, T. and Calado, E. and Cruz, I.F. and Vieira, J.P. and Oliveira, R. and Esteves, S. and Sauer, S. and Jonasson, I. and Syvänen, A.C. and Gyllensten, U. and Pinto, D. and Maciel, P.
Journal of Medical Genetics 53 (3): 190-199. March 2016

Efficient application of de novo RNA assemblers for proteomics informed by transcriptomics.
Luge, T. and Fischer, C. and Sauer, S.
Journal of Proteome Research 15 (10): 3938-3943. 7 October 2016

Generating sample-specific databases for mass spectrometry-based proteomic analysis by using RNA sequencing.
Luge, T. and Sauer, S.
Methods in Molecular Biology 1394 : 219-232. 2016

A novel splicing mutation in the IQSEC2 gene that modulates the phenotype severity in a family with intellectual disability.
Madrigal, I. and Alvarez-Mora, M.I. and Rosell, J. and Rodríguez-Revenga, L. and Karlberg, O. and Sauer, S. and Syvänen, A.C. and Mila, M.
European Journal of Human Genetics 24 (8): 1117-1123. August 2016

Embryonic cardiomyocytes can orchestrate various cell protective mechanisms to survive mitochondrial stress.
Magarin, M. and Pohl, T. and Lill, A. and Schulz, H. and Blaschke, F. and Heuser, A. and Thierfelder, L. and Donath, S. and Drenckhahn, J.D.
Journal of Molecular and Cellular Cardiology 97 : 1-14. August 2016

Nuclear translocation of the cardiac L-type calcium channel C-terminus is regulated by sex and 17β-estradiol.
Mahmoodzadeh, S. and Haase, H. and Sporbert, A. and Rharass, T. and Panáková, D. and Morano, I.
Journal of Molecular and Cellular Cardiology 97 : 226-234. August 2016

New technologies for DNA analysis - a review of the READNA project.
McGinn, S. and Bauer, D. and Brefort, T. and Dong, L. and El-Sagheer, A. and Elsharawy, A. and Evans, G. and Falk-Sörqvist, E. and Forster, M. and Fredriksson, S. and Freeman, P. and Freitag, C. and Fritzsche, J. and Gibson, S. and Gullberg, M. and Gut, M. and Heath, S. and Heath-Brun, I. and Heron, A.J. and Hohlbein, J. and Ke, R. and Lancaster, O. and Le Reste, L. and Maglia, G. and Marie, R. and Mauger, F. and Mertes, F. and Mignardi, M. and Moens, L. and Oostmeijer, J. and Out, R. and Pedersen, J.N. and Persson, F. and Picaud, V. and Rotem, D. and Schracke, N. and Sengenes, J. and Stähler, P.F. and Stade, B. and Stoddart, D. and Teng, X. and Veal, C.D. and Zahra, N. and Bayley, H. and Beier, M. and Brown, T. and Dekker, C. and Ekström, B. and Flyvbjerg, H. and Franke, A. and Guenther, S. and Kapanidis, A.N. and Kaye, J. and Kristensen, A. and Lehrach, H. and Mangion, J. and Sauer, S. and Schyns, E. and Tost, J. and van Helvoort, J.M.L.M. and van der Zaag, P.J. and Tegenfeldt, J.O. and Brookes, A.J. and Mir, K. and Nilsson, M. and Willcocks, J.P. and Gut, I.G.
New Biotechnology 33 (3): 311-330. 25 May 2016

Kinetic analysis of protein stability reveals age-dependent degradation.
McShane, E. and Sin, C. and Zauber, H. and Wells, J.N. and Donnelly, N. and Wang, X. and Hou, J. and Chen, W. and Storchova, Z. and Marsh, J.A. and Valleriani, A. and Selbach, M.
Cell 167 (3): 803-815. 20 October 2016

Loss of DJ-1 impairs antioxidant response by altered glutamine and serine metabolism.
Meiser, J. and Delcambre, S. and Wegner, A. and Jaeger, C. and Ghelfi, J. and D'Herouel, A.F. and Dong, X. and Weindl, D. and Stautner, C. and Nonnenmacher, Y. and Michelucci, A. and Popp, O. and Giesert, F. and Schildknecht, S. and Kraemer, L. and Schneider, J.G. and Woitalla, D. and Wurst, W. and Skupin, A. and Weisenhorn, D.M.V. and Krueger, R. and Leist, M. and Hiller, K.
Neurobiology of Disease 89 : 112-125. May 2016

Proteogenomics connects somatic mutations to signalling in breast cancer.
Mertins, P. and Mani, D.R. and Ruggles, K.V. and Gillette, M.A. and Clauser, K.R. and Wang, P. and Wang, X. and Qiao, J.W. and Cao, S. and Petralia, F. and Kawaler, E. and Mundt, F. and Krug, K. and Tu, Z. and Lei, J.T. and Gatza, M.L. and Wilkerson, M. and Perou, C.M. and Yellapantula, V. and Huang, K.L. and Lin, C. and McLellan, M.D. and Yan, P. and Davies, S.R. and Townsend, R.R. and Skates, S.J. and Wang, J. and Zhang, B. and Kinsinger, C.R. and Mesri, M. and Rodriguez, H. and Ding, L. and Paulovich, A.G. and Fenyoe, D. and Ellis, M.J. and Carr, S.A.
Nature 534 (7605): 55-62. 2 June 2016

HLA-MA: Simple yet powerful matching of samples using HLA typing results.
Messerschmidt, C. and Holtgrewe, M. and Beule, D.
bioRxiv : 066548. 24 August 2016

ANGIOGENES: knowledge database for protein-coding and noncoding RNA genes in endothelial cells.
Mueller, R. and Weirick, T. and John, D. and Militello, G. and Chen, W. and Dimmeler, S. and Uchida, S.
Scientific Reports 6 : 32475. 1 September 2016

Cardiomyocyte-derived CXCL12 is not involved in cardiogenesis but plays a crucial role in myocardial infarction.
Mühlstedt, S. and Ghadge, S.K. and Duchene, J. and Qadri, F. and Järve, A. and Vilianovich, L. and Popova, E. and Pohlmann, A. and Niendorf, T. and Boyé, P. and Özcelik, C. and Bader, M.
Journal of Molecular Medicine 94 (9): 1005-1014. September 2016

Dissecting the effect of genetic variation on the hepatic expression of drug disposition genes across the collaborative cross mouse strains.
Nachshon, A. and Abu-Toamih Atamni, H.J. and Steuerman, Y. and Sheikh-Hamed, R. and Dorman, A. and Mott, R. and Dohm, J.C. and Lehrach, H. and Sultan, M. and Shamir, R. and Sauer, S. and Himmelbauer, H. and Iraqi, F.A. and Gat-Viks, I.
Frontiers in Genetics 7 : 172. 5 October 2016

IFNs modify the proteome of Legionella-containing vacuoles and restrict infection via IRG1-derived itaconic acid.
Naujoks, J. and Tabeling, C. and Dill, B.D. and Hoffmann, C. and Brown, A.S. and Kunze, M. and Kempa, S. and Peter, A. and Mollenkopf, H.J. and Dorhoi, A. and Kershaw, O. and Gruber, A.D. and Sander, L.E. and Witzenrath, M. and Herold, S. and Nerlich, A. and Hocke, A.C. and van Driel, I. and Suttorp, N. and Bedoui, S. and Hilbi, H. and Trost, M. and Opitz, B.
PLoS Pathogens 12 (2): e1005408. 1 February 2016

From ultrahigh to extreme field magnetic resonance: where physics, biology and medicine meet.
Niendorf, T. and Barth, M. and Kober, F. and Trattnig, S.
Magnetic Resonance Materials in Physics Biology and Medicine 29 (3): 309-311. June 2016

What do BOLD MR imaging changes in donors' remaining kidneys tell us?
Niendorf, T. and Flemming, B. and Evans, R.G. and Seeliger, E.
Radiology 281 (2): 653-655. November 2016

Organ siderosis and hemophagocytosis during acute graft-versus-host disease.
Nogai, A. and Shi, Y. and Perez-Hernandez, D. and Cordes, S. and Mengwasser, J. and Mertlitz, S. and Riesner, K. and Kalupa, M. and Erdmann, J.H. and Ziebig, R. and Dittmar, G. and Penack, O.
Haematologica 101 (8): e344-e346. August 2016

Imprinting of skin/inflammation homing in CD4+ T cells is controlled by DNA methylation within the fucosyltransferase 7 gene.
Pink, M. and Ratsch, B.A. and Mardahl, M. and Durek, P. and Polansky, J.K. and Karl, M. and Baumgrass, R. and Wallner, S. and Cadenas, C. and Gianmoena, K. and Floess, S. and Chen, W. and Nordstroem, K. and Tierling, S. and Olek, S. and Walter, J. and Hamann, A. and Syrbe, U.
Journal of Immunology 197 (8): 3406-3414. 15 October 2016

Data of oxygen- and pH-dependent oxidation of resveratrol.
Plauth, A. and Geikowski, A. and Cichon, S. and Wowro, S.J. and Liedgens, L. and Rousseau, M. and Weidner, C. and Fuhr, L. and Kliem, M. and Jenkins, G. and Lotito, S. and Wainwright, L.J. and Sauer, S.
Data in Brief 9 : 433-437. December 2016

Hormetic shifting of redox environment by pro-oxidative resveratrol protects cells against stress.
Plauth, A. and Geikowski, A. and Cichon, S. and Wowro, S.J. and Liedgens, L. and Rousseau, M. and Weidner, C. and Fuhr, L. and Kliem, M. and Jenkins, G. and Lotito, S. and Wainwright, L.J. and Sauer, S.
Free Radical Biology and Medicine 99 : 608-622. October 2016

Hormetic shifting of redox environment by pro-oxidative resveratrol protects cells against stress.
Plauth, A. and Geikowski, A. and Cichon, S. and Wowro, S.J. and Liedgens, L. and Rousseau, M. and Weidner, C. and Fuhr, L. and Kliem, M. and Jenkins, G. and Lotito, S. and Wainwright, L.J. and Sauer, S.
bioRxiv : 045567. 24 March 2016

CD74-downregulation of placental macrophage-trophoblastic interactions in preeclampsia.
Przybyl, L. and Haase, N. and Golic, M. and Rugor, J. and Solano, M.E. and Arck, P.C. and Gauster, M. and Huppertz, B. and Emontzpohl, C. and Stoppe, C. and Bernhagen, J. and Leng, L. and Bucala, R. and Schulz, H. and Heuser, A. and Weedon-Fekjær, S. and Johnsen, G.M. and Peetz, D. and Luft, F.C. and Staff, A.C. and Müller, D.N. and Dechend, R. and Herse, F.
Circulation Research 119 (1): 55-68. 24 June 2016

Normothermic mouse functional MRI of acute focal thermostimulation for probing nociception.
Reimann, H.M. and Hentschel, J. and Marek, J. and Huelnhagen, T. and Todiras, M. and Kox, S. and Waiczies, S. and Hodge, R. and Bader, M. and Pohlmann, A. and Niendorf, T.
Scientific Reports 6 : 17230. 29 January 2016

OpenMS: a flexible open-source software platform for mass spectrometry data analysis.
Roest, H.L. and Sachsenberg, T. and Aiche, S. and Bielow, C. and Weisser, H. and Aicheler, F. and Andreotti, S. and Ehrlich, H.C. and Gutenbrunner, P. and Kenar, E. and Liang, X. and Nahnsen, S. and Nilse, L. and Pfeuffer, J. and Rosenberger, G. and Rurik, M. and Schmitt, U. and Veit, J. and Walzer, M. and Wojnar, D. and Wolski, W.E. and Schilling, O. and Choudhary, J.S. and Malmstroem, L. and Aebersold, R. and Reinert, K. and Kohlbacher, O.
Nature Methods 13 (9): 741-748. September 2016

An analysis of the sensitivity of proteogenomic mapping of somatic mutations and novel splicing events in cancer.
Ruggles, K.V. and Tang, Z. and Wang, X. and Grover, H. and Askenazi, M. and Teubl, J. and Cao, S. and McLellan, M.D. and Clauser, K.R. and Tabb, D.L. and Mertins, P. and Slebos, R. and Erdmann-Gilmore, P. and Li, S. and Gunawardena, H.P. and Xie, L. and Liu, T. and Zhou, J.Y. and Sun, S. and Hoadley, K.A. and Perou, C.M. and Chen, X. and Davies, S.R. and Maher, C.A. and Kinsinger, C.R. and Rodland, K.D. and Zhang, H. and Zhang, Z. and Ding, L. and Townsend, R.R. and Rodriguez, H. and Chan, D. and Smith, R.D. and Liebler, D.C. and Carr, S.A. and Payne, S. and Ellis, M.J. and Fenyö, D.
Molecular & Cellular Proteomics 15 (3): 1060-1071. 1 March 2016

Metabolic profiling as well as stable isotope assisted metabolic and proteomic analysis of RAW 264.7 macrophages exposed to ship engine aerosol emissions: different effects of heavy fuel Oil and refined diesel fuel.
Sapcariu, S.C. and Kanashova, T. and Dilger, M. and Diabate, S. and Oeder, S. and Passig, J. and Radischat, C. and Buters, J. and Sippula, O. and Streibel, T. and Paur, H.R. and Schlager, C. and Muelhopt, S. and Stengel, B. and Rabe, R. and Harndorf, H. and Krebs, T. and Karg, E. and Groeger, T. and Weiss, C. and Dittmar, G. and Hiller, K. and Zimmermann, R.
PLoS ONE 11 (6): e0157964. 27 June 2016

Rewinding the process of mammalian extinction.
Saragusty, J. and Diecke, S. and Drukker, M. and Durrant, B. and Friedrich Ben-Nun, I. and Galli, C. and Goeritz, F. and Hayashi, K. and Hermes, R. and Holtze, S. and Johnson, S. and Lazzari, G. and Loi, P. and Loring, J.F. and Okita, K. and Renfree, M.B. and Seet, S. and Voracek, T. and Stejskal, J. and Ryder, O.A. and Hildebrandt, T.B.
Zoo Biology 35 (4): 280-292. July 2016

OCT4 acts as an integrator of pluripotency and signal-induced differentiation.
Simandi, Z. and Horvath, A. and Wright, L.C. and Cuaranta-Monroy, I. and De Luca, I. and Karolyi, K. and Sauer, S. and Deleuze, J.F. and Gudas, L.J. and Cowley, S.M. and Nagy, L.
Molecular Cell 63 (4): 647-661. 18 August 2016

MRI phase changes in multiple sclerosis vs neuromyelitis optica lesions at 7T.
Sinnecker, T. and Schumacher, S. and Mueller, K. and Pache, F. and Dusek, P. and Harms, L. and Ruprecht, K. and Nytrova, P. and Chawla, S. and Niendorf, T. and Kister, I. and Paul, F. and Ge, Y. and Wuerfel, J.
Neurology Neuroimmunology & Neuroinflammation 3 (4): e259. August 2016

Inhibition of chymotryptic-like standard proteasome activity exacerbates doxorubicin-induced cytotoxicity in primary cardiomyocytes.
Spur, E.M. and Althof, N. and Respondek, D. and Klingel, K. and Heuser, A. and Overkleeft, H.S. and Voigt, A.
Toxicology 353-354 : 34-47. 15 April 2016

Adenosine-to-inosine RNA editing controls cathepsin S expression in atherosclerosis by enabling HuR-mediated post-transcriptional regulation.
Stellos, K. and Gatsiou, A. and Stamatelopoulos, K. and Perisic Matic, L. and John, D. and Lunella, F.F. and Jae, N. and Rossbach, O. and Amrhein, C. and Sigala, F. and Boon, R.A. and Fuertig, B. and Manavski, Y. and You, X. and Uchida, S. and Keller, T. and Boeckel, J.N. and Franco-Cereceda, A. and Maegdefessel, L. and Chen, W. and Schwalbe, H. and Bindereif, A. and Eriksson, P. and Hedin, U. and Zeiher, A.M. and Dimmeler, S.
Nature Medicine 22 (10): 1140-1150. October 2016

A comprehensive RNA sequencing analysis of the adeno-associated virus (AAV) type 2 transcriptome reveals novel AAV transcripts, splice variants, and derived proteins.
Stutika, C. and Gogol-Doering, A. and Botschen, L. and Mietzsch, M. and Weger, S. and Feldkamp, M. and Chen, W. and Heilbronn, R.
Journal of Virology 90 (3): 1278-1289. February 2016

Comprehensive small RNA-Seq of adeno-associated virus (AAV)-infected human cells detects patterns of novel, non-coding AAV RNAs in the absence of cellular miRNA regulation.
Stutika, C. and Mietzsch, M. and Gogol-Doering, A. and Weger, S. and Sohn, M. and Chen, W. and Heilbronn, R.
PLoS ONE 11 (9): e0161454. 9 September 2016

Omega-3 and alpha-tocopherol provide more protection against contaminants in novel feeds for Atlantic salmon (Salmo salar L.) than omega-6 and gamma tocopherol.
Søfteland, L. and Berntssen, M.H.G. and Kirwan, J.A. and Størseth, T.R. and Viant, M.R. and Torstensen, B.E. and Waagbø, R. and Olsvik, P.A.
Toxicology Reports 3 : 211-224. 14 January 2016

Reproducibility of differential proteomic technologies in CPTAC fractionated xenografts.
Tabb, D.L. and Wang, X. and Carr, S.A. and Clauser, K.R. and Mertins, P. and Chambers, M.C. and Holman, J.D. and Wang, J. and Zhang, B. and Zimmerman, L.J. and Chen, X. and Gunawardena, H.P. and Davies, S.R. and Ellis, M.J.C. and Li, S. and Townsend, R.R. and Boja, E.S. and Ketchum, K.A. and Kinsinger, C.R. and Mesri, M. and Rodriguez, H. and Liu, T. and Kim, S. and McDermott, J.E. and Payne, S.H. and Petyuk, V.A. and Rodland, K.D. and Smith, R.D. and Yang, F. and Chan, D.W. and Zhang, B. and Zhang, H. and Zhang, Z. and Zhou, J.Y. and Liebler, D.C.
Journal of Proteome Research 15 (3): 691-706. 4 March 2016

TT2016 meeting report on the 13th Transgenic Technology meeting in Prague, Czech Republic.
Tamowski, S. and Luo, J. and Kanzler, B. and Whitelaw, B. and Crispo, M. and Doglio, L. and Jerchow, B. and Parker-Thornburg, J.
Transgenic Research 25 (4): 553-559. August 2016

Superpriming of synaptic vesicles as a common basis for intersynapse variability and modulation of synaptic strength.
Taschenberger, H. and Woehler, A. and Neher, E.
Proceedings of the National Academy of Sciences of the United States of America 113 (31): E4548-E4557. 2 August 2016

Predicting chronic copper and nickel reproductive toxicity to Daphnia pulex-pulicaria from whole-animal metabolic profiles.
Taylor, N.S. and Kirwan, J.A. and Johnson, C. and Yan, N.D. and Viant, M.R. and Gunn, J.M. and McGeer, J.C.
Environmental Pollution 212 : 325-329. May 2016

Metabolomics confirms that dissolved organic carbon mitigates copper toxicity.
Taylor, N.S. and Kirwan, J.A. and Yan, N.D. and Viant, M.R. and Gunn, J.M. and McGeer, J.C.
Environmental Toxicology and Chemistry 35 (3): 635-644. March 2016

Identification and characterization of DNA sequences that prevent glucocorticoid receptor binding to nearby response elements.
Telorac, J. and Prykhozhij, S.V. and Schöne, S. and Meierhofer, D. and Sauer, S. and Thomas-Chollier, M. and Meijsing, S.H.
Nucleic Acids Research 44 (13): 6142-6156. 27 July 2016

RNF4-dependent oncogene activation by protein stabilization.
Thomas, J.J. and Abed, M. and Heuberger, J. and Novak, R. and Zohar, Y. and Beltra-Lopez, A.P. and Trausch-Azar, J.S. and Ilagan, M.X.G. and Benhamou, D. and Dittmar, G. and Kopan, R. and Birchmeier, W. and Schwartz, A.L. and Orian, A.
Cell Reports 16 (12): 3388-3400. 20 September 2016

Deficient methylation and formylation of mt-tRNA(Met) wobble cytosine in a patient carrying mutations in NSUN3.
Van Haute, L. and Dietmann, S. and Kremer, L. and Hussain, S. and Pearce, S.F. and Powell, C.A. and Rorbach, J. and Lantaff, R. and Blanco, S. and Sauer, S. and Kotzaeridou, U. and Hoffmann, G.F. and Memari, Y. and Kolb-Kokocinski, A. and Durbin, R. and Mayr, J.A. and Frye, M. and Prokisch, H. and Minczuk, M.
Nature Communications 7 : 12039. 30 June 2016

Resolving lipid mediators maresin 1 and resolvin D2 prevent atheroprogression in mice.
Viola, J.R. and Lemnitzer, P. and Jansen, Y. and Csaba, G. and Winter, C. and Neideck, C. and Silvestre-Roig, C. and Dittmar, G. and Doering, Y. and Drechsler, M. and Weber, C. and Zimmer, R. and Cenac, N. and Soehnlein, O.
Circulation Research 119 (9): 1030-1038. 14 October 2016

The traveling heads: multicenter brain imaging at 7 Tesla.
Voelker, M.N. and Kraff, O. and Brenner, D. and Wollrab, A. and Weinberger, O. and Berger, M.C. and Robinson, S. and Bogner, W. and Wiggins, C. and Trampel, R. and Stoecker, T. and Niendorf, T. and Quick, H.H. and Norris, D.G. and Ladd, M.E. and Speck, O.
Magnetic Resonance Materials in Physics Biology and Medicine 29 (3): 399-415. June 2016

Analysis of genes involved in body weight regulation by targeted re-sequencing.
Volckmar, A.L. and Han, C.T. and Pütter, C. and Haas, S. and Vogel, C.I.G. and Knoll, N. and Struve, C. and Göbel, M. and Haas, K. and Herrfurth, N. and Jarick, I. and Grallert, H. and Schürmann, A. and Al-Hasani, H. and Hebebrand, J. and Sauer, S. and Hinney, A.
PLoS ONE 11 (2): e0147904. 1 February 2016

TTC25 deficiency results in defects of the outer dynein arm docking machinery and primary ciliary dyskinesia with left-right body asymmetry randomization.
Wallmeier, J. and Shiratori, H. and Dougherty, G.W. and Edelbusch, C. and Hjeij, R. and Loges, N.T. and Menchen, T. and Olbrich, H. and Pennekamp, P. and Raidt, J. and Werner, C. and Minegishi, K. and Shinohara, K. and Asai, Y. and Takaoka, K. and Lee, C. and Griese, M. and Memari, Y. and Durbin, R. and Kolb-Kokocinski, A. and Sauer, S. and Wallingford, J.B. and Hamada, H. and Omran, H.
American Journal of Human Genetics 99 (2): 460-469. 4 August 2016

Epigenetic dynamics of monocyte-to-macrophage differentiation.
Wallner, S. and Schroeder, C. and Leitão, E. and Berulava, T. and Haak, C. and Beißer, D. and Rahmann, S. and Richter, A.S. and Manke, T. and Bönisch, U. and Arrigoni, L. and Fröhler, S. and Klironomos, F. and Chen, W. and Rajewsky, N. and Müller, F. and Ebert, P. and Lengauer, T. and Barann, M. and Rosenstiel, P. and Gasparoni, G. and Nordström, K. and Walter, J. and Brors, B. and Zipprich, G. and Felder, B. and Klein-Hitpass, L. and Attenberger, C. and Schmitz, G. and Horsthemke, B.
Epigenetics & Chromatin 9 : 33. 29 July 2016

Pervasive isoform-specific translational regulation via alternative transcription start sites in mammals.
Wang, X. and Hou, J. and Quedenau, C. and Chen, W.
Molecular Systems Biology 12 (7): 875. 18 July 2016

Sequential poly-ubiquitylation by specialized conjugating enzymes expands the versatility of a quality control ubiquitin ligase.
Weber, A. and Cohen, I. and Popp, O. and Dittmar, G. and Reiss, Y. and Sommer, T. and Ravid, T. and Jarosch, E.
Molecular Cell 63 (5): 827-839. 1 September 2016

Caspase-mediated apoptosis induction in zebrafish cerebellar Purkinje neurons.
Weber, T. and Namikawa, K. and Winter, B. and Müller-Brown, K. and Kühn, R. and Wurst, W. and Köster, R.W.
Development 143 (22): 4279-4287. 15 November 2016

Genome editing in mice using TALE nucleases.
Wefers, B. and Brandl, C. and Ortiz, O. and Wurst, W. and Kühn, R.
Methods in Molecular Biology 1338 : 229-243. 2016

Amorfrutin C induces apoptosis and inhibits proliferation in colon cancer cells through targeting mitochondria.
Weidner, C. and Rousseau, M. and Micikas, R.J. and Fischer, C. and Plauth, A. and Wowro, S.J. and Siems, K. and Hetterling, G. and Kliem, M. and Schroeder, F.C. and Sauer, S.
Journal of Natural Products 79 (1): 2-12. 22 January 2016

Iberis amara extract induces intracellular formation of reactive oxygen species and inhibits colon cancer.
Weidner, C. and Rousseau, M. and Plauth, A. and Wowro, S.J. and Fischer, C. and Abdel-Aziz, H. and Sauer, S.
PLoS ONE 11 (4): e0152398. 6 April 2016

Local multi-channel RF surface coil versus body RF coil transmission for cardiac magnetic resonance at 3 Tesla: which configuration is winning the game?
Weinberger, O. and Winter, L. and Dieringer, M.A. and Els, A. and Oezerdem, C. and Rieger, J. and Kuehne, A. and Cassara, A.M. and Pfeiffer, H. and Wetterling, F. and Niendorf, T.
PLoS ONE 11 (9): e0161863. 6 September 2016

Electrodynamics and radiofrequency antenna concepts for human magnetic resonance at 23.5 T (1 GHz) and beyond.
Winter, L. and Niendorf, T.
Magnetic Resonance Materials in Physics Biology and Medicine 29 (3): 641-656. June 2016

Quantitative analysis of cancer metabolism: From pSIRM to MFA.
Zasada, C. and Kempa, S.
Recent Results in Cancer Research 207 (207): 207-220. 25 August 2016

PCNA appears in two populations of slow and fast diffusion with a constant ratio throughout S-phase in replicating mammalian cells.
Zessin, P.J.M. and Sporbert, A. and Heilemann, M.
Scientific Reports 6 : 18779. 13 January 2016

52 genetic loci influencing myocardial mass.
van der Harst, P. and van Setten, J. and Verweij, N. and Vogler, G. and Franke, L. and Maurano, M.T. and Wang, X. and Mateo Leach, I. and Eijgelsheim, M. and Sotoodehnia, N. and Hayward, C. and Sorice, R. and Meirelles, O. and Lyytikaeinen, L.P. and Polašek, O. and Tanaka, T. and Arking, D.E. and Ulivi, S. and Trompet, S. and Mueller-Nurasyid, M. and Smith, A.V. and Dörr, M. and Kerr, K.F. and Magnani, J.W. and Del Greco, M.F. and Zhang, W. and Nolte, I.M. and Silva, C.T. and Padmanabhan, S. and Tragante, V. and Esko, T. and Abecasis, G.R. and Adriaens, M.E. and Andersen, K. and Barnett, P. and Bis, J.C. and Bodmer, R. and Buckley, B.M. and Campbell, H. and Cannon, M.V. and Chakravarti, A. and Chen, L.Y. and Delitala, A. and Devereux, R.B. and Doevendans, P.A. and Dominiczak, A.F. and Ferrucci, L. and Ford, I. and Gieger, C. and Harris, T.B. and Haugen, E. and Heinig, M. and Hernandez, D.G. and Hillege, H.L. and Hirschhorn, J.N. and Hofman, A. and Hubner, N. and Hwang, S.J. and Iorio, A. and Kaehoenen, M. and Kellis, M. and Kolcic, I. and Kooner, Is.K. and Kooner, J.S. and Kors, J.A. and Lakatta, E.G. and Lage, K. and Launer, L.J. and Levy, D. and Lundby, A. and Macfarlane, P.W. and May, D. and Meitinger, T. and Metspalu, A. and Nappo, S. and Naitza, S. and Neph, S. and Nord, A.S. and Nutile, T. and Okin, P.M. and Olsen, J.V. and Oostra, B.A. and Penninger, J.M. and Pennacchio, L.A. and Pers, T.H. and Perz, S. and Peters, A. and Pinto, Y.M. and Pfeufer, A. and Pilia, M.G. and Pramstaller, P.P. and Prins, B.P. and Raitakari, O.T. and Raychaudhuri, S. and Rice, K.M. and Rossin, E.J. and Rotter, J.I. and Schaefer, S. and Schlessinger, D. and Schmidt, C.O. and Sehmi, J. and Sillje, H.H.W. and Sinagra, G. and Sinner, M.F. and Slowikowski, K. and Soliman, E.Z. and Spector, T.D. and Spiering, W. and Stamatoyannopoulos, J.A. and Stolk, R.P. and Strauch, K. and Tan, S.T. and Tarasov, K.V. and Trinh, B. and Uitterlinden, A.G. and van den Boogaard, M. and van Duijn, C.M. and van Gilst, W.H. and Viikari, J.S. and Visscher, P.M. and Vitart, V. and Völker, U. and Waldenberger, M. and Weichenberger, C.X. and Westra, H.J. and Wijmenga, C. and Wolffenbuttel, B.H. and Yang, J. and Bezzina, C.R. and Munroe, P.B. and Snieder, H. and Wright, A.F. and Rudan, I. and Boyer, L.A. and Asselbergs, F.W. and van Veldhuisen, D.J. and Stricker, B.H. and Psaty, B.M. and Ciullo, M. and Sanna, S. and Lehtimäki, T. and Wilson, J.F. and Bandinelli, S. and Alonso, A. and Gasparini, P. and Jukema, J.W. and Kääb, S. and Gudnason, V. and Felix, S.B. and Heckbert, S.R. and de Boer, R.A. and Newton-Cheh, C. and Hicks, A.A. and Chambers, J.C. and Jamshidi, Y. and Visel, A. and Christoffels, V.M. and Isaacs, A. and Samani, N.J. and de Bakker, P.I.W.
Journal of the American College of Cardiology 68 (13): 1435-1448. 27 September 2016

2015

A common building block for the syntheses of amorfrutin and cajaninstilbene acid libraries toward efficient binding with peroxisome proliferator-activated receptors.
Aidhen, I.S. and Mukkamala, R. and Weidner, C. and Sauer, S.
Organic Letters 17 (2): 194-197. 16 January 2015

genomation: a toolkit to summarize, annotate and visualize genomic intervals.
Akalin, A. and Franke, V. and Vlahoviček, K. and Mason, C.E. and Schübeler, D.
Bioinformatics 31 (7): 1127-1129. 1 April 2015

Genomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation.
Baubec, T. and Colombo, D.F. and Wirbelauer, C. and Schmidt, J. and Burger, L. and Krebs, A.R. and Akalin, A. and Schübeler, D.
Nature 520 (7546): 243-247. 9 April 2015

A t(3;9)(q25.1;q34.3) translocation leading to OLFM1 fusion transcripts in Gilles de la Tourette syndrome, OCD and ADHD.
Bertelsen, B. and Melchior, L. and Jensen, L.R. and Groth, C. and Nazaryan, L. and Debes, N.M. and Skov, L. and Xie, G. and Sun, W. and Brondum-Nielsen, K. and Kuss, A.W. and Chen, W. and Tuemer, Z.
Psychiatry Research 225 (3): 268-275. 28 February 2015

DoRiNA 2.0-upgrading the doRiNA database of RNA interactions in post-transcriptional regulation.
Blin, K. and Dieterich, C. and Wurmus, R. and Rajewsky, N. and Landthaler, M. and Akalin, A.
Nucleic Acids Research 43 (Database issue): D160-D167. 28 January 2015

Identification and characterization of hypoxia-regulated endothelial circular RNA.
Boeckel, J.N. and Jae, N. and Heumueller, A.W. and Chen, W. and Boon, R.A. and Stellos, K. and Zeiher, A.M. and John, D. and Uchida, S. and Dimmeler, S.
Circulation Research 117 (10): 884-890. 23 October 2015

Creation of targeted genomic deletions using TALEN or CRISPR/Cas nuclease pairs in one-cell mouse embryos.
Brandl, C. and Ortiz, O. and Röttig, B. and Wefers, B. and Wurst, W. and Kühn, R.
FEBS Open Bio 5 : 26-35. 2015

Increasing the efficiency of homology-directed repair for CRISPR-Cas9-induced precise gene editing in mammalian cells.
Chu, V.T. and Weber, T. and Wefers, B. and Wurst, W. and Sander, S. and Rajewsky, K. and Kühn, R.
Nature Biotechnology 33 (5): 543-548. May 2015

Bioenergetic cues shift FXR splicing towards FXRα2 to modulate hepatic lipolysis and fatty acid metabolism.
Correia, J.C. and Massart, J. and de Boer, J.F. and Porsmyr-Palmertz, M. and Martínez-Redondo, V. and Agudelo, L.Z. and Sinha, I. and Meierhofer, D. and Ribeiro, V. and Björnholm, M. and Sauer, S. and Dahlman-Wright, K. and Zierath, J.R. and Groen, A.K. and Ruas, J.L.
Molecular Metabolism 4 (12): 891-902. December 2015

Reproducible and user-controlled software environments in HPC with Guix.
Courtes, L. and Wurmus, R.
In: Euro-Par 2015: Parallel Processing Workshops. Lecture Notes in Computer Science, 9523 . Springer (Switzerland), 579-591. ISBN 978-3-319-27307-5 2015

SILAC for biomarker discovery.
Dittmar, G. and Selbach, M.
Proteomics Clinical Applications 9 (3-4): 301-306. April 2015

Laminar shear stress inhibits endothelial cell metabolism via Kruppel-like factor 2-mediated repression of 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase-3.
Doddaballapur, A. and Michalik, K.M. and Manavski, Y. and Lucas, T. and Houtkooper, R.H. and You, X. and Chen, W. and Zeiher, A.M. and Potente, M. and Dimmeler, S. and Boon, R.A.
Arteriosclerosis Thrombosis and Vascular Biology 35 (1): 137-145. January 2015

Impaired myocardial development resulting in neonatal cardiac hypoplasia alters postnatal growth and stress response in the heart.
Drenckhahn, J.D. and Strasen, J. and Heinecke, K. and Langner, P. and Yin, K.V. and Skole, F. and Hennig, M. and Spallek, B. and Fischer, R. and Blaschke, F. and Heuser, A. and Cox, T.C. and Black, M.J. and Thierfelder, L.
Cardiovascular Research 106 (1): 43-54. 1 April 2015

Reprogramming and transdifferentiation for cardiovascular development and regenerative medicine: where do we stand?
Ebert, A.D. and Diecke, S. and Chen, I.Y. and Wu, J.C.
EMBO Molecular Medicine 7 (9): 1090-1103. 16 July 2015

GORAB missense mutations disrupt RAB6 and ARF5 binding and golgi targeting.
Egerer, J. and Emmerich, D. and Fischer-Zirnsak, B. and Chan, W.L. and Meierhofer, D. and Tuysuz, B. and Marschner, K. and Sauer, S. and Barr, F.A. and Mundlos, S. and Kornak, U.
Journal of Investigative Dermatology 135 (10): 2368-2376. October 2015

A regression-based analysis of ribosome-profiling data reveals a conserved complexity to mammalian translation.
Fields, A.P. and Rodriguez, E.H. and Jovanovic, M. and Stern-Ginossar, N. and Haas, B.J. and Mertins, P. and Raychowdhury, R. and Hacohen, N. and Carr, S.A. and Ingolia, N.T. and Regev, A. and Weissman, J.S.
Molecular Cell 60 (5): 816-827. 3 December 2015

Immunofluorescence analysis and diagnosis of primary ciliary dyskinesia with radial spoke defects.
Frommer, A. and Hjeij, R. and Loges, N.T. and Edelbusch, C. and Jahnke, C. and Raidt, J. and Werner, C. and Wallmeier, J. and Große-Onnebrink, J. and Olbrich, H. and Cindrić, S. and Jaspers, M. and Boon, M. and Memari, Y. and Durbin, R. and Kolb-Kokocinski, A. and Sauer, S. and Marthin, J.K. and Nielsen, K.G. and Amirav, I. and Elias, N. and Kerem, E. and Shoseyov, D. and Haeffner, K. and Omran, H.
American Journal of Respiratory Cell and Molecular Biology 53 (4): 563-573. 1 October 2015

Predominant contribution of cis-regulatory divergence in the evolution of mouse alternative splicing.
Gao, Q. and Sun, W. and Ballegeer, M. and Libert, C. and Chen, W.
Molecular Systems Biology 11 (7): 816. 1 July 2015

Conditional reduction of adult born doublecortin-positive neurons reversibly impairs selective behaviors.
Garrett, L. and Zhang, J. and Zimprich, A. and Niedermeier, K.M. and Fuchs, H. and Gailus-Durner, V. and Hrabe de Angelis, M. and Vogt Weisenhorn, D. and Wurst, W. and Hoelter, S.M.
Frontiers in Behavioral Neuroscience 9 : 302. 12 November 2015

Sodium MRI of the human heart at 7.0 T: preliminary results.
Graessl, A. and Ruehle, A. and Waiczies, H. and Resetar, A. and Hoffmann, S.H. and Rieger, J. and Wetterling, F. and Winter, L. and Nagel, A.M. and Niendorf, T.
NMR in Biomedicine 28 (8): 967-975. August 2015

Monitoring hemodynamics and oxygenation of the kidney in rats by a combined near-infrared spectroscopy and invasive probe approach.
Grosenick, D. and Cantow, K. and Arakelyan, K. and Wabnitz, H. and Flemming, B. and Skalweit, A. and Ladwig, M. and Macdonald, R. and Niendorf, T. and Seeliger, E.
In: UNSPECIFIED. 16 July 2015

Characterization of hemodynamics and oxygenation in the renal cortex of rats.
Grosenick, D. and Wabnitz, H. and Macdonald, R. and Niendorf, T. and Cantow, K. and Flemming, B. and Arakelyan, K. and Seeliger, E.
In: UNSPECIFIED. 5 March 2015

A protocol for chemical mutagenesis in Strongyloides ratti.
Guo, L. and Chang, Z. and Dieterich, C. and Streit, A.
Experimental Parasitology 158 : 2-7. November 2015

Deficiency of ECHS1 causes mitochondrial encephalopathy with cardiac involvement.
Haack, T.B. and Jackson, C.B. and Murayama, K. and Kremer, L.S. and Schaller, A. and Kotzaeridou, U. and de Vries, M.C. and Schottmann, G. and Santra, S. and Büchner, B. and Wieland, T. and Graf, E. and Freisinger, P. and Eggimann, S. and Ohtake, A. and Okazaki, Y. and Kohda, M. and Kishita, Y. and Tokuzawa, Y. and Sauer, S. and Memari, Y. and Kolb-Kokocinski, A. and Durbin, R. and Hasselmann, O. and Cremer, K. and Albrecht, B. and Wieczorek, D. and Engels, H. and Hahn, D. and Zink, A.M. and Alston, C.L. and Taylor, R.W. and Rodenburg, R.J. and Trollmann, R. and Sperl, W. and Strom, T.M. and Hoffmann, G.F. and Mayr, J.A. and Meitinger, T. and Bolognini, R. and Schuelke, M. and Nuoffer, J.M. and Kölker, S. and Prokisch, H. and Klopstock, T.
Annals of Clinical and Translational Neurology 2 (5): 492-509. May 2015

miR-148a is upregulated by Twist1 and T-bet and promotes Th1-cell survival by regulating the proapoptotic gene Bim.
Haftmann, C. and Stittrich, A.B. and Zimmermann, J. and Fang, Z. and Hradilkova, K. and Bardua, M. and Westendorf, K. and Heinz, G.A. and Riedel, R. and Siede, J. and Lehmann, K. and Weinberger, E.E. and Zimmel, D. and Lauer, U. and Häupl, T. and Sieper, J. and Backhaus, M. and Neumann, C. and Hoffmann, U. and Porstner, M. and Chen, W. and Grün, J.R. and Baumgrass, R. and Matz, M. and Löhning, M. and Scheffold, A. and Wittmann, J. and Chang, H.D. and Rajewsky, N. and Jäck, H.M. and Radbruch, A. and Mashreghi, M.F.
European Journal of Immunology 45 (4): 1192-1205. April 2015

GABA blocks pathological but not acute TRPV1 pain signals.
Hanack, C. and Moroni, M. and Lima, W.C. and Wende, H. and Kirchner, M. and Adelfinger, L. and Schrenk-Siemens, K. and Tappe-Theodor, A. and Wetzel, C. and Kuich, P.H. and Gassmann, M. and Roggenkamp, D. and Bettler, B. and Lewin, G.R. and Selbach, M. and Siemens, J.
Cell 160 (4): 759-770. 12 February 2015

Crosstalk between two bZIP signaling pathways orchestrates salt-induced metabolic reprogramming in arabidopsis roots.
Hartmann, L. and Pedrotti, L. and Weiste, C. and Fekete, A. and Schierstaedt, J. and Göttler, J. and Kempa, S. and Krischke, M. and Dietrich, K. and Mueller, M.J. and Vicente-Carbajosa, J. and Hanson, J. and Dröge-Laser, W.
Plant Cell 27 (8): 2244-2260. August 2015

Extensive allele-specific translational regulation in hybrid mice.
Hou, J. and Wang, X. and McShane, E. and Zauber, H. and Sun, W. and Selbach, M. and Chen, W.
Molecular Systems Biology 11 (8): 825. 7 August 2015

Glioma-derived versican promotes tumor expansion via glioma-associated microglial/macrophages Toll-like receptor 2 signaling.
Hu, F. and a Dzaye, O.D. and Hahn, A. and Yu, Y. and Scavetta, R.J. and Dittmar, G. and Kaczmarek, A.K. and Dunning, K.R. and Ricciardelli, C. and Rinnenthal, J.L. and Heppner, F.L. and Lehnardt, S. and Synowitz, M. and Wolf, S.A. and Kettenmann, H.
Neuro-Oncology 17 (2): 200-210. February 2015

Neutrophil serine proteases exert proteolytic activity on endothelial cells.
Jerke, U. and Perez Hernandez, D. and Beaudette, P. and Korkmaz, B. and Dittmar, G. and Kettritz, R.
Kidney International 88 (4): 764-775. October 2015

Insm1 cooperates with Neurod1 and Foxa2 to maintain mature pancreatic β-cell function.
Jia, S. and Ivanov, A. and Blasevic, D. and Müller, T. and Purfürst, B. and Sun, W. and Chen, W. and Poy, M.N. and Rajewsky, N. and Birchmeier, C.
EMBO Journal 34 (10): 1417-1433. 12 May 2015

Dynamic profiling of the protein life cycle in response to pathogens.
Jovanovic, M. and Rooney, M.S. and Mertins, P. and Przybylski, D. and Chevrier, N. and Satija, R. and Rodriguez, E.H. and Fields, A.P. and Schwartz, S. and Raychowdhury, R. and Mumbach, M.R. and Eisenhaure, T. and Rabani, M. and Gennert, D. and Lu, D. and Delorey, T. and Weissman, J.S. and Carr, S.A. and Hacohen, N. and Regev, A.
Science 347 (6226): 1259038. 6 March 2015

Homozygous loss-of-function variants in european cosmopolitan and isolate populations.
Kaiser, V.B. and Svinti, V. and Prendergast, J.G. and Chau, Y.Y. and Campbell, A. and Patarcic, I. and Barroso, I. and Joshi, P.K. and Hastie, N.D. and Miljkovic, A. and Taylor, M.S. and Enroth, S. and Memari, Y. and Kolb-Kokocinski, A. and Wright, A.F. and Gyllensten, U. and Durbin, R. and Rudan, I. and Campbell, H. and Polašek, O. and Johansson, A. and Sauer, S. and Porteous, D.J. and Fraser, R.M. and Drake, C. and Vitart, V. and Hayward, C. and Semple, C.A. and Wilson, J.F.
Human Molecular Genetics 24 (19): 5464-5474. 1 October 2015

Differential proteomic analysis of mouse macrophages exposed to adsorbate-loaded heavy fuel oil derived combustion particles using an automated sample-preparation workflow.
Kanashova, T. and Popp, O. and Orasche, J. and Karg, E. and Harndorf, H. and Stengel, B. and Sklorz, M. and Streibel, T. and Zimmermann, R. and Dittmar, G.
Analytical and Bioanalytical Chemistry 407 (20): 5965-5976. August 2015

Protein kinase Ymr291w/Tda1 is essential for glucose signaling in Saccharomyces cerevisiae on the level of hexokinase isoenzyme ScHxk2 phosphorylation.
Kaps, S. and Kettner, K. and Migotti, R. and Kanashova, T. and Krause, U. and Roedel, G. and Dittmar, G. and Kriegel, T.M.
Journal of Biological Chemistry 290 (10): 6243-6255. 6 March 2015

Multiplexed, quantitative workflow for sensitive biomarker discovery in plasma yields novel candidates for early myocardial injury.
Keshishian, H. and Burgess, M.W. and Gillette, M.A. and Mertins, P. and Clauser, K.R. and Mani, D.R. and Kuhn, E.W. and Farrell, L.A. and Gerszten, R.E. and Carr, S.A.
Molecular & Cellular Proteomics 14 (9): 2375-2393. 1 September 2015

Maui-VIA: a user-friendly software for visual identification, alignment, correction, and quantification of gas chromatography-mass spectrometry data.
Kuich, P.H.J.L. and Hoffmann, N. and Kempa, S.
Frontiers in Bioengineering and Biotechnology 2 : 84. 21 January 2015

Pop in, pop out: a novel gene-targeting strategy for use with CRISPR-Cas9.
Kühn, R. and Chu, V.T.
Genome Biology 16 (1): 244. 10 November 2015

Diffusionsgewichtete Magnetresonanztomografie und ihre potenziellen Anwendungsmoeglichkeiten in der Ophthalmologie [Diffusion weighted magnetic resonance imaging and its application in ophthalmology].
Lindner, T. and Langner, S. and Paul, K. and Pohlmann, A. and Hadlich, S. and Niendorf, T. and Jünemann, A. and Guthoff, R.F. and Stachs, O.
Klinische Monatsblaetter fuer Augenheilkunde 232 (12): 1386-1391. December 2015

Deep sequencing of the trypanosoma cruzi GP63 surface proteases reveals diversity and diversifying selection among chronic and congenital Chagas disease patients.
Llewellyn, M.S. and Messenger, L.A. and Luquetti, A.O. and Garcia, L. and Torrico, F. and Tavares, S.B.N. and Cheaib, B. and Derome, N. and Delepine, M. and Baulard, C. and Deleuze, J.F. and Sauer, S. and Miles, M.A.
PLoS Neglected Tropical Diseases 9 (4): e0003458. 7 April 2015

Ultrahigh-field MPRAGE magnetic resonance angiography at 7.0 T in patients with cerebrovascular disease.
Madai, V.I. and von Samson-Himmelstjerna, F.C. and Sandow, N. and Weiler, F. and Bauer, M. and Vajkoczy, P. and Günther, M. and Dusek, P. and von Gottberg, P. and Niendorf, T. and Wuerfel, J. and Sobesky, J.
European Journal of Radiology 84 (12): 2613-2617. December 2015

Functional proteomic analysis of repressive histone methyltransferase complexes reveals ZNF518B as a G9A regulator.
Maier, V.K. and Feeney, C.M. and Taylor, J.E. and Creech, A.L. and Qiao, J.W. and Szanto, A. and Das, P.P. and Chevrier, N. and Cifuentes-Rojas, C. and Orkin, S.H. and Carr, S.A. and Jaffe, J.D. and Mertins, P. and Lee, J.T.
Molecular & Cellular Proteomics 14 (6): 1435-1446. 1 June 2015

Glycolysis-mediated changes in acetyl-CoA and histone acetylation control the early differentiation of embryonic stem cells.
Moussaieff, A. and Rouleau, M. and Kitsberg, D. and Cohen, M. and Levy, G. and Barasch, D. and Nemirovski, A. and Shen-Orr, S. and Laevsky, I. and Amit, M. and Bomze, D. and Elena-Herrmann, B. and Scherf, T. and Nissim-Rafinia, M. and Kempa, S. and Itskovitz-Eldor, J. and Meshorer, E. and Aberdam, D. and Nahmias, Y.
Cell Metabolism 21 (3): 392-402. 3 March 2015

RC3H1 post-transcriptionally regulates A20 mRNA and modulates the activity of the IKK/NF-κB pathway.
Murakawa, Y. and Hinz, M. and Mothes, J. and Schuetz, A. and Uhl, M. and Wyler, E. and Yasuda, T. and Mastrobuoni, G. and Friedel, C.C. and Dölken, L. and Kempa, S. and Schmidt-Supprian, M. and Blüthgen, N. and Backofen, R. and Heinemann, U. and Wolf, J. and Scheidereit, C. and Landthaler, M.
Nature Communications 6 : 7367. 14 July 2015

Improved approach for chondrogenic differentiation of human induced pluripotent stem cells.
Nejadnik, H. and Diecke, S. and Lenkov, O.D. and Chapelin, F. and Donig, J. and Tong, X. and Derugin, N. and Chan, R.C.F. and Gaur, A. and Yang, F. and Wu, J.C. and Daldrup-Link, H.E.
Stem Cell Reviews and Reports 11 (2): 242-253. April 2015

Advancing cardiovascular, neurovascular, and renal magnetic resonance imaging in small rodents using cryogenic radiofrequency coil technology.
Niendorf, T. and Pohlmann, A. and Reimann, H.M. and Waiczies, H. and Peper, E. and Huelnhagen, T. and Seeliger, E. and Schreiber, A. and Kettritz, R. and Strobel, K. and Ku, M.C. and Waiczies, S.
Frontiers in Pharmacology 6 : 255. 12 November 2015

Particulate matter from both heavy fuel oil and diesel fuel shipping emissions show strong biological effects on human lung cells at realistic and comparable in vitro exposure conditions.
Oeder, S. and Kanashova, T. and Sippula, O. and Sapcariu, S.C. and Streibel, T. and Arteaga-Salas, J.M. and Passig, J. and Dilger, M. and Paur, H.R. and Schlager, C. and Muelhopt, S. and Diabate, S. and Weiss, C. and Stengel, B. and Rabe, R. and Harndorf, H. and Torvela, T. and Jokiniemi, J.K. and Hirvonen, M.R. and Schmidt-Weber, C. and Traidl-Hoffmann, C. and BeruBe, K.A. and Wlodarczyk, A.J. and Prytherch, Z. and Michalke, B. and Krebs, T. and Prevot, A.S.H. and Kelbg, M. and Tiggesbaeumker, J. and Karg, E. and Jakobi, G. and Scholtes, S. and Schnelle-Kreis, J. and Lintelmann, J. and Matuschek, G. and Sklorz, M. and Klingbeil, S. and Orasche, J. and Richthammer, P. and Mueller, L. and Elsasser, M. and Reda, A. and Groeger, T. and Weggler, B. and Schwemer, T. and Czech, H. and Rueger, C.P. and Abbaszade, G. and Radischat, C. and Hiller, K. and Buters, J.T.M. and Dittmar, G. and Zimmermann, R.
PLoS ONE 10 (6): e0126536. 3 June 2015

A Genome-wide CRISPR screen in primary immune cells to dissect regulatory networks.
Parnas, O. and Jovanovic, M. and Eisenhaure, T.M. and Herbst, R.H. and Dixit, A. and Ye, C.J. and Przybylski, D. and Platt, R.J. and Tirosh, I. and Sanjana, N.E. and Shalem, O. and Satija, R. and Raychowdhury, R. and Mertins, P. and Carr, S.A. and Zhang, F. and Hacohen, N. and Regev, A.
Cell 162 (3): 675-686. 30 July 2015

Magnetic resonance imaging (MRI) analysis of ischemia/reperfusion in experimental acute renal injury.
Pohlmann, A. and Arakelyan, K. and Seeliger, E. and Niendorf, T.
Methods in Molecular Biology 1397 : 113-127. 17 December 2015

Proteomic analysis of the ubiquitin landscape in the drosophila embryonic nervous system and the adult photoreceptor cells.
Ramirez, J. and Martinez, A. and Lectez, B. and Lee, S.Y. and Franco, M. and Barrio, R. and Dittmar, G. and Mayor, U.
PLoS ONE 10 (10): e0139083. 13 October 2015

Annexin A1 sustains tumor metabolism and cellular proliferation upon stable loss of HIF1A.
Rohwer, N. and Bindel, F. and Grimm, C. and Lin, S.J. and Wappler, J. and Klinger, B. and Blüthgen, N. and Du Bois, I. and Schmeck, B. and Lehrach, H. and de Graauw, M. and Goncalves, E. and Saez-Rodriguez, J. and Tan, P. and Grabsch, H.I. and Prigione, A. and Kempa, S. and Cramer, T.
Oncotarget 7 (6): 6693-6710. 29 December 2015

Ligands for the nuclear peroxisome proliferator-activated receptor gamma.
Sauer, S.
Trends in Pharmacological Sciences 36 (10): 688-704. October 2015

Nutriproteomics: facts, concepts, and perspectives.
Sauer, S. and Luge, T.
Proteomics 15 (5-6): 997-1013. March 2015

Multiple sources of infection and potential endemic characteristics of the large outbreak of dengue in Guangdong in 2014.
Shen, S.Q. and Wei, H.X. and Fu, Y.H. and Zhang, H. and Mo, Q.Y. and Wang, X.J. and Deng, S.Q. and Zhao, W. and Liu, Y. and Feng, X.S. and Chen, W. and Peng, H.J.
Scientific Reports 5 : 16913. 23 November 2015

Ultrahigh field MRI in clinical neuroimmunology: a potential contribution to improved diagnostics and personalised disease management.
Sinnecker, T. and Kuchling, J. and Dusek, P. and Dörr, J. and Niendorf, T. and Paul, F. and Wuerfel, J.
EPMA Journal 6 (1): 16. 27 August 2015

Cell differentiation mediated by co-culture of human umbilical cord blood stem cells with murine hepatic cells.
Stecklum, M. and Wulf-Goldenberg, A. and Purfürst, B. and Siegert, A. and Keil, M. and Eckert, K. and Fichtner, I.
In Vitro Cellular & Developmental Biology Animal 51 (2): 183-191. February 2015

Deep, quantitative coverage of the lysine acetylome using novel anti-acetyl-lysine antibodies and an optimized proteomic workflow.
Svinkina, T. and Gu, H. and Silva, J.C. and Mertins, P. and Qiao, J. and Fereshetian, S. and Jaffe, J.D. and Kuhn, E. and Udeshi, N.D. and Carr, S.A.
Molecular & Cellular Proteomics 14 (9): 2429-2440. 1 September 2015

Glioma-associated microglia/macrophages display an expression profile different from M1 and M2 polarization and highly express Gpnmb and Spp1.
Szulzewsky, F. and Pelz, A. and Feng, X. and Synowitz, M. and Markovic, D. and Langmann, T. and Holtman, I.R. and Wang, X. and Eggen, B.J.L. and Boddeke, H.W.G.M. and Hambardzumyan, D. and Wolf, S.A. and Kettenmann, H.
PLoS ONE 10 (2): e0116644. 6 February 2015

Development of an intein-mediated split-Cas9 system for gene therapy.
Truong, D.J.J. and Kühner, K. and Kühn, R. and Werfel, S. and Engelhardt, S. and Wurst, W. and Ortiz, O.
Nucleic Acids Research 43 (13): 6450-6458. 27 July 2015

The tRNA methyltransferase Dnmt2 is required for accurate polypeptide synthesis during haematopoiesis.
Tuorto, F. and Herbst, F. and Alerasool, N. and Bender, S. and Popp, O. and Federico, G. and Reitter, S. and Liebers, R. and Stoecklin, G. and Groene, H.J. and Dittmar, G. and Glimm, H. and Lyko, F.
EMBO Journal 34 (18): 2350-2362. 14 September 2015

Anchoring dipalmitoyl phosphoethanolamine to nanoparticles boosts cellular uptake and fluorine-19 magnetic resonance signal.
Waiczies, S. and Lepore, S. and Sydow, K. and Drechsler, S. and Ku, M.C. and Martin, C. and Lorenz, D. and Schütz, I. and Reimann, H.M. and Purfürst, B. and Dieringer, M.A. and Waiczies, H. and Dathe, M. and Pohlmann, A. and Niendorf, T.
Scientific Reports 5 : 8427. 12 February 2015

Identification of a new genomic hot spot of evolutionary diversification of protein function.
Winkelmann, A. and You, X. and Gruenewald, N. and Haeussler, U. and Krestel, H. and Haas, C.A. and Schwarz, G. and Chen, W. and Meier, J.C.
PLoS ONE 10 (5): e0125413. 8 May 2015

Development of a high-resolution NGS-based HLA-typing and analysis pipeline.
Wittig, M. and Anmarkrud, J.A. and Kässens, J.C. and Koch, S. and Forster, M. and Ellinghaus, E. and Hov, J.R. and Sauer, S. and Schimmler, M. and Ziemann, M. and Görg, S. and Jacob, F. and Karlsen, T.H. and Franke, A.
Nucleic Acids Research 43 (11): e70. 23 June 2015

Analysis of impedance-based cellular growth assays.
Witzel, F. and Fritsche-Guenther, R. and Lehmann, N. and Sieber, A. and Bluethgen, N.
Bioinformatics 31 (16): 2705-2712. 15 August 2015

Neural circular RNAs are derived from synaptic genes and regulated by development and plasticity.
You, X. and Vlatkovic, I. and Babic, A. and Will, T. and Epstein, I. and Tushev, G. and Akbalik, G. and Wang, M. and Glock, C. and Quedenau, C. and Wang, X. and Hou, J. and Liu, H. and Sun, W. and Sambandan, S. and Chen, T. and Schuman, E.M. and Chen, W.
Nature Neuroscience 18 (4): 603-610. April 2015

Discovering the mechanisms underlying serotonin (5-HT)2A and 5-HT2C receptor regulation following nicotine withdrawal in rats.
Zaniewska, M. and Alenina, N. and Wydra, K. and Fröhler, S. and Kuśmider, M. and McCreary, A.C. and Chen, W. and Bader, M. and Filip, M.
Journal of Neurochemistry 134 (4): 704-716. August 2015

An oncogenic role for alternative NF-κB signaling in DLBCL revealed upon deregulated BCL6 expression.
Zhang, B. and Calado, D.P. and Wang, Z. and Froehler, S. and Koechert, K. and Qian, Y. and Koralov, S.B. and Schmidt-Supprian, M. and Sasaki, Y. and Unitt, C. and Rodig, S. and Chen, W. and Dalla-Favera, R. and Alt, F.W. and Pasqualucci, L. and Rajewsky, K.
Cell Reports 11 (5): 715-726. 5 May 2015

A MYC-driven change in mitochondrial dynamics limits YAP/TAZ function in mammary epithelial cells and breast cancer.
von Eyss, B. and Jaenicke, L.A. and Kortlever, R.M. and Royla, N. and Wiese, K.E. and Letschert, S. and McDuffus, L.A. and Sauer, M. and Rosenwald, A. and Evan, G.I. and Kempa, S. and Eilers, M.
Cancer Cell 28 (6): 743-757. 14 December 2015

2014

Relationship between genome and epigenome - challenges and requirements for future research.
Almouzni, G. and Altucci, L. and Amati, B. and Ashley, N. and Baulcombe, D. and Beaujean, N. and Bock, C. and Bongcam-Rudloff, E. and Bousquet, J. and Braun, S. and Bressac-de Paillerets, B. and Bussemakers, M. and Clarke, L. and Conesa, A. and Estivill, X. and Fazeli, A. and Grgurević, N. and Gut, I. and Heijmans, B.T. and Hermouet, S. and Houwing-Duistermaat, J. and Iacobucci, I. and Ilaš, J. and Kandimalla, R. and Krauss-Etschmann, S. and Lasko, P. and Lehmann, S. and Lindroth, A. and Majdič, G. and Marcotte, E. and Martinelli, G. and Martinet, N. and Meyer, E. and Miceli, C. and Mills, K. and Moreno-Villanueva, M. and Morvan, G. and Nickel, D. and Niesler, B. and Nowacki, M. and Nowak, J. and Ossowski, S. and Pelizzola, M. and Pochet, R. and Potočnik, U. and Radwanska, M. and Raes, J. and Rattray, M. and Robinson, M.D. and Roelen, B. and Sauer, S. and Schinzer, D. and Slagboom, E. and Spector, T. and Stunnenberg, H.G. and Tiligada, E. and Torres-Padilla, M.E. and Tsonaka, R. and Van Soom, A. and Vidaković, M. and Widschwendter, M.
BMC Genomics 15 : 487. 18 June 2014

Genomes and phenomes of a population of outbred rats and its progenitors.
Baud, A. and Guryev, V. and Hummel, O. and Johannesson, M. and Flint, J.
Scientific Data 1 : 140011. 10 June 2014

Quantitative-proteomic comparison of alpha and beta cells to uncover novel targets for lineage reprogramming.
Choudhary, A. and He, K.H. and Mertins, P. and Udeshi, N.D. and Dančík, V. and Fomina-Yadlin, D. and Kubicek, S. and Clemons, P.A. and Schreiber, S.L. and Carr, S.A. and Wagner, B.K.
PLoS ONE 9 (4): e95194. 23 April 2014

Highly resolved intravital striped-illumination microscopy of germinal centers.
Cseresnyes, Z. and Oehme, L. and Andresen, V. and Sporbert, A. and Hauser, A.E. and Niesner, R.
Journal of Visualized Experiments (86): e51135. 9 April 2014

Ophthalmic magnetic resonance imaging at 7.0 T using a 6-channel transceiver radiofrequency coil array in healthy subjects and patients with intraocular masses.
Graessl, A. and Muhle, M. and Schwerter, M. and Rieger, J. and Oezerdem, C. and Santoro, D. and Lysiak, D. and Winter, L. and Hezel, F. and Waiczies, S. and Guthoff, R.F. and Falke, K. and Hosten, N. and Hadlich, S. and Krueger, P.C. and Langner, S. and Stachs, O. and Niendorf, T.
Investigative Radiology 49 (5): 260-270. May 2014

Two independent transcription initiation codes overlap on vertebrate core promoters.
Haberle, V. and Li, N. and Hadzhiev, Y. and Plessy, C. and Previti, C. and Nepal, C. and Gehrig, J. and Dong, X. and Akalin, A. and Suzuki, A.M. and van IJcken, W.F.J. and Armant, O. and Ferg, M. and Strähle, U. and Carninci, P. and Müller, F. and Lenhard, B.
Nature 507 (7492): 381-385. 20 March 2014

Access to follicular dendritic cells is a pivotal step in murine chronic lymphocytic leukemia B cell activation and proliferation.
Heinig, K. and Gätjen, M. and Grau, M. and Stache, V. and Anagnostopoulos, I. and Gerlach, K. and Niesner, R.A. and Cseresnyes, Z. and Hauser, A.E. and Lenz, P. and Hehlgans, T. and Brink, R. and Westermann, J. and Dörken, B. and Lipp, M. and Lenz, G. and Rehm, A. and Höpken, U.E.
Cancer Discovery 4 : 1448-1465. December 2014

Adeno-associated virus type 2 wild-type and vector-mediated genomic integration profiles of human diploid fibroblasts analyzed by third-generation PacBio DNA sequencing.
Hueser, D. and Gogol-Doering, A. and Chen, W. and Heilbronn, R.
Journal of Virology 88 (19): 11253-11263. 1 October 2014

Identification of importin alpha 7 specific transport cargoes using a proteomic screening approach.
Hügel, S. and Depping, R. and Dittmar, G. and Rother, F. and Cabot, R. and Sury, M.D. and Hartmann, E. and Bader, M.
Molecular & Cellular Proteomics 13 (5): 1286-1298. 1 May 2014

Direct infusion mass spectrometry metabolomics dataset: a benchmark for data processing and quality control.
Kirwan, J.A. and Weber, R.J.M. and Broadhurst, D.I. and Viant, M.R.
Scientific Data 1 : 140012. 10 June 2014

Editing and investigating genomes with TALE and CRISPR/Cas systems: Genome engineering across species using TALENs.
Kuehn, R. and Wefers, B.
Methods 69 (1): 1. 15 August 2014

Inflammation-induced acute phase response in skeletal muscle and critical illness myopathy.
Langhans, C. and Weber-Carstens, S. and Schmidt, F. and Hamati, J. and Kny, M. and Zhu, X. and Wollersheim, T. and Koch, S. and Krebs, M. and Schulz, H. and Lodka, D. and Saar, K. and Labeit, S. and Spies, C. and Hubner, N. and Spranger, J. and Spuler, S. and Boschmann, M. and Dittmar, G. and Butler-Browne, G. and Mouly, V. and Fielitz, J.
PLoS ONE 9 (3): e92048. 20 March 2014

Ubiquitin profiling in liver using a transgenic mouse with biotinylated ubiquitin.
Lectez, B. and Migotti, R. and Lee, S.Y. and Ramirez, J. and Beraza, N. and Mansfield, B. and Sutherland, J. and Martinez-Chantar, M.L. and Dittmar, G. and Mayor, U.
Journal of Proteome Research 13 (6): 3016-3026. 6 June 2014

Transcriptomics assisted proteomic analysis of Nicotiana occidentalis infected by Candidatus Phytoplasma mali strain AT.
Luge, T. and Kube, M. and Freiwald, A. and Meierhofer, D. and Seemüller, E. and Sauer, S.
Proteomics 14 (16): 1882-1889. August 2014

Efficient application of next-generation sequencing for the diagnosis of rare genetic syndromes.
Madrigal, I. and Alvarez-Mora, M.I. and Karlberg, O. and Rodríguez-Revenga, L. and Elurbe, D.M. and Rabionet, R. and Mur, A. and Pie, J. and Ballesta, F. and Sauer, S. and Syvänen, A.C. and Milà, M.
Journal of Clinical Pathology 67 (12): 1099-1103. December 2014

Bcl10 mediates angiotensin II-induced cardiac damage and electrical remodeling.
Markó, L. and Henke, N. and Park, J.K. and Spallek, B. and Qadri, F. and Balogh, A. and Apel, I.J. and Oravecz-Wilson, K.I. and Choi, M. and Przybyl, L. and Binger, K.J. and Haase, N. and Wilck, N. and Heuser, A. and Fokuhl, V. and Ruland, J. and Lucas, P.C. and McAllister-Lucas, L.M. and Luft, F.C. and Dechend, R. and Müller, D.N.
Hypertension 64 (5): 1032-1039. November 2014

Coxsackie and adenovirus receptor (CAR) is a modifier of cardiac conduction and arrhythmia vulnerability in the setting of myocardial ischemia.
Marsman, R.F.J. and Bezzina, C.R. and Freiberg, F. and Verkerk, A.O. and Adriaens, M.E. and Podliesna, S. and Chen, C. and Purfürst, B. and Spallek, B. and Koopmann, T.T. and Baczko, I. and Dos Remedios, C.G. and George, A.L. and Bishopric, N.H. and Lodder, E.M. and de Bakker, J.M.T. and Fischer, R. and Coronel, R. and Wilde, A.A.M. and Gotthardt, M. and Remme, C.A.
Journal of the American College of Cardiology 63 (6): 549-559. 18 February 2014

Proteomic and functional consequences of hexokinase deficiency in glucose-repressible Kluyveromyces lactis.
Mates, N. and Kettner, K. and Heidenreich, F. and Pursche, T. and Migotti, R. and Kahlert, G. and Kuhlisch, E. and Breunig, K.D. and Schellenberger, W. and Dittmar, G. and Hoflack, B. and Kriegel, T.M.
Molecular & Cellular Proteomics 13 (3): 860-875. 1 March 2014

FGF/FGFR2 signaling regulates the generation and correct positioning of Bergmann glia cells in the developing mouse cerebellum.
Meier, F. and Giesert, F. and Delic, S. and Faus-Kessler, T. and Matheus, F. and Simeone, A. and Hoelter, S.M. and Kühn, R. and Vogt-Weisenhorn, D.M. and Wurst, W. and Prakash, N.
PLoS ONE 9 (7): e101124. 1 July 2014

Integrative analysis of transcriptomics, proteomics, and metabolomics data of white adipose and liver tissue of high-fat diet and rosiglitazone-treated insulin-resistant mice identified pathway alterations and molecular hubs.
Meierhofer, D. and Weidner, C. and Sauer, S.
Journal of Proteome Research 13 (12): 5592-5602. 5 December 2014

Ischemia in tumors induces early and sustained phosphorylation changes in stress kinase pathways but does not affect global protein levels.
Mertins, P. and Yang, F. and Liu, T. and Mani, D.R. and Petyuk, V.A. and Gillette, M.A. and Clauser, K.R. and Qiao, J.W. and Gritsenko, M.A. and Moore, R.J. and Levine, D.A. and Townsend, R. and Erdmann-Gilmore, P. and Snider, J.E. and Davies, S.R. and Ruggles, K.V. and Fenyo, D. and Kitchens, R.T. and Li, S. and Olvera, N. and Dao, F. and Rodriguez, H. and Chan, D.W. and Liebler, D. and White, F. and Rodland, K.D. and Mills, G.B. and Smith, R.D. and Paulovich, A.G. and Ellis, M. and Carr, S.A.
Molecular & Cellular Proteomics 13 (7): 1690-1704. 1 July 2014

Long noncoding RNA MALAT1 regulates endothelial cell function and vessel growth.
Michalik, K.M. and You, X. and Manavski, Y. and Doddaballapur, A. and Zoernig, M. and Braun, T. and John, D. and Ponomareva, Y. and Chen, W. and Uchida, S. and Boon, R.A. and Dimmeler, S.
Circulation Research 114 (9): 1389-1397. 25 April 2014

Using in vivo-biotinylated ubiquitin to describe a mitotic exit ubiquitome from human cells.
Min, M. and Mayor, U. and Dittmar, G. and Lindon, C.
Molecular & Cellular Proteomics 13 (9): 2411-2425. September 2014

High-resolution profiling of protein occupancy on polyadenylated RNA transcripts.
Munschauer, M. and Schueler, M. and Dieterich, C. and Landthaler, M.
Methods 65 (3): 302-309. February 2014

NanoCAGE analysis of the mouse olfactory epithelium identifies the expression of vomeronasal receptors and of proximal LINE elements.
Pascarella, G. and Lazarevic, D. and Plessy, C. and Bertin, N. and Akalin, A. and Vlachouli, C. and Simone, R. and Faulkner, G.J. and Zucchelli, S. and Kawai, J. and Daub, C.O. and Hayashizaki, Y. and Lenhard, B. and Carninci, P. and Gustincich, S.
Frontiers in Cellular Neuroscience 8 : 41. 18 February 2014

Simple derivation of transgene-free iPS cells by a dual recombinase approach.
Pertek, A. and Meier, F. and Irmler, M. and Beckers, J. and Skylaki, S. and Endele, M. and Wurst, W. and Prakash, N. and Kühn, R.
Molecular Biotechnology 56 (8): 697-713. August 2014

Identification of differentially expressed long noncoding RNAs in bladder cancer.
Peter, S. and Borkowska, E. and Drayton, R.M. and Rakhit, C.P. and Noon, A.P. and Chen, W. and Catto, J.W.F.
Clinical Cancer Research 20 (20): 5311-5321. 15 October 2014

Pulsed stable isotope-resolved metabolomic studies of cancer cells.
Pietzke, M. and Kempa, S.
Methods in Enzymology 543 : 179-198. 9 June 2014

Decoding the dynamics of cellular metabolism and the action of 3-bromopyruvate and 2-deoxyglucose using pulsed stable isotope-resolved metabolomics.
Pietzke, M. and Zasada, C. and Mudrich, S. and Kempa, S.
Cancer & Metabolism 2 : 9. 30 June 2014

DNA hydroxymethylation profiling reveals that WT1 mutations result in loss of TET2 function in acute myeloid leukemia.
Rampal, R. and Akalin, A. and Madzo, J. and Vasanthakumar, A. and Pronier, E. and Patel, J. and Li, Y. and Ahn, J. and Abdel-Wahab, O. and Shih, A. and Lu, C. and Ward, P.S. and Tsai, J.J. and Hricik, T. and Tosello, V. and Tallman, J.E. and Zhao, X. and Daniels, D. and Dai, Q. and Ciminio, L. and Aifantis, I. and He, C. and Fuks, F. and Tallman, M.S. and Ferrando, A. and Nimer, S. and Paietta, E. and Thompson, C.B. and Licht, J.D. and Mason, C.E. and Godley, L.A. and Melnick, A. and Figueroa, M.E. and Levine, R.L.
Cell Reports 9 (5): 1841-1855. 11 December 2014

PA28αβ reduces size and increases hydrophilicity of 20S immunoproteasome peptide products.
Raule, M. and Cerruti, F. and Benaroudj, N. and Migotti, R. and Kikuchi, J. and Bachi, A. and Navon, A. and Dittmar, G. and Cascio, P.
Chemistry & Biology 21 (4): 470-480. 24 April 2014

Natural variation of histone modification and its impact on gene expression in the rat genome.
Rintisch, C. and Heinig, M. and Bauerfeind, A. and Schafer, S. and Mieth, C. and Patone, G. and Hummel, O. and Chen, W. and Cook, S. and Cuppen, E. and Colomé-Tatché, M. and Johannes, F. and Jansen, R.C. and Neil, H. and Werner, M. and Pravenec, M. and Vingron, M. and Hubner, N.
Genome Research 24 (6): 942-953. June 2014

Design and analysis of Bar-seq experiments.
Robinson, D.G. and Chen, W. and Storey, J.D. and Gresham, D.
G3 4 (1): 11-18. 10 January 2014

Characterization of genetic diversity in the nematode pristionchus pacificus from population-scale resequencing data.
Roedelsperger, C. and Neher, R.A. and Weller, A.M. and Eberhardt, G. and Witte, H. and Mayer, W.E. and Dieterich, C. and Sommer, R.J.
Genetics 196 (4): 1153-1165. April 2014

Simultaneous extraction of proteins and metabolites from cells in culture.
Sapcariu, S.C. and Kanashova, T. and Weindl, D. and Ghelfi, J. and Dittmar, G. and Hiller, K.
MethodsX 1 (1): 74-80. 18 July 2014

Amorfrutins: a promising class of natural products that are beneficial to health.
Sauer, S.
Chembiochem 15 (9): 1231-1238. 16 June 2014

Differential protein occupancy profiling of the mRNA transcriptome.
Schueler, M. and Munschauer, M. and Gregersen, L.H. and Finzel, A. and Loewer, A. and Chen, W. and Landthaler, M. and Dieterich, C.
Genome Biology 15 (1): R15. 13 January 2014

Perturbation of m6A writers reveals two distinct classes of mRNA methylation at internal and 5' sites.
Schwartz, S. and Mumbach, M.R. and Jovanovic, M. and Wang, T. and Maciag, K. and Bushkin, G.G. and Mertins, P. and Ter-Ovanesyan, D. and Habib, N. and Cacchiarelli, D. and Sanjana, N.E. and Freinkman, E. and Pacold, M.E. and Satija, R. and Mikkelsen, T.S. and Hacohen, N. and Zhang, F. and Carr, S.A. and Lander, E.S. and Regev, A.
Cell Reports 8 (1): 284-296. 10 July 2014

Analysis of expressed genes of the bacterium 'Candidatus Phytoplasma mali' highlights key features of virulence and metabolism.
Siewert, C. and Luge, T. and Duduk, B. and Seemüller, E. and Büttner, C. and Sauer, S. and Kube, M.
PLOS ONE 9 (4): e94391. 11 April 2014

Genome-wide analysis of trans-splicing in the nematode Pristionchus pacificus unravels conserved gene functions for germline and dauer development in divergent operons.
Sinha, A. and Langnick, C. and Sommer, R.J. and Dieterich, C.
RNA 20 (9): 1386-1397. September 2014

Polar bear encephalitis: establishment of a comprehensive next-generation pathogen analysis pipeline for captive and free-living wildlife.
Szentiks, C.A. and Tsangaras, K. and Abendroth, B. and Scheuch, M. and Stenglein, M.D. and Wohlsein, P. and Heeger, F. and Hoeveler, R. and Chen, W. and Sun, W. and Damiani, A. and Nikolin, V. and Gruber, A.D. and Grobbel, M. and Kalthoff, D. and Hoeper, D. and Czirjak, G.A. and DeRisi, J. and Mazzoni, C.J. and Schuele, A. and Aue, A. and East, M.L. and Hofer, H. and Beer, M. and Osterrieder, N. and Greenwood, A.D.
Journal of Comparative Pathology 150 (4): 474-488. May 2014

Toxicological effect of single contaminants and contaminant mixtures associated with plant ingredients in novel salmon feeds.
Søfteland, L. and Kirwan, J.A. and Hori, T.S.F. and Størseth, T.R. and Sommer, U. and Berntssen, M.H.G. and Viant, M.R. and Rise, M.L. and Waagbø, R. and Torstensen, B.E. and Booman, M. and Olsvik, P.A.
Food and Chemical Toxicology 73 : 157-174. November 2014

Combining photonic crystal and optical Monte Carlo simulations: implementation, validation and application in a positron emission tomography detector.
Thalhammer, C. and Breuer, J. and Fuehrer, T. and Popescu, A. and Hedler, H. and Walther, T. and Niendorf, T.
IEEE Transactions on Nuclear Science 61 (6): 3618-3626. December 2014

CDK5 is a major regulator of the tumor suppressor DLC1.
Tripathi, B.K. and Qian, X. and Mertins, P. and Wang, D. and Papageorge, A.G. and Carr, S.A. and Lowy, D.R.
Journal of Cell Biology 207 (5): 627-642. 8 December 2014

Primate-specific endogenous retrovirus-driven transcription defines naive-like stem cells.
Wang, J. and Xie, G. and Singh, M. and Ghanbarian, A.T. and Raskó, T. and Szvetnik, A. and Cai, H. and Besser, D. and Prigione, A. and Fuchs, N.V. and Schumann, G.G. and Chen, W. and Lorincz, M.C. and Ivics, Z. and Hurst, L.D. and Izsvák, Z.
Nature 516 (7531): 405-409. 18 December 2014

Generation of targeted mouse mutants by embryo microinjection of TALENs.
Wefers, B. and Ortiz, O. and Wurst, W. and Kühn, R.
Methods 69 (1): 94-101. 15 August 2014

PHOXTRACK-a tool for interpreting comprehensive datasets of post-translational modifications of proteins.
Weidner, C. and Fischer, C. and Sauer, S.
Bioinformatics 30 (23): 3410-3411. 1 December 2014

Lemon balm extract causes potent antihyperglycemic and antihyperlipidemic effects in insulin-resistant obese mice.
Weidner, C. and Wowro, S.J. and Freiwald, A. and Kodelja, V. and Abdel-Aziz, H. and Kelber, O. and Sauer, S.
Molecular Nutrition & Food Research 58 (4): 903-907. April 2014

Calcium-buffering effects of gluconate and nucleotides, as determined by a novel fluorimetric titration method.
Woehler, A. and Lin, K.H. and Neher, E.
Journal of Physiology 592 (22): 4863-4875. 15 November 2014

Quantitative dissection and modeling of the NF-κB p100-p105 module reveals interdependent precursor proteolysis.
Yilmaz, Z.B. and Kofahl, B. and Beaudette, P. and Baum, K. and Ipenberg, I. and Weih, F. and Wolf, J. and Dittmar, G. and Scheidereit, C.
Cell Reports 9 (5): 1756-1769. 11 December 2014

Combined immunodeficiency develops with age in immunodeficiency-centromeric instability-facial anomalies syndrome 2 (ICF2).
von Bernuth, H. and Ravindran, E. and Du, H. and Froehler, S. and Strehl, K. and Kraemer, N. and Issa-Jahns, L. and Amulic, B. and Ninnemann, O. and Xiao, M.S. and Eirich, K. and Koelsch, U. and Hauptmann, K. and John, R. and Schindler, D. and Wahn, V. and Chen, W. and Kaindl, A.M.
Orphanet Journal of Rare Diseases 9 (1): 116. 21 October 2014

2013

Conserved miRNAs are candidate post-transcriptional regulators of developmental arrest in free-living and parasitic nematodes.
Ahmed, R. and Chang, Z. and Younis, A.E. and Langnick, C. and Li, N. and Chen, W. and Brattig, N. and Dieterich, C.
Genome Biology and Evolution 5 (7): 1246-1260. 2013

Two deubiquitylases act on mitofusin and regulate mitochondrial fusion along independent pathways.
Anton, F. and Dittmar, G. and Langer, T. and Escobar-Henriques, M.
Molecular Cell 49 (3): 487-498. 7 February 2013

Genome sequencing reveals loci under artificial selection that underlie disease phenotypes in the laboratory rat.
Atanur, S.S. and Diaz, A.G. and Maratou, K. and Sarkis, A. and Rotival, M. and Game, L. and Tschannen, M.R. and Kaisaki, P.J. and Otto, G.W. and John Ma, M.C. and Keane, T.M. and Hummel, O. and Saar, K. and Chen, W. and Guryev, V. and Gopalakrishnan, K. and Garrett, M.R. and Joe, B. and Citterio, L. and Bianchi, G. and McBride, M. and Dominiczak, A. and Adams, D.J. and Serikawa, T. and Flicek, P. and Cuppen, E. and Hubner, N. and Petretto, E. and Gauguier, D. and Kwitek, A. and Jacob, H. and Aitman, T.J.
Cell 154 (3): 691-703. 1 August 2013

Ubiquitin binding by a CUE domain regulates ubiquitin chain formation by ERAD E3 ligases.
Bagola, K. and von Delbrück, M. and Dittmar, G. and Scheffner, M. and Ziv, I. and Glickman, M.H. and Ciechanover, A. and Sommer, T.
Molecular Cell 50 (4): 528-539. 23 May 2013

De novo truncating mutations in ASXL3 are associated with a novel clinical phenotype with similarities to Bohring-Opitz syndrome.
Bainbridge, M.N. and Hu, H. and Muzny, D.M. and Musante, L. and Lupski, J.R. and Graham, B.H. and Chen, W. and Gripp, K.W. and Jenny, K. and Wienker, T.F. and Yang, Y. and Sutton, V.R. and Gibbs, R.A. and Ropers, H.H.
Genome Medicine 5 (2): 11. 5 February 2013

Characterization of the melanocortin-4-receptor nonsense mutation W16X in vitro and in vivo.
Bolze, F. and Rink, N. and Brumm, H. and Kühn, R. and Mocek, S. and Schwarz, A.E. and Kless, C. and Biebermann, H. and Wurst, W. and Rozman, J. and Klingenspor, M.
Pharmacogenomics Journal 13 (1): 80-93. February 2013

The pro-neurotrophin receptor sortilin is a major neuronal apolipoprotein E receptor for catabolism of amyloid-β peptide in the brain.
Carlo, A.S. and Gustafsen, C. and Mastrobuoni, G. and Nielsen, M.S. and Burgert, T. and Hartl, D. and Rohe, M. and Nykjaer, A. and Herz, J. and Heeren, J. and Kempa, S. and Petersen, C.M. and Willnow, T.E.
Journal of Neuroscience 33 (1): 358-370. 2 January 2013

Synthetic lethal metabolic targeting of cellular senescence in cancer therapy.
Dörr, J.R. and Yu, Y. and Milanovic, M. and Beuster, G. and Zasada, C. and Däbritz, J.H.M. and Lisec, J. and Lenze, D. and Gerhardt, A. and Schleicher, K. and Kratzat, S. and Purfürst, B. and Walenta, S. and Mueller-Klieser, W. and Gräler, M. and Hummel, M. and Keller, U. and Buck, A.K. and Dörken, B. and Willmitzer, L. and Reimann, M. and Kempa, S. and Lee, S. and Schmitt, C.A.
Nature 501 (7467): 421-425. 19 September 2013

Genome-wide analysis of LXRα activation reveals new transcriptional networks in human atherosclerotic foam cells.
Feldmann, R. and Fischer, C. and Kodelja, V. and Behrens, S. and Haas, S. and Vingron, M. and Timmermann, B. and Geikowski, A. and Sauer, S.
Nucleic Acids Research 41 (6): 3518-3531. April 2013

Foam cell specific LXRα ligand.
Feldmann, R. and Geikowski, A. and Weidner, C. and Witzke, A. and Kodelja, V. and Schwarz, T. and Gabriel, M. and Erker, T. and Sauer, S.
PLOS ONE 8 (2): e57311. 25 February 2013

Comprehensive proteomic data sets for studying adipocyte-macrophage cell-cell communication.
Freiwald, A. and Weidner, C. and Witzke, A. and Huang, S.Y. and Meierhofer, D. and Sauer, S.
Proteomics 13 (23-24): 3424-3428. December 2013

A systematic evaluation of hybridization-based mouse exome capture system.
Gao, Q. and Sun, W. and You, X. and Froehler, S. and Chen, W.
BMC Genomics 14 (1): 492. 21 July 2013

Identification of LIN28B-bound mRNAs reveals features of target recognition and regulation.
Graf, R. and Munschauer, M. and Mastrobuoni, G. and Mayr, F. and Heinemann, U. and Kempa, S. and Rajewsky, N. and Landthaler, M.
RNA Biology 10 (7): 1146-1159. 1 July 2013

Design, evaluation and application of an eight channel transmit/receive coil array for cardiac MRI at 7.0T.
Gräßl, A. and Winter, L. and Thalhammer, C. and Renz, W. and Kellman, P. and Martin, C. and von Knobelsdorff-Brenkenhoff, F. and Tkachenko, V. and Schulz-Menger, J. and Niendorf, T.
European Journal of Radiology 82 (5): 752-759. May 2013

Gas sorption isotherms in swelling glassy polymers : detailed atomistic simulations.
Hoelck, O. and Boehning, M. and Heuchel, M. and Siegert, M.R. and Hofmann, D.
Journal of Membrane Science 428 : 523-532. 1 February 2013

Discovery and characterization of protein-modifying natural products by MALDI mass spectrometry reveal potent SIRT1 and p300 inhibitors.
Holzhauser, S. and Freiwald, A. and Weise, C. and Multhaup, G. and Han, C.T. and Sauer, S.
Angewandte Chemie International Edition in English 52 (19): 5171-5174. 3 May 2013

Blocking endocytosis enhances short-term synaptic depression under conditions of normal availability of vesicles.
Hua, Y. and Woehler, A. and Kahms, M. and Haucke, V. and Neher, E. and Klingauf, J.
Neuron 80 (2): 343-349. 16 October 2013

An RNAi-based approach to down-regulate a gene family in vivo.
Kim, J. and Badaloni, A. and Willert, T. and Zimber-Strobl, U. and Kühn, R. and Wurst, W. and Kieslinger, M.
PLoS ONE 8 (11): e80312. 12 November 2013

Metabolomics for the practising vet.
Kirwan, J.
In Practice 35 (8): 438-445. September 2013

Characterising and correcting batch variation in an automated direct infusion mass spectrometry (DIMS) metabolomics workflow.
Kirwan, J.A. and Broadhurst, D.I. and Davidson, R.L. and Viant, M.R.
Analytical and Bioanalytical Chemistry 405 (15): 5147-5157. June 2013

Target validation in mice by constitutive and conditional RNAi.
Kleinhammer, A. and Wurst, W. and Kühn, R.
Methods in Molecular Biology 986 : 307-323. 23 January 2013

Functional analysis of PEX13 mutation in a Zellweger syndrome spectrum patient reveals novel homooligomerization of PEX13 and its role in human peroxisome biogenesis.
Krause, C. and Rosewich, H. and Woehler, A. and Gärtner, J.
Human Molecular Genetics 22 (19): 3844-3857. 1 October 2013

Identification of regulators of the innate immune response to cytosolic DNA and retroviral infection by an integrative approach.
Lee, M.N. and Roy, M. and Ong, S.E. and Mertins, P. and Villani, A.C. and Li, W. and Dotiwala, F. and Sen, J. and Doench, J.G. and Orzalli, M.H. and Kramnik, I. and Knipe, D.M. and Lieberman, J. and Carr, S.A. and Hacohen, N.
Nature Immunology 14 (2): 179-185. February 2013

Global profiling of miRNAs and the hairpin precursors: insights into miRNA processing and novel miRNA discovery.
Li, N. and You, X. and Chen, T. and Mackowiak, S.D. and Friedlaender, M.R. and Weigt, M. and Du, H. and Gogol-Doering, A. and Chang, Z. and Dieterich, C. and Hu, Y. and Chen, W.
Nucleic Acids Research 41 (6): 3619-3634. 8 February 2013

An optimized algorithm for detecting and annotating regional differential methylation.
Li, S. and Garrett-Bakelman, F.E. and Akalin, A. and Zumbo, P. and Levine, R. and To, B.L. and Lewis, I.D. and Brown, A.L. and D'Andrea, R.J. and Melnick, A. and Mason, C.E.
BMC Bioinformatics 14 (Suppl 5): S10. 2013

Induction of sarcomas by mutant IDH2.
Lu, C. and Venneti, S. and Akalin, A. and Fang, F. and Ward, P.S. and Dematteo, R.G. and Intlekofer, A.M. and Chen, C. and Ye, J. and Hameed, M. and Nafa, K. and Agaram, N.P. and Cross, J.R. and Khanin, R. and Mason, C.E. and Healey, J.H. and Lowe, S.W. and Schwartz, G.K. and Melnick, A. and Thompson, C.B.
Genes & Development 27 (18): 1986-1998. 15 September 2013

A proteomic investigation of soluble olfactory proteins in Anopheles gambiae.
Mastrobuoni, G. and Qiao, H. and Iovinella, I. and Sagona, S. and Niccolini, A. and Boscaro, F. and Caputo, B. and Orejuela, M.R. and Della Torre, A. and Kempa, S. and Felicioli, A. and Pelosi, P. and Moneti, G. and Dani, F.R.
PLoS ONE 8 (11): e75162. 25 November 2013

A novel endogenous betaretrovirus group characterized from polar bears (Ursus maritimus) and giant pandas (Ailuropoda melanoleuca).
Mayer, J. and Tsangaras, K. and Heeger, F. and Avila-Arcos, M. and Stenglein, M.D. and Chen, W. and Sun, W. and Mazzoni, C.J. and Osterrieder, N. and Greenwood, A.D.
Virology 443 (1): 1-10. 15 August 2013

Protein sets define disease states and predict in vivo effects of drug treatment.
Meierhofer, D. and Weidner, C. and Hartmann, L. and Mayr, J.A. and Han, C.T. and Schroeder, F.C. and Sauer, S.
Molecular & Cellular Proteomics 12 (7): 1965-1979. 1 July 2013

Efficient generation of rat induced pluripotent stem cells using a non-viral inducible vector.
Merkl, C. and Saalfrank, A. and Riesen, N. and Kühn, R. and Pertek, A. and Eser, S. and Hardt, M.S. and Kind, A. and Saur, D. and Wurst, W. and Iglesias, A. and Schnieke, A.
PLoS ONE 8 (1): e55170. 31 January 2013

Integrated proteomic analysis of post-translational modifications by serial enrichment.
Mertins, P. and Qiao, J.W. and Patel, J. and Udeshi, N.D. and Clauser, K.R. and Mani, D.R. and Burgess, M.W. and Gillette, M.A. and Jaffe, J.D. and Carr, S.A.
Nature Methods 10 (7): 634-637. July 2013

The E3 ligase parkin maintains mitochondrial integrity by increasing linear ubiquitination of NEMO.
Mueller-Rischart, A.K. and Pilsl, A. and Beaudette, P. and Patra, M. and Hadian, K. and Funke, M. and Peis, R. and Deinlein, A. and Schweimer, C. and Kuhn, P.H. and Lichtenthaler, S.F. and Motori, E. and Hrelia, S. and Wurst, W and Truembach, D. and Langer, T. and Krappmann, D. and Dittmar, G. and Tatzelt, J. and Winklhofer, K.F.
Molecular Cell 49 (5): 908-921. 7 March 2013

Dynamic regulation of the transcription initiation landscape at single nucleotide resolution during vertebrate embryogenesis.
Nepal, C. and Hadzhiev, Y. and Previti, C. and Haberle, V. and Li, N. and Takahashi, H. and Suzuki, A.M.M. and Sheng, Y. and Abdelhamid, R.F. and Anand, S. and Gehrig, J. and Akalin, A. and Kockx, C.E.M. and van der Sloot, A.A.J. and van Ijcken, W.F.J. and Armant, O. and Rastegar, S. and Watson, C. and Strähle, U. and Stupka, E. and Carninci, P. and Lenhard, B. and Müller, F.
Genome Research 23 (11): 1938-1950. November 2013

Multi-channel transmit/receive RF coil arrays for cardiac MRI at ultrahigh fields: Design, validation and clinical application.
Niendorf, T.
In: Microwave Workshop Series on RF and Wireless Technologies for Biomedical and Healthcare Applications (IMWS-BIO), 2013 IEEE MTT-S International, 9-11 Dec 2013, Singapore. 2013

Reversible and tissue-specific activation of MAP kinase signaling by tamoxifen in Braf(V637)ER(T2) mice.
Ortiz, O. and Wurst, W. and Kühn, R.
Genesis 51 (6): 448-455. June 2013

Highly efficient targeted mutagenesis in mice using TALENs.
Panda, S.K. and Wefers, B. and Ortiz, O. and Floss, T. and Schmid, B. and Haass, C. and Wurst, W. and Kühn, R.
Genetics 195 (3): 703-713. November 2013

Mechanisms of in vivo binding site selection of the hematopoietic master transcription factor PU.1.
Pham, T.H. and Minderjahn, J. and Schmidl, C. and Hoffmeister, H. and Schmidhofer, S. and Chen, W. and Laengst, G. and Benner, C. and Rehli, M.
Nucleic Acids Research 41 (13): 6391-6402. July 2013

Diagnostic proteomics: will this impact the clinic?
Sauer, S.
Proteomics Clinical Applications 7 (11-12): 725-726. December 2013

Protein set analyses: how could this impact the clinic?
Sauer, S.
Expert Review of Proteomics 10 (4): 305-307. August 2013

High-resolution mapping reveals a conserved, widespread, dynamic mRNA methylation program in yeast meiosis.
Schwartz, S. and Agarwala, S.D. and Mumbach, M.R. and Jovanovic, M. and Mertins, P. and Shishkin, A. and Tabach, Y. and Mikkelsen, T.S. and Satija, R. and Ruvkun, G. and Carr, S.A. and Lander, E.S. and Fink, G.R. and Regev, A.
Cell 155 (6): 1409-1421. 5 December 2013

Periventricular venous density in multiple sclerosis is inversely associated with T2 lesion count: a 7 Tesla MRI study.
Sinnecker, T. and Bozin, I. and Dörr, J. and Pfueller, C.F. and Harms, L. and Niendorf, T. and Brandt, A.U. and Paul, F. and Wuerfel, J.
Multiple Sclerosis Journal 19 (3): 316-325. March 2013

Simple method for sub-diffraction resolution imaging of cellular structures on standard confocal microscopes by three-photon absorption of quantum dots.
Sporbert, A. and Cseresnyes, Z. and Heidbreder, M. and Domaing, P. and Hauser, S. and Kaltschmidt, B. and Kaltschmidt, C. and Heilemann, M. and Widera, D.
PLoS ONE 8 (5): e64023. 21 May 2013

Ultra-deep profiling of alternatively spliced Drosophila Dscam isoforms by circularization-assisted multi-segment sequencing.
Sun, W. and You, X. and Gogol-Doering, A. and He, H. and Kise, Y. and Sohn, M. and Chen, T. and Klebes, A. and Schmucker, D. and Chen, W.
EMBO Journal 32 (14): 2029-2038. 17 July 2013

Implementation of photonic crystal simulations into a Monte Carlo code to investigate light extraction from scintillators.
Thalhammer, C. and Breuer, J. and Popescu, A. and Hedler, H. and Niendorf, T.
In: 2013 Conference on Lasers and Electro-Optics Europe and International Quantum Electronics Conference, CLEO/Europe-IQEC 2013, 12-16 May 2013, Munich. 2013

Large-scale identification of ubiquitination sites by mass spectrometry.
Udeshi, N.D. and Mertins, P. and Svinkina, T. and Carr, S.A.
Nature Protocols 8 (10): 1950-1960. October 2013

Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.
Udeshi, N.D. and Svinkina, T. and Mertins, P. and Kuhn, E. and Mani, D.R. and Qiao, J.W. and Carr, S.A.
Molecular & Cellular Proteomics 12 (3): 825-831. 1 March 2013

Monocytes/macrophages support mammary tumor invasivity by co-secreting lineage-specific EGFR ligands and a STAT3 activator.
Vlaicu, P. and Mertins, P. and Mayr, T. and Widschwendter, P. and Ataseven, B. and Högel, B. and Eiermann, W. and Knyazev, P. and Ullrich, A.
BMC Cancer 13 : 197. 18 April 2013

Visualizing brain inflammation with a shingled-leg radio-frequency head probe for (19)F/(1)H MRI.
Waiczies, H. and Lepore, S. and Drechsler, S. and Qadri, F. and Purfürst, B. and Sydow, K. and Dathe, M. and Kühne, A. and Lindel, T. and Hoffmann, W. and Pohlmann, A. and Niendorf, T. and Waiczies, S.
Scientific Reports 3 : 1280. 15 February 2013

Integrative analysis revealed the molecular mechanism underlying RBM10-mediated splicing regulation.
Wang, Y. and Gogol-Döring, A. and Hu, H. and Fröhler, S. and Ma, Y. and Jens, M. and Maaskola, J. and Murakawa, Y. and Quedenau, C. and Landthaler, M. and Kalscheuer, V. and Wieczorek, D. and Wang, Y. and Hu, Y. and Chen, W.
EMBO Molecular Medicine 5 (9): 1431-1442. September 2013

Direct production of mouse disease models by embryo microinjection of TALENs and oligodeoxynucleotides.
Wefers, B. and Meyer, M. and Ortiz, O. and Hrabé de Angelis, M. and Hansen, J. and Wurst, W. and Kühn, R.
Proceedings of the National Academy of Sciences of the United States of America 110 (10): 3782-3787. 5 March 2013

Generation of targeted mouse mutants by embryo microinjection of TALEN mRNA.
Wefers, B. and Panda, S.K. and Ortiz, O. and Brandl, C. and Hensler, S. and Hansen, J. and Wurst, W. and Kühn, R.
Nature Protocols 8 (12): 2355-2379. December 2013

Antidiabetic effects of chamomile flowers extract in obese mice through transcriptional stimulation of nutrient sensors of the peroxisome proliferator-activated receptor (PPAR) family.
Weidner, C. and Wowro, S.J. and Rousseau, M. and Freiwald, A. and Kodelja, V. and Abdel-Aziz, H. and Kelber, O. and Sauer, S.
PLOS ONE 8 (11): e80335. 12 November 2013

Simultaneous quantitative live cell imaging of multiple FRET-based biosensors.
Woehler, A.
PLoS ONE 8 (4): e61096. 16 April 2013

Structural characterization of amorfrutins bound to the peroxisome proliferator-activated receptor γ.
de Groot, J.C. and Weidner, C. and Krausze, J. and Kawamoto, K. and Schroeder, F.C. and Sauer, S. and Büssow, K.
Journal of Medicinal Chemistry 56 (4): 1535-1543. 28 February 2013

Na+/K+-ATPase is a new interacting partner for the neuronal glycine transporter GlyT2 that downregulates its expression in vitro and in vivo.
de Juan-Sanz, J. and Nunez, E. and Villarejo-Lopez, L. and Perez-Hernandez, D. and Rodriguez-Fraticelli, A.E. and Lopez-Corcuera, B. and Vazquez, J. and Aragon, C.
Journal of Neuroscience 33 (35): 14269-14281. 28 August 2013

2012

Base-pair resolution DNA methylation sequencing reveals profoundly divergent epigenetic landscapes in acute myeloid leukemia.
Akalin, A. and Garrett-Bakelman, F.E. and Kormaksson, M. and Busuttil, J. and Zhang, L. and Khrebtukova, I. and Milne, T.A. and Huang, Y. and Biswas, D. and Hess, J.L. and Allis, C.D. and Roeder, R.G. and Valk, P.J.M. and Loewenberg, B. and Delwel, R. and Fernandez, H.F. and Paietta, E. and Tallman, M.S. and Schroth, G.P. and Mason, C.E. and Melnick, A. and Figueroa, M.E.
PLoS Genetics 8 (6): e1002781. 21 June 2012

methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles.
Akalin, A. and Kormaksson, M. and Li, S. and Garrett-Bakelman, F.E. and Figueroa, M.E. and Melnick, A. and Mason, C.E.
Genome Biology 13 (10): R87. 3 October 2012

Retargeting transposon insertions by the adeno-associated virus Rep protein.
Ammar, I. and Gogol-Doering, A. and Miskey, C. and Chen, W. and Cathomen, T. and Izsvak, Z. and Ivics, Z.
Nucleic Acids Research 40 (14): 6693-6712. 1 August 2012

TAT-apoptosis repressor with caspase recruitment domain protein transduction rescues mice from fulminant liver failure.
An, J. and Harms, C. and Laettig-Tuennemann, G. and Sellge, G. and Mandic, A.D. and Malato, Y. and Heuser, A. and Endres, M. and Trautwein, C. and Donath, S.
Hepatology 56 (2): 715-726. August 2012

doRiNA: a database of RNA interactions in post-transcriptional regulation.
Anders, G. and Mackowiak, S.D. and Jens, M. and Maaskola, J. and Kuntzagk, A. and Rajewsky, N. and Landthaler, M. and Dieterich, C.
Nucleic Acids Research 40 (1): D180-D186. January 2012

High-resolution intravital microscopy.
Andresen, V. and Pollok, K. and Rinnenthal, J.L. and Oehme, L. and Guenther, R. and Spiecker, H. and Radbruch, H. and Gerhard, J. and Sporbert, A. and Cseresnyes, Z. and Hauser, A.E. and Niesner, R.
PLoS ONE 7 (12): e50915. 14 December 2012

Fumarate is cardioprotective via activation of the Nrf2 antioxidant pathway.
Ashrafian, H. and Czibik, G. and Bellahcene, M. and Aksentijević, D. and Smith, A.C. and Mitchell, S.J. and Dodd, M.S. and Kirwan, J. and Byrne, J.J. and Ludwig, C. and Isackson, H. and Yavari, A. and Støttrup, N.B. and Contractor, H. and Cahill, T.J. and Sahgal, N. and Ball, D.R. and Birkler, R.I.D. and Hargreaves, I. and Tennant, D.A. and Land, J. and Lygate, C.A. and Johannsen, M. and Kharbanda, R.K. and Neubauer, S. and Redwood, C. and de Cabo, R. and Ahmet, I. and Talan, M. and Günther, U.L. and Robinson, A.J. and Viant, M.R. and Pollard, P.J. and Tyler, D.J. and Watkins, H.
Cell Metabolism 15 (3): 361-371. 7 March 2012

The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts.
Baltz, A.G. and Munschauer, M. and Schwanhaeusser, B. and Vasile, A. and Murakawa, Y. and Schueler, M. and Youngs, N. and Penfold-Brown, D. and Drew, K. and Milek, M. and Wyler, E. and Bonneau, R. and Selbach, M. and Dieterich, C. and Landthaler, M.
Molecular Cell 46 (5): 674-690. 8 June 2012

Colonization of the satellite cell niche by skeletal muscle progenitor cells depends on notch signals.
Broehl, D. and Vasyutina, E. and Czajkowski, M.T. and Griger, J. and Rassek, C. and Rahn, H.P. and Purfuerst, B. and Wende, H. and Birchmeier, C.
Developmental Cell 23 (3): 469-481. 11 September 2012

N-desalkylquetiapine activates ERK1/2 to induce GDNF release in C6 glioma cells: a putative cellular mechanism for quetiapine as antidepressant.
Di Benedetto, B. and Kuehn, R. and Nothdurfter, C. and Rein, T. and Wurst, W. and Rupprecht, R.
Neuropharmacology 62 (1): 209-216. January 2012

Design, construction, and evaluation of a dynamic MR compatible cardiac left ventricle model.
Dieringer, M.A. and Hentschel, J. and de Quadros, T. and von Knobelsdorff-Brenkenhoff, F. and Hoffmann, W. and Niendorf, T. and Schulz-Menger, J.
Medical Physics 39 (8): 4800-4806. August 2012

FLEXBAR : flexible barcode and adapter processing for next-generation sequencing platforms.
Dodt, M. and Roehr, J.T. and Ahmed, R. and Dieterich, C.
Biology 1 (3): 895-905. 14 December 2012

Integrated epigenome profiling of repressive histone modifications, DNA methylation and gene expression in normal and malignant urothelial cells.
Dudziec, E. and Gogol-Doering, A. and Cookson, V. and Chen, W. and Catto, J.
PLoS ONE 7 (3): e32750. 7 March 2012

Modeling morphodynamic phenotypes and dynamic regimes of cell motion.
Enculescu, M. and Falcke, M.
Advances in Experimental Medicine and Biology 736 (3): 337-358. 2012

miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades.
Friedlaender, M.R. and Mackowiak, S.D. and Li, N. and Chen, W. and Rajewsky, N.
Nucleic Acids Research 40 (1): 37-52. 1 January 2012

Pink1-deficiency in mice impairs gait, olfaction and serotonergic innervation of the olfactory bulb.
Glasl, L. and Kloos, K. and Giesert, F. and Roethig, A. and Di Benedetto, B. and Kuehn, R. and Zhang, J. and Hafen, U. and Zerle, J. and Hofmann, A. and de Angelis, M.H. and Winklhofer, K.F. and Hoelter, S.M. and Vogt Weisenhorn, D.M. and Wurst, W.
Experimental Neurology 235 (1): 214-227. May 2012

An overview of the analysis of next generation sequencing data.
Gogol-Doering, A. and Chen, W.
Methods in Molecular Biology 802 : 249-257. 2012

From a concept to a word in a syntactically complete sentence: an fMRI study on spontaneous language production in an overt picture description task.
Grande, M. and Meffert, E. and Schoenberger, E. and Jung, S. and Frauenrath, T. and Huber, W. and Hussmann, K. and Moormann, M. and Heim, S.
NeuroImage 61 (3): 702-714. 2 July 2012

Functional analysis of receptor tyrosine kinase mutations in lung cancer identifies oncogenic extracellular domain mutations of ERBB2.
Greulich, H. and Kaplan, B. and Mertins, P. and Chen, T.H. and Tanaka, K.E. and Yun, C.H. and Zhang, X. and Lee, S.H. and Cho, J. and Ambrogio, L. and Liao, R. and Imielinski, M. and Banerji, S. and Berger, A.H. and Lawrence, M.S. and Zhang, J. and Pho, N.H. and Walker, S.R. and Winckler, W. and Getz, G. and Frank, D. and Hahn, W.C. and Eck, M.J. and Mani, D.R. and Jaffe, J.D. and Carr, S.A. and Wong, K.K. and Meyerson, M.
Proceedings of the National Academy of Sciences of the United States of America 109 (36): 14476-14481. 4 September 2012

Prediction of transcription factor binding sites by integrating DNase digestion and histone modification.
Gusmao, E.G. and Dieterich, C. and Costa, I.G.
In: Brazilian Symposium on Bioinformatics ; BSB 2012, 15-17 Aug 2012, Campo Grande, Brazil. 2012

Antibodies to the alpha(1)-adrenergic receptor cause vascular impairments in rat brain as demonstrated by magnetic resonance angiography.
Karczewski, P. and Pohlmann, A. and Wagenhaus, B. and Wisbrun, N. and Hempel, P. and Lemke, B. and Kunze, R. and Niendorf, T. and Bimmler, M.
PLoS ONE 7 (7): e41602. 30 July 2012

Molecular insights into arrhythmogenic right ventricular cardiomyopathy caused by plakophilin-2 missense mutations.
Kirchner, F. and Schuetz, A. and Boldt, L.H. and Martens, K. and Dittmar, G. and Haverkamp, W. and Thierfelder, L. and Heinemann, U. and Gerull, B.
Circulation Cardiovascular Genetics 5 (4): 400-411. 1 August 2012

The essence on mass spectrometry based microbial diagnostics.
Kliem, M. and Sauer, S.
Current Opinion in Microbiology 15 (3): 397-402. June 2012

In vivo functional requirement of the mouse Ifitm1 gene for germ cell development, interferon mediated immune response and somitogenesis.
Klymiuk, I. and Kenner, L. and Adler, T. and Busch, D.H. and Boersma, A. and Irmler, M. and Fridrich, B. and Gailus-Durner, V. and Fuchs, H. and Leitner, N. and Mueller, M. and Kuehn, R. and Schlederer, M. and Treise, I. and de Angelis, M.H. and Beckers, J.
PLoS ONE 7 (10): e44609. 24 October 2012

23Na magnetic resonance imaging of tissue sodium.
Kopp, C. and Linz, P. and Wachsmuth, L. and Dahlmann, A. and Horbach, T. and Schoefl, C. and Renz, W. and Santoro, D. and Niendorf, T. and Mueller, D.N. and Neininger, M. and Cavallaro, A. and Eckardt, K.U. and Schmieder, R.E. and Luft, F.C. and Uder, M. and Titze, J.
Hypertension 59 (1): 167-172. January 2012

Genetic models of Parkinson's disease.
Kuehn, R. and Vogt-Weisenhorn, D. and Wurst, W.
NeuroMethods 61 : 243-265. 2012

Genetisch veraenderte Tiere.
Kuehn, R. and Wurst, W.
In: Handbuch der Psychopharmakotherapie. Springer (Germany), 149-167. ISBN 978-3-642-19843-4 2012

Humanized c-Myc mouse.
Lehmann, F.M. and Feicht, S. and Helm, F. and Maurberger, A. and Ladinig, C. and Zimber-Strobl, U. and Kuehn, R. and Mautner, J. and Gerbitz, A. and Bornkamm, G.W.
PLoS ONE 7 (7): e42021. 31 July 2012

Deregulated MYC expression induces dependence upon AMPK-related kinase 5.
Liu, L. and Ulbrich, J. and Mueller, J. and Wuestefeld, T. and Aeberhard, L. and Kress, T.R. and Muthalagu, N. and Rycak, L. and Rudalska, R. and Moll, R. and Kempa, S. and Zender, L. and Eilers, M. and Murphy, D.J.
Nature 483 (7391): 608-612. 29 March 2012

Extension of cortical synaptic development distinguishes humans from chimpanzees and macaques.
Liu, X. and Somel, M. and Tang, L. and Yan, Z. and Jiang, X. and Guo, S. and Yuan, Y.P. and He, L. and Oleksiak, A. and Zhang, Y. and Li, N. and Hu, Y. and Chen, W. and Qiu, Z. and Paeaebo, S. and Khaitovich, P.
Genome Research 22 (4): 611-622. April 2012

Cell tracking using photoconvertible proteins during zebrafish development.
Lombardo, V.A. and Sporbert, A. and Abdelilah-Seyfried, S.
Journal of Visualized Experiments (67): e4350. 28 September 2012

Prediction of protein secondary structure from circular dichroism using theoretically derived spectra.
Louis-Jeune, C. and Andrade-Navarro, M.A. and Perez-Iratxeta, C.
Proteins: Structure, Function, and Bioinformatics 80 (2): 374-381. February 2012

Ultrahigh-field MRI in human ischemic stroke - a 7 tesla study.
Madai, V.I. and von Samson-Himmelstjerna, F.C. and Bauer, M. and Stengl, K.L. and Mutke, M.A. and Tovar-Martinez, E. and Wuerfel, J. and Endres, M. and Niendorf, T. and Sobesky, J.
PLoS ONE 7 (5): e37631. 31 May 2012

Proteome dynamics and early salt stress response of the photosynthetic organism Chlamydomonas reinhardtii.
Mastrobuoni, G. and Irgang, S. and Pietzke, M. and Wenzel, M. and Assmus, H.E. and Schulze, W.X. and Kempa, S.
BMC Genomics 13 (1): 215. 31 May 2012

iTRAQ labeling is superior to mTRAQ for quantitative global proteomics and phosphoproteomics.
Mertins, P. and Udeshi, N.D. and Clauser, K.R. and Mani, D.R. and Patel, J. and Ong, S.E. and Jaffe, J.D. and Carr, S.A.
Molecular & Cellular Proteomics 11 (6): M111.014423. 1 June 2012

Modeling disease mutations by gene targeting in one-cell mouse embryos.
Meyer, M. and Ortiz, O. and Hrabe de Angelis, M. and Wurst, W. and Kuehn, R.
Proceedings of the National Academy of Sciences of the United States of America 109 (24): 9354-9359. 12 June 2012

Gene expression of pluripotency determinants is conserved between mammalian and planarian stem cells.
Onal, P. and Gruen, D. and Adamidi, C. and Rybak, A. and Solana, J. and Mastrobuoni, G. and Wang, Y. and Rahn, H.P. and Chen, W. and Kempa, S. and Ziebold, U. and Rajewsky, N.
EMBO Journal 31 (12): 2755-2769. 27 April 2012

A unilateral negative feedback loop between miR-200 microRNAs and Sox2/E2F3 controls neural progenitor cell-cycle exit and differentiation.
Peng, C. and Li, N. and Ng, Y.K. and Zhang, J. and Meier, F. and Theis, F.J. and Merkenschlager, M. and Chen, W. and Wurst, W. and Prakash, N.
Journal of Neuroscience 32 (38): 13292-13308. 19 September 2012

Dynamic epigenetic enhancer signatures reveal key transcription factors associated with monocytic differentiation states.
Pham, T.H. and Benner, C. and Lichtinger, M. and Schwarzfischer, L. and Hu, Y. and Andreesen, R. and Chen, W. and Rehli, M.
Blood 119 (24): e161-e171. 14 June 2012

Promoter architecture of mouse olfactory receptor genes.
Plessy, C. and Pascarella, G. and Bertin, N. and Akalin, A. and Carrieri, C. and Vassalli, A. and Lazarevic, D. and Severin, J. and Vlachouli, C. and Simone, R. and Faulkner, G.J. and Kawai, J. and Daub, C.O. and Zucchelli, S. and Hayashizaki, Y. and Mombaerts, P. and Lenhard, B. and Gustincich, S. and Carninci, P.
Genome Research 22 (3): 486-497. March 2012

Heterodimerization of serotonin receptors 5-HT1A and 5-HT7 differentially regulates receptor signalling and trafficking.
Renner, U. and Zeug, A. and Woehler, A. and Niebert, M. and Dityatev, A. and Dityateva, G. and Gorinski, N. and Guseva, D. and Abdel-Galil, D. and Froehlich, M. and Doering, F. and Wischmeyer, E. and Richter, D.W. and Neher, E. and Ponimaskin, E.G.
Journal of Cell Science 125 (Pt 10): 2486-2499. 15 May 2012

How does the ryanodine receptor in the ventricular myocyte wake up: by a single or by multiple open L-type Ca(2+) channels?
Schendel, T. and Thul, R. and Sneyd, J. and Falcke, M.
European Biophysics Journal 41 (1): 27-39. January 2012

Conservation and divergence in Toll-like receptor 4-regulated gene expression in primary human versus mouse macrophages.
Schroder, K. and Irvine, K.M. and Taylor, M.S. and Bokil, N.J. and Le Cao, K.A. and Masterman, K.A. and Labzin, L.I. and Semple, C.A. and Kapetanovic, R. and Fairbairn, L. and Akalin, A. and Faulkner, G.J. and Baillie, J.K. and Gongora, M. and Daub, C.O. and Kawaji, H. and McLachlan, G.J. and Goldman, N. and Grimmond, S.M. and Carninci, P. and Suzuki, H. and Hayashizaki, Y. and Lenhard, B. and Hume, D.A. and Sweet, M.J.
Proceedings of the National Academy of Sciences of the United States of America 109 (16): E944-E953. 17 April 2012

Divergent gene expression in the conserved dauer stage of the nematodes Pristionchus pacificus and Caenorhabditis elegans.
Sinha, A. and Sommer, R.J. and Dieterich, C.
BMC Genomics 13 (1): 254. 19 June 2012

Distinct lesion morphology at 7-T MRI differentiates neuromyelitis optica from multiple sclerosis.
Sinnecker, T. and Doerr, J. and Pfueller, C.F. and Harms, L. and Ruprecht, K. and Jarius, S. and Brueck, W. and Niendorf, T. and Wuerfel, J. and Paul, F.
Neurology 79 (7): 708-714. 14 August 2012

Specific paucity of unmyelinated C-fibers in cutaneous peripheral nerves of the African naked-mole rat: comparative analysis using six species of bathyergidae.
Smith, E.S.J. and Purfuerst, B. and Grigoryan, T. and Park, T.J. and Bennett, N.C. and Lewin, G.R.
Journal of Comparative Neurology 520 (12): 2785-2803. 15 August 2012

Neural precursor cells induce cell death of high-grade astrocytomas through stimulation of TRPV1.
Stock, K. and Kumar, J. and Synowitz, M. and Petrosino, S. and Imperatore, R. and Smith, E.S.J. and Wend, P. and Purfuerst, B. and Nuber, U.A. and Gurok, U. and Matyash, V. and Waelzlein, J.H. and Chirasani, S.R. and Dittmar, G. and Cravatt, B.F. and Momma, S. and Lewin, G.R. and Ligresti, A. and De Petrocellis, L. and Cristino, L. and Di Marzo, V. and Kettenmann, H. and Glass, R.
Nature Medicine 18 (8): 1232-1238. August 2012

Two-Dimensional sixteen channel transmit/receive coil array for cardiac MRI at 7.0 T: Design, evaluation, and application.
Thalhammer, C. and Renz, W. and Winter, L. and Hezel, F. and Rieger, J. and Pfeiffer, H. and Graessl, A. and Seifert, F. and Hoffmann, W. and von Knobelsdorff-Brenkenhoff, F. and Tkachenko, V. and Schulz-Menger, J. and Kellman, P. and Niendorf, T.
Journal of Magnetic Resonance Imaging 36 (4): 847-857. October 2012

Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition.
Udeshi, N.D. and Mani, D.R. and Eisenhaure, T. and Mertins, P. and Jaffe, J.D. and Clauser, K.R. and Hacohen, N. and Carr, S.A.
Molecular & Cellular Proteomics 11 (5): 148-159. 1 May 2012

Retargeting Sleeping Beauty transposon insertions by engineered zinc finger DNA-binding domains.
Voigt, K. and Gogol-Doering, A. and Miskey, C. and Chen, W. and Cathomen, T. and Izsvak, Z. and Ivics, Z.
Molecular Therapy 20 (10): 1852-1862. October 2012

Functional and morphological cardiac magnetic resonance imaging of mice using a cryogenic quadrature radiofrequency coil.
Wagenhaus, B. and Pohlmann, A. and Dieringer, M.A. and Els, A. and Waiczies, H. and Waiczies, S. and Schulz-Menger, J. and Niendorf, T.
PLoS ONE 7 (8): e42383. 1 August 2012

MAPK signaling determines anxiety in the juvenile mouse brain but depression-like behavior in adults.
Wefers, B. and Hitz, C. and Hoelter, S.M. and Truembach, D. and Hansen, J. and Weber, P. and Puetz, B. and Deussing, J.M. and de Angelis, M.H. and Roenneberg, T. and Zheng, F. and Alzheimer, C. and Silva, A. and Wurst, W. and Kuehn, R.
PLoS ONE 7 (4): e35035. 18 April 2012

Gene editing in one-cell embryos by zinc-finger and TAL nucleases.
Wefers, B. and Meyer, M. and Hensler, S. and Panda, S. and Ortiz, O. and Wurst, W. and Kuehn, R.
Current Protocols in Mouse Biology 2 : 347-364. December 2012

Amorfrutins are potent antidiabetic dietary natural products.
Weidner, C. and de Groot, J.C. and Prasad, A. and Freiwald, A. and Quedenau, C. and Kliem, M. and Witzke, A. and Kodelja, V. and Han, C.T. and Giegold, S. and Baumann, M. and Klebl, B. and Siems, K. and Müller-Kuhrt, L. and Schürmann, A. and Schüler, R. and Pfeiffer, A.F.H. and Schroeder, F.C. and Büssow, K. and Sauer, S.
Proceedings of the National Academy of Sciences of the United States of America 109 (19): 7257-7262. 8 May 2012

Comparison of three multichannel transmit/receive radiofrequency coil configurations for anatomic and functional cardiac MRI at 7.0T: implications for clinical imaging.
Winter, L. and Kellman, P. and Renz, W. and Graessl, A. and Hezel, F. and Thalhammer, C. and von Knobelsdorff-Brenkenhoff, F. and Tkachenko, V. and Schulz-Menger, J. and Niendorf, T.
European Radiology 22 (10): 2211-2220. October 2012

Lesion morphology at 7 Tesla MRI differentiates Susac syndrome from multiple sclerosis.
Wuerfel, J. and Sinnecker, T. and Ringelstein, E.B. and Jarius, S. and Schwindt, W. and Niendorf, T. and Paul, F. and Kleffner, I. and Doerr, J.
Multiple Sclerosis 18 (11): 1592-1599. November 2012

Detection for gene-gene co-association via kernel canonical correlation analysis.
Yuan, Z. and Gao, Q. and He, Y. and Zhang, X. and Li, F. and Zhao, J. and Xue, F.
BMC Genetics 13 : 83. 8 October 2012

Quantitative intensity-based FRET approaches - a comparative snapshot.
Zeug, A. and Woehler, A. and Neher, E. and Ponimaskin, E.
Biophysical Journal 103 (9): 1821-1827. 7 November 2012

2011

De novo assembly and validation of planaria transcriptome by massive parallel sequencing and shotgun proteomics.
Adamidi, C. and Wang, Y. and Gruen, D. and Mastrobuoni, G. and You, X. and Tolle, D. and Dodt, M. and Mackowiak, S.D. and Gogol-Doering, A. and Oenal, P. and Rybak, A. and Ross, E. and Alvarado, A.S. and Kempa, S. and Dieterich, C. and Rajewsky, N. and Chen, W.
Genome Research 21 (7): 1193-1200. July 2011

PESCADOR, a web-based tool to assist text-mining of biointeractions extracted from PubMed queries.
Barbosa-Silva, A. and Fontaine, J.F. and Donnard, E.R. and Stussi, F. and Ortega, J.M. and Andrade-Navarro, M.A.
BMC Bioinformatics 12 (1): 435. 9 November 2011

Expression of root glutamate dehydrogenase genes in tobacco plants subjected to boron deprivation.
Beato, V.M. and Navarro-Gochicoa, M.T. and Rexach, J. and Herrera-Rodriguez, M.B. and Camacho-Cristobal, J.J. and Kempa, S. and Weckwerth, W. and Gonzalez-Fontes, A.
Plant Physiology and Biochemistry 49 (11): 1350-1354. November 2011

Impact of novel sequencing technology on transcriptome analysis.
Chen, W.
European Pharmaceutical Review 16 (4): 61-63. 31 August 2011

Systematic discovery of TLR signaling components delineates viral-sensing circuits.
Chevrier, N. and Mertins, P. and Artyomov, M.N. and Shalek, A.K. and Iannacone, M. and Ciaccio, M.F. and Gat-Viks, I. and Tonti, E. and DeGrace, M.M. and Clauser, K.R. and Garber, M. and Eisenhaure, T.M. and Yosef, N. and Robinson, J. and Sutton, A. and Andersen, M.S. and Root, D.E. and von Andrian, U. and Jones, R.B. and Park, H. and Carr, S.A. and Regev, A. and Amit, I. and Hacohen, N.
Cell 147 (4): 853-867. 10 November 2011

Odorant-binding proteins and chemosensory proteins in pheromone detection and release in the silkmoth Bombyx mori.
Dani, F.R. and Michelucci, E. and Francese, S. and Mastrobuoni, G. and Cappellozza, S. and La Marca, G. and Niccolini, A. and Felicioli, A. and Moneti, G. and Pelosi, P.
Chemical Senses 36 (4): 335-344. May 2011

Design and application of a four-channel transmit/receive surface coil for functional cardiac imaging at 7T.
Dieringer, M.A. and Renz, W. and Lindel, T. and Seifert, F. and Frauenrath, T. and von Knobelsdorff-Brenkenhoff, F. and Waiczies, H. and Hoffmann, W. and Rieger, J. and Pfeiffer, H. and Ittermann, B. and Schulz-Menger, J. and Niendorf, T.
Journal of Magnetic Resonance Imaging 33 (3): 736-741. March 2011

Genie: literature-based gene prioritization at multi genomic scale.
Fontaine, J.F. and Priller, F. and Barbosa-Silva, A. and Andrade-Navarro, M.A.
Nucleic Acids Research 39 (Suppl 2): W455-W461. July 2011

QiSampler: evaluation of scoring schemes for high-throughput datasets using a repetitive sampling strategy on gold standards.
Fontaine, J.F. and Suter, B. and Andrade-Navarro, M.A.
BMC Research Notes 4 (1): 57. 9 March 2011

PDBpaint, a visualization webservice to tag protein structures with sequence annotations.
Fournier, D. and Andrade-Navarro, M.A.
Bioinformatics 27 (18): 2605-2606. 15 September 2011

Aversion to nicotine is regulated by the balanced activity of beta4 and alpha5 nicotinic receptor subunits in the medial habenula.
Frahm, S. and Slimak, M.A. and Ferrarese, L. and Santos-Torres, J. and Antolin-Fontes, B. and Auer, S. and Filkin, S. and Pons, S. and Fontaine, J.F. and Tsetlin, V. and Maskos, U. and Ibanez-Tallon, I.
Neuron 70 (3): 522-535. 12 May 2011

Generating conditional knockout mice.
Friedel, R.H. and Wurst, W. and Wefers, B. and Kuehn, R.
Methods in Molecular Biology 693 : 205-231. 2011

Thioredoxin reductase, an emerging target for anticancer metallodrugs. Enzyme inhibition by cytotoxic gold(III) compounds studied with combined mass spectrometry and biochemical assays.
Gabbiani, C. and Mastrobuoni, G. and Sorrentino, F. and Dani, B. and Rigobello, M.P. and Bindoli, A. and Cinellu, M.A. and Pieraccini, G. and Messori, L. and Casini, A.
MedChemComm 2 (1): 50-54. January 2011

The GNAT library for local and remote gene mention normalization.
Hakenberg, J. and Gerner, M. and Haeussler, M. and Solt, I. and Plake, C. and Schroeder, M. and Gonzalez, G. and Nenadic, G. and Bergman, C.M.
Bioinformatics 27 (19): 2769-2771. 1 October 2011

CD19-independent instruction of murine marginal zone B-cell development by constitutive Notch2 signaling.
Hampel, F. and Ehrenberg, S. and Hojer, C. and Draeseke, A. and Marschall-Schroeter, G. and Kuehn, R. and Mack, B. and Gires, O. and Vahl, C.J. and Schmidt-Supprian, M. and Strobl, L.J. and Zimber-Strobl, U.
Blood 118 (24): 6321-631. 8 December 2011

ST3GAL3 mutations impair the development of higher cognitive functions.
Hu, H. and Eggers, K. and Chen, W. and Garshasbi, M. and Motazacker, M.M. and Wrogemann, K. and Kahrizi, K. and Tzschach, A. and Hosseini, M. and Bahman, I. and Hucho, T. and Muehlenhoff, M. and Gerardy-Schahn, R. and Najmabadi, H. and Ropers, H.H. and Kuss, A.W.
American Journal of Human Genetics 89 (3): 407-414. 9 September 2011

MicroRNA expression and regulation in human, chimpanzee, and macaque brains.
Hu, H.Y. and Guo, S. and Xi, J. and Yan, Z. and Fu, N. and Zhang, X. and Menzel, C. and Liang, H. and Yang, H. and Zhao, M. and Zeng, R. and Chen, W. and Paeaebo, S. and Khaitovich, P.
PLoS Genetics 7 (10): e1002327. October 2011

High-throughput subcellular protein localization using transfected-cell arrays : subcellular protein localization using cell arrays.
Hu, Y. and Janitz, M.
Methods in Molecular Biology 706 : 53-72. 2011

Hybridisation-based resequencing of 17 X-linked intellectual disability genes in 135 patients reveals novel mutations in ATRX, SLC6A8 and PQBP1.
Jensen, L.R. and Chen, W. and Moser, B. and Lipkowitz, B. and Schroeder, C. and Musante, L. and Tzschach, A. and Kalscheuer, V.M. and Meloni, I. and Raynaud, M. and van Esch, H. and Chelly, J. and de Brouwer, A.P. and Hackett, A. and van der Haar, S. and Henn, W. and Gecz, J. and Riess, O. and Bonin, M. and Reinhardt, R. and Ropers, H.H. and Kuss, A.W.
European Journal of Human Genetics 19 (6): 717-720. June 2011

Complement receptor Mac-1 is an adaptor for NB1 (CD177)-mediated PR3-ANCA neutrophil activation.
Jerke, U. and Rolle, S. and Dittmar, G. and Bayat, B. and Santoso, S. and Sporbert, A. and Luft, F.C. and Kettritz, R.
Journal of Biological Chemistry 286 (9): 7070-7081. 4 March 2011

In vivo and transcriptome-wide identification of RNA binding protein target sites.
Jungkamp, A.C. and Stoeckius, M. and Mecenas, D. and Gruen, D. and Mastrobuoni, G. and Kempa, S. and Rajewsky, N.
Molecular Cell 44 (5): 828-840. 9 December 2011

Next generation sequencing in a family with autosomal recessive Kahrizi syndrome (OMIM 612713) reveals a homozygous frameshift mutation in SRD5A3.
Kahrizi, K. and Hu, C.H. and Garshasbi, M. and Abedini, S.S. and Ghadami, S. and Kariminejad, R. and Ullmann, R. and Chen, W. and Ropers, H.H. and Kuss, A.W. and Najmabadi, H. and Tzschach, A.
European Journal of Human Genetics 19 (1): 115-117. January 2011

The Protein-Protein Interaction tasks of BioCreative III: classification/ranking of articles and linking bio-ontology concepts to full text.
Krallinger, M. and Vazquez, M. and Leitner, F. and Salgado, D. and Chatr-Aryamontri, A. and Winter, A. and Perfetto, L. and Briganti, L. and Licata, L. and Iannuccelli, M. and Castagnoli, L. and Cesareni, G. and Tyers, M. and Schneider, G. and Rinaldi, F. and Leaman, R. and Gonzalez, G. and Matos, S. and Kim, S. and Wilbur, W.J. and Rocha, L. and Shatkay, H. and Tendulkar, A.V. and Agarwal, S. and Liu, F. and Wang, X. and Rak, R. and Noto, K. and Elkan, C. and Lu, Z. and Dogan, R.I. and Fontaine, J.F. and Andrade-Navarro, M.A. and Valencia, A.
BMC Bioinformatics 12 (Suppl 8): S3. 3 October 2011

Elevated proteasome capacity extends replicative lifespan in Saccharomyces cerevisiae.
Kruegel, U. and Robison, B. and Dange, T. and Kahlert, G. and Delaney, J.R. and Kotireddy, S. and Tsuchiya, M. and Tsuchiyama, S. and Murakami, C.J. and Schleit, J. and Sutphin, G. and Carr, D. and Tar, K. and Dittmar, G. and Kaeberlein, M. and Kennedy, B.K. and Schmidt, M.
PLoS Genetics 7 (9): e1002253. September 2011

Integration of expressed sequence tag data flanking predicted RNA secondary structures facilitates novel non-coding RNA discovery.
Krzyzanowski, P.M. and Price, F.D. and Muro, E.M. and Rudnicki, M.A. and Andrade-Navarro, M.A.
PLoS ONE 6 (6): e20561. 15 June 2011

Two distinct auto-regulatory loops operate at the PU.1 locus in B cells and myeloid cells.
Leddin, M. and Perrod, C. and Hoogenkamp, M. and Ghani, S. and Assi, S. and Heinz, S. and Wilson, N.K. and Follows, G. and Schoenheit, J. and Vockentanz, L. and Mosamam, A. and Chen, W. and Tenen, D.G. and Westhead, D.R. and Goettgens, B. and Bonifer, C. and Rosenbauer, F.
Blood 117 (10): 2827-2838. 10 March 2011

Crosstalk between phosphorylation and multi-site arginine/lysine methylation in C/EBPs.
Leutz, A. and Pless, O. and Lappe, M. and Dittmar, G. and Kowenz-Leutz, E.
Transcription 2 (1): 3-8. January 2011

Tissue specific subnetworks and characteristics of publicly available human protein interaction databases.
Lopes, T.J. and Schaefer, M. and Shoemaker, J. and Matsuoka, Y. and Fontaine, J.F. and Neumann, G. and Andrade-Navarro, M.A. and Kawaoka, Y. and Kitano, H.
Bioinformatics 27 (17): 2414-2421. 1 September 2011

The yeast plasma membrane ABC transporter Aus1: Purification, characterization and effect of lipids on its activity.
Marek, M. and Milles, S. and Schreiber, G. and Daleke, D.L. and Dittmar, G. and Herrmann, A. and Mueller, P. and Pomorski, T.G.
Journal of Biological Chemistry 286 (24): 21835-21843. 17 June 2011

Development and evaluation of a small and mobile Magneto Alert Sensor (MALSE) to support safety requirements for magnetic resonance imaging.
Martin, C. and Frauenrath, T. and Oezerdem, C. and Renz, W. and Niendorf, T.
European Radiology 21 (10): 2187-2192. October 2011

Horizontal gene transfer of microbial cellulases into nematode genomes is associated with functional assimilation and gene turnover.
Mayer, W.E. and Schuster, L.N. and Bartelmes, G. and Dieterich, C. and Sommer, R.J.
BMC Evolutionary Biology 11 (1): 13. 13 January 2011

Targeted enrichment of genomic DNA regions for next-generation sequencing.
Mertes, F. and Elsharawy, A. and Sauer, S. and van Helvoort, J.M.L.M. and van der Zaag, P.J. and Franke, A. and Nilsson, M. and Lehrach, H. and Brookes, A.J.
Briefings in Functional Genomics 10 (6): 374-386. November 2011

Comparative genomic integration profiling of Sleeping Beauty transposons mobilized with high efficacy from integrase-defective lentiviral vectors in primary human cells.
Moldt, B. and Miskey, C. and Staunstrup, N.H. and Gogol-Doering, A. and Bak, R.O. and Sharma, N. and Mates, L. and Izsvak, Z. and Chen, W. and Ivics, Z. and Mikkelsen, J.G.
Molecular Therapy 19 (8): 1499-1510. August 2011

Functional evidence of post-transcriptional regulation by pseudogenes.
Muro, E.M. and Mah, N. and Andrade-Navarro, M.A.
Biochimie 93 (11): 1916-1921. November 2011

The pseudogenes of Mycobacterium leprae reveal the functional relevance of gene order within operons.
Muro, E.M. and Mah, N. and Moreno-Hagelsieb, G. and Andrade-Navarro, M.A.
Nucleic Acids Research 39 (5): 1732-1738. 1 March 2011

Deep sequencing reveals 50 novel genes for recessive cognitive disorders.
Najmabadi, H. and Hu, H. and Garshasbi, M. and Zemojtel, T. and Abedini, S.S. and Chen, W. and Hosseini, M. and Behjati, F. and Haas, S. and Jamali, P. and Zecha, A. and Mohseni, M. and Puettmann, L. and Vahid, L.N. and Jensen, C. and Moheb, L.A. and Bienek, M. and Larti, F. and Mueller, I. and Weissmann, R. and Darvish, H. and Wrogemann, K. and Hadavi, V. and Lipkowitz, B. and Esmaeeli-Nieh, S. and Wieczorek, D. and Kariminejad, R. and Firouzabadi, S.G. and Cohen, M. and Fattahi, Z. and Rost, I. and Mojahedi, F. and Hertzberg, C. and Dehghan, A. and Rajab, A. and Banavandi, M.J.S. and Hoffer, J. and Falah, M. and Musante, L. and Kalscheuer, V. and Ullmann, R. and Kuss, A.W. and Tzschach, A. and Kahrizi, K. and Ropers, H.H.
Nature 478 (7367): 57-63. 6 October 2011

Pristionchus pacificus daf-16 is essential for dauer formation but dispensable for mouth form dimorphism.
Ogawa, A. and Bento, G. and Bartelmes, G. and Dieterich, C. and Sommer, R.J.
Development 138 (7): 1281-1284. April 2011

Identification of increased amounts of eppin protein complex components in sperm cells of diabetic and obese individuals by difference gel electrophoresis.
Paasch, U. and Heidenreich, F. and Pursche, T. and Kuhlisch, E. and Kettner, K. and Grunewald, S. and Kratzsch, J. and Dittmar, G. and Glander, H.J. and Hoflack, B. and Kriegel, T.M.
Molecular & Cellular Proteomics 10 (8): M110.007187. August 2011

Elucidating the principles of the molecular organization of heteropolymeric tight junction strands.
Piontek, J. and Fritzsche, S. and Cording, J. and Richter, S. and Hartwig, J. and Walter, M. and Yu, D. and Turner, J.R. and Gehring, C. and Rahn, H.P. and Wolburg, H. and Blasig, I.E.
Cellular and Molecular Life Sciences 8 (23): 3903-3918. December 2011

A differential proteome screening system for post-translational modification-dependent transcription factor interactions.
Pless, O. and Kowenz-Leutz, E. and Dittmar, G. and Leutz, A.
Nature Protocols 6 (3): 359-364. February 2011

Prorenin receptor is essential for podocyte autophagy and survival.
Riediger, F. and Quack, I. and Qadri, F. and Hartleben, B. and Park, J.K. and Potthoff, S.A. and Sohn, D. and Sihn, G. and Rousselle, A. and Fokuhl, V. and Maschke, U. and Purfuerst, B. and Schneider, W. and Rump, L.C. and Luft, F.C. and Dechend, R. and Bader, M. and Huber, T.B. and Nguyen, G. and Mueller, D.N.
Journal of the American Society of Nephrology 22 (12): 2193-2202. December 2011

Dissecting the transcriptional regulatory properties of human chromosome 16 highly conserved non-coding regions.
Royo, J.L. and Hidalgo, C. and Roncero, Y. and Seda, M.A. and Akalin, A. and Lenhard, B. and Casares, F. and Gomez-Skarmeta, J.L.
PLoS ONE 6 (9): e24824. 13 September 2011

Metabolic synchronization by traveling waves in yeast cell layers.
Schuetze, J. and Mair, T. and Hauser, M.J. and Falcke, M. and Wolf, J.
Biophysical Journal 100 (4): 809-813. 16 February 2011

Automatic, three-segment, MR-based attenuation correction for whole-body PET/MR data.
Schulz, V. and Torres-Espallardo, I. and Renisch, S. and Hu, Z.B. and Ojha, N. and Boernert, P. and Perkuhn, M. and Niendorf, T. and Schaefer, W.M. and Brockmann, H. and Krohn, T. and Buhl, A. and Guenther, R.W. and Mottaghy, F.M. and Krombach, G.A.
European Journal of Nuclear Medicine and Molecular Imaging 38 (1): 138-152. January 2011

Global quantification of mammalian gene expression control.
Schwanhaeusser, B. and Busse, D. and Li, N. and Dittmar, G. and Schuchhardt, J. and Wolf, J. and Chen, W. and Selbach, M.
Nature 473 (7347): 337-342. 19 May 2011

Recognition of 2'-O-methylated 3'-end of piRNA by the PAZ domain of a piwi protein.
Simon, B. and Kirkpatrick, J.P. and Eckhardt, S. and Reuter, M. and Rocha, E.A. and Andrade-Navarro, M.A. and Sehr, P. and Pillai, R.S. and Carlomagno, T.
Structure 19 (2): 172-180. 9 February 2011

Derivation of Ca2+ signals from puff properties reveals that pathway function is robust against cell variability but sensitive for control.
Thurley, K. and Falcke, M.
Proceedings of the National Academy of Sciences of the United States of America 108 (1): 427-432. 4 January 2011

Neuronale Korrelate lexikalischen Suchverhaltens in der aphasischen Spontansprache: Ein Einzelfall [Neural correlates of lexical retrieval in aphasic spontaneous language: a single-case study].
Tillmanns, E. and Meffert, E. and Heim, S. and Frauenrath, T. and Huber, W. and Amunts, K. and Grande, M.
Sprache - Stimme - Gehoer 35 (2): e60-e67. June 2011

Sortilin associates with Trk receptors to enhance anterograde transport and neurotrophin signaling.
Vaegter, C.B. and Jansen, P. and Fjorback, A.W. and Glerup, S. and Skeldal, S. and Kjolby, M. and Richner, M. and Erdmann, B. and Nyengaard, J.R. and Tessarollo, L. and Lewin, G.R. and Willnow, T.E. and Chao, M.V. and Nykjaer, A.
Nature Neuroscience 14 (1): 54-61. January 2011

A directed protein interaction network for investigating intracellular signal transduction.
Vinayagam, A. and Stelzl, U. and Foulle, R. and Plassmann, S. and Zenkner, M. and Timm, J. and Assmus, H.E. and Andrade-Navarro, M.A. and Wanker, E.E.
Science Signaling 4 (189): rs8. 6 September 2011

Perfluorocarbon particle size influences magnetic resonance signal and immunological properties of dendritic cells.
Waiczies, H. and Lepore, S. and Janitzek, N. and Hagen, U. and Seifert, F. and Ittermann, B. and Purfuerst, B. and Pezzutto, A. and Paul, F. and Niendorf, T. and Waiczies, S.
PLoS ONE 6 (7): e21981. 19 July 2011

Design and generation of gene-targeting vectors.
Wefers, B. and Wurst, W. and Kuehn, R.
Current Protocols in Mouse Biology 1 : 199-211. March 2011

Widespread expression of piRNA-like molecules in somatic tissues.
Yan, Z. and Hu, H.Y. and Jiang, X. and Maierhofer, V. and Neb, E. and He, L. and Hu, Y. and Hu, H. and Li, N. and Chen, W. and Khaitovich, P.
Nucleic Acids Research 39 (15): 6596-6607. 1 August 2011

Ahnak1 abnormally localizes in muscular dystrophies and contributes to muscle vesicle release.
Zacharias, U. and Purfuerst, B. and Schoewel, V. and Morano, I. and Spuler, S. and Haase, H.
Journal of Muscle Research and Cell Motility 32 (4-5): 271-280. December 2011

2010

LAITOR - Literature Assistant for Identification of Terms co-Occurrences and Relationships.
Barbosa-Silva, A. and Soldatos, T.G. and Magalhaes, I.L. and Pavlopoulos, G.A. and Fontaine, J.F. and Andrade-Navarro, M.A. and Schneider, R. and Ortega, J.M.
BMC Bioinformatics 11 (1): 70. 1 February 2010

Comparison of left ventricular function assessment using phonocardiogram- and electrocardiogram-triggered 2D SSFP CINE MR imaging at 1.5 T and 3.0 T.
Becker, M. and Frauenrath, T. and Hezel, F. and Krombach, G.A. and Kremer, U. and Koppers, B. and Butenweg, C. and Goemmel, A. and Utting, J.F. and Schulz-Menger, J. and Niendorf, T.
European Radiology 20 (6): 1344-1355. June 2010

Proteogenomics of Pristionchus pacificus reveals distinct proteome structure of nematode models.
Borchert, N. and Dieterich, C. and Krug, K. and Schuetz, W. and Jung, S. and Nordheim, A. and Sommer, R.J. and Macek, B.
Genome Research 20 (6): 837-486. June 2010

Breakpoint analysis of balanced chromosome rearrangements by next-generation paired-end sequencing.
Chen, W. and Ullmann, R. and Langnick, C. and Menzel, C. and Wotschofsky, Z. and Hu, H. and Doering, A. and Hu, Y. and Kang, H. and Tzschach, A. and Hoeltzenbein, M. and Neitzel, H. and Markus, S. and Wiedersberg, E. and Kistner, G. and van Ravenswaaij-Arts, C.M. and Kleefstra, T. and Kalscheuer, V.M. and Ropers, H.H.
European Journal of Human Genetics 18 (5): 539-543. May 2010

The soluble intracellular domain of megalin does not affect renal proximal tubular function in vivo.
Christ, A. and Terryn, S. and Schmidt, V. and Christensen, E.I. and Huska, M.R. and Andrade-Navarro, M.A. and Huebner, N. and Devuyst, O. and Hammes, A. and Willnow, T.E.
Kidney International 78 (5): 473-477. September 2010

Phenotypic annotation of the mouse X chromosome.
Cox, B.J. and Vollmer, M. and Tamplin, O. and Lu, M. and Biechele, S. and Gertsenstein, M. and van Campenhout, C. and Floss, T. and Kuehn, R. and Wurst, W. and Lickert, H. and Rossant, J.
Genome Research 20 (8): 1154-1164. August 2010

Translog, a web browser for studying the expression divergence of homologous genes.
Dong, X. and Akalin, A. and Sharma, Y. and Lenhard, B.
BMC Bioinformatics 11 (Suppl 1): S59. 18 January 2010

Modeling of protrusion phenotypes driven by the actin-membrane interaction.
Enculescu, M. and Sabouri-Ghomi, M. and Danuser, G. and Falcke, M.
Biophysical Journal 98 (8): 1571-1581. 21 April 2010

Acoustic cardiac triggering: a practical solution for synchronization and gating of cardiovascular magnetic resonance at 7 Tesla.
Frauenrath, T. and Hezel, F. and Renz, W. and de Geyer, T. and Dieringer, M. and von Knobelsdorff-Brenkenhoff, F. and Prothmann, M. and Schulz-Menger, J. and Niendorf, T.
Journal of Cardiovascular Magnetic Resonance 12 (1): 67. 16 November 2010

ACCUSA - Accurate SNP calling on draft genomes.
Froehler, S. and Dieterich, C.
Bioinformatics 26 (10): 1364-1365. 15 May 2010

Finding optimal sets of enriched regions in chip-seq data.
Gogol-Doering, A. and Chen, W.
Lecture Notes in Informatics P-173 : 113-121. 2010

Comparative analysis of transposable element vector systems in human cells.
Grabundzija, I. and Irgang, M. and Mates, L. and Belay, E. and Matrai, J. and Gogol-Doering, A. and Kawakami, K. and Chen, W. and Ruiz, P. and Chuah, M.K. and Vandendriessche, T. and Izsvak, Z. and Ivics, Z.
Molecular Therapy 18 (6): 1200-1209. June 2010

DNA polymorphisms and haplotype patterns of transcription factors involved in barley endosperm development are associated with key agronomic traits.
Haseneyer, G. and Stracke, S. and Piepho, H.-P. and Sauer, S. and Geiger, H.H. and Graner, A.
BMC Plant Biology 10 : 5. 8 January 2010

Periostin shows increased evolutionary plasticity in its alternatively spliced region.
Hoersch, S. and Andrade-Navarro, M.A.
BMC Evolutionary Biology 10 (1): 30. 28 January 2010

Gene knockdown in the mouse through RNAi.
Kleinhammer, A. and Wurst, W. and Kuehn, R.
Methods in Enzymology 477 : 387-414. 2010

Familiality and molecular genetics of attention networks in ADHD.
Konrad, K. and Dempfle, A. and Friedel, S. and Heiser, P. and Holtkamp, K. and Walitza, S. and Sauer, S. and Warnke, A. and Remschmidt, H. and Gilsbach, S. and Schäfer, H. and Hinney, A. and Hebebrand, J. and Herpertz-Dahlmann, B.
American Journal of Medical Genetics B 153B (1): 148-158. 5 January 2010

Crosstalk between C/EBPbeta phosphorylation, arginine methylation, and SWI/SNF/Mediator implies an indexing transcription factor code.
Kowenz-Leutz, E. and Pless, O. and Dittmar, G. and Knoblich, M. and Leutz, A.
EMBO Journal 29 (6): 1105-1115. 17 March 2010

Genomic analysis of miRNAs in an extreme mammalian hibernator, the Arctic ground squirrel.
Liu, Y. and Hu, W. and Wang, H. and Lu, M. and Shao, C. and Menzel, C. and Yan, Z. and Li, Y. and Zhao, S. and Khaitovich, P. and Liu, M. and Chen, W. and Barnes, B.M. and Yang, J.
Physiological Genomics 42A (1): 39-51. September 2010

Outer membrane pore protein prediction in mycobacteria using genomic comparison.
Mah, N. and Perez-Iratxeta, C. and Andrade-Navarro, M.A.
Microbiology 156 (Pt 8): 2506-2515. August 2010

Gene targeting by homologous recombination in mouse zygotes mediated by zinc-finger nucleases.
Meyer, M. and de Angelis, M.H. and Wurst, W. and Kuehn, R.
Proceedings of the National Academy of Sciences of the United States of America 107 (34): 15022-15026. 24 August 2010

Pseudogenes as an alternative source of natural antisense transcripts.
Muro, E.M. and Andrade-Navarro, M.A.
BMC Evolutionary Biology 10 (1): 338. 3 November 2010

Toward cardiovascular MRI at 7 T: clinical needs, technical solutions and research promises.
Niendorf, T. and Sodickson, D.K. and Krombach, G.A. and Schulz-Menger, J.
European Radiology 20 (12): 2806-2816. December 2010

MLTrends: Graphing MEDLINE term usage over time.
Palidwor, G.A. and Andrade-Navarro, M.A.
Journal of Biomedical Discovery and Collaboration 5 : 1-6. 25 January 2010

Altered histone acetylation is associated with age-dependent memory impairment in mice.
Peleg, S. and Sananbenesi, F. and Zovoilis, A. and Burkhardt, S. and Bahari-Javan, S. and Agis-Balboa, R.C. and Cota, P. and Wittnam, J.L. and Gogol-Doering, A. and Opitz, L. and Salinas-Riester, G. and Dettenhofer, M. and Kang, H. and Farinelli, L. and Chen, W. and Fischer, A.
Science 328 (5979): 753-756. 7 May 2010

Cis-regulatory characterization of sequence conservation surrounding the Hox4 genes.
Punnamoottil, B. and Herrmann, C. and Pascual-Anaya, J. and D'Aniello, S. and Garcia-Fernandez, J. and Akalin, A. and Becker, T.S. and Rinkwitz, S.
Developmental Biology 340 (2): 269-282. 15 April 2010

Tumor necrosis factor receptor superfamily member 19 (TNFRSF19) regulates differentiation fate of human mesenchymal (stromal) stem cells through canonical Wnt signaling and C/EBP.
Qiu, W. and Hu, Y. and Andersen, T.E. and Jafari, A. and Li, N. and Chen, W. and Kassem, M.
Journal of Biological Chemistry 285 (19): 14438-14449. 7 May 2010

An atlas of combinatorial transcriptional regulation in mouse and man.
Ravasi, T. and Suzuki, H. and Cannistraci, C.V. and Katayama, S. and Bajic, V.B. and Tan, K. and Akalin, A. and Schmeier, S. and Kanamori-Katayama, M. and Bertin, N. and Carninci, P. and Daub, C.O. and Forrest, A.R.R. and Gough, J. and Grimmond, S. and Han, J.H. and Hashimoto, T. and Hide, W. and Hofmann, O. and Kamburov, A. and Kaur, M. and Kawaji, H. and Kubosaki, A. and Lassmann, T. and van Nimwegen, E. and MacPherson, C.R. and Ogawa, C. and Radovanovic, A. and Schwartz, A. and Teasdale, R.D. and Tegner, J. and Lenhard, B. and Teichmann, S.A. and Arakawa, T. and Ninomiya, N. and Murakami, K. and Tagami, M. and Fukuda, S. and Imamura, K. and Kai, C. and Ishihara, R. and Kitazume, Y. and Kawai, J. and Hume, D.A. and Ideker, T. and Hayashizaki, Y.
Cell 140 (5): 744-752. 5 March 2010

CYNTENATOR: progressive gene order alignment of 17 vertebrate genomes.
Roedelsperger, C. and Dieterich, C.
PLoS ONE 5 (1): e8861. 28 January 2010

Mass spectrometry tools for the classification and identification of bacteria.
Sauer, S. and Kliem, M.
Nature Reviews Microbiology 8 (1): 74-82. 1 January 2010

Efficient and detailed model of the local Ca(2+) release unit in the ventricular cardiac myocyte.
Schendel, T. and Falcke, M.
Genome Informatics 22 (1): 142-155. January 2010

Transcriptional profiling of skeletal muscle reveals factors that are necessary to maintain satellite cell integrity during ageing.
Scime, A. and Desrosiers, J. and Trensz, F. and Palidwor, G.A. and Caron, A.Z. and Andrade-Navarro, M.A. and Grenier, G.
Mechanisms of Ageing and Development 131 (1): 9-20. January 2010

Comprehensive survey of human brain microRNA by deep sequencing.
Shao, N.Y. and Hu, H.Y. and Yan, Z. and Xu, Y. and Hu, H. and Menzel, C. and Li, N. and Chen, W. and Khaitovich, P.
BMC Genomics 11 (1): 409. 30 June 2010

Deciphering the porcine intestinal microRNA transcriptome.
Sharbati, S. and Friedlaender, M.R. and Sharbati, J. and Hoeke, L. and Chen, W. and Keller, A. and Stahler, P.F. and Rajewsky, N. and Einspanier, R.
BMC Genomics 11 (1): 275. 30 April 2010

Statistical analysis of calcium oscillations.
Skupin, A. and Falcke, M.
European Physical Journal - Special Topics 187 (1): 231-240. September 2010

Calcium signals driven by single channel noise.
Skupin, A. and Kettenmann, H. and Falcke, M.
PLoS Computational Biology 6 (8): e1000870. 5 August 2010

Advanced CMR imaging techniques: spiral, radial, and parallel imaging.
Sodickson, D.K. and Niendorf, T.
In: Cardiovascular magnetic resonance. Saunders Elsevier, Philadelphia, Pa., 37-56. ISBN 978-0-443-06686-3 2010

MicroRNA, mRNA, and protein expression link development and aging in human and macaque brain.
Somel, M. and Guo, S. and Fu, N. and Yan, Z. and Hu, H.Y. and Xu, Y. and Yuan, Y. and Ning, Z. and Hu, Y. and Menzel, C. and Hu, H. and Lachmann, M. and Zeng, R. and Chen, W. and Khaitovich, P.
Genome Research 20 (9): 1207-1218. September 2010

The microRNA miR-182 is induced by IL-2 and promotes clonal expansion of activated helper T lymphocytes.
Stittrich, A.B. and Haftmann, C. and Sgouroudis, E. and Kuehl, A.A. and Hegazy, A.N. and Panse, I. and Riedel, R. and Flossdorf, M. and Dong, J. and Fuhrmann, F. and Heinz, G.A. and Fang, Z. and Li, N. and Bissels, U. and Hatam, F. and Jahn, A. and Hammoud, B. and Matz, M. and Schulze, F.M. and Baumgrass, R. and Bosio, A. and Mollenkopf, H.J. and Gruen, J. and Thiel, A. and Chen, W. and Hoefer, T. and Loddenkemper, C. and Loehning, M. and Chang, H.D. and Rajewsky, N. and Radbruch, A. and Mashreghi, M.F.
Nature Immunology 11 (11): 1057-1062. November 2010

The CHK2-BRCA1 tumour suppressor pathway ensures chromosomal stability in human somatic cells.
Stolz, A. and Ertych, N. and Kienitz, A. and Vogel, C. and Schneider, V. and Fritz, B. and Jacob, R. and Dittmar, G. and Weichert, W. and Petersen, I. and Bastians, H.
Nature Cell Biology 12 (5): 492-499. May 2010

Armadillo motifs involved in vesicular transport.
Striegl, H. and Andrade-Navarro, M.A. and Heinemann, U.
PLoS ONE 5 (2): e8991. 1 February 2010

Comparison of k-t SENSE/k-t BLAST with conventional SENSE applied to BOLD fMRI.
Utting, J.F. and Kozerke, S. and Schnitker, R. and Niendorf, T.
Journal of Magnetic Resonance Imaging 32 (1): 235-241. July 2010

A transcriptional roadmap to the induction of pluripotency in somatic cells.
Wang, Y. and Mah, N. and Prigione, A. and Wolfrum, K. and Andrade-Navarro, M.A. and Adjaye, J.
Stem Cell Reviews 6 (2): 282-296. June 2010

alpha(1A)-adrenergic receptor-directed autoimmunity induces left ventricular damage and diastolic dysfunction in rats.
Wenzel, K. and Wallukat, G. and Qadri, F. and Huebner, N. and Schulz, H. and Hummel, O. and Herse, F. and Heuser, A. and Fischer, R. and Heidecke, H. and Luft, F.C. and Mueller, D.N. and Dietz, R. and Dechend, R.
PLoS ONE 5 (2): e9409. 24 February 2010

The transcription factor grainyhead-like 2 regulates the molecular composition of the epithelial apical junctional complex.
Werth, M. and Walentin, K. and Aue, A. and Schoenheit, J. and Wuebken, A. and Pode-Shakked, N. and Vilianovitch, L. and Erdmann, B. and Dekel, B. and Bader, M. and Barasch, J. and Rosenbauer, F. and Luft, F.C. and Schmidt-Ott, K.M.
Development 137 (22): 3835-3845. November 2010

Metabolomics: an emerging post-genomic tool for nutrition.
Whitfield, P. and Kirwan, J.
In: Genomics, proteomics, and metabolomics in nutraceuticals and functional foods. Blackwell Publishing, 271-285. ISBN 9780813814025 25 March 2010

Targeted proteomics for Chlamydomonas reinhardtii combined with rapid subcellular protein fractionation, metabolomics and metabolic flux analyses.
Wienkoop, S. and Weiss, J. and May, P. and Kempa, S. and Irgang, S. and Recuenco-Munoz, L. and Pietzke, M. and Schwemmer, T. and Rupprecht, J. and Egelhofer, V. and Weckwerth, W.
Molecular BioSystems 6 (6): 1018-1031. 18 June 2010

Signal/noise analysis of FRET-based sensors.
Woehler, A. and Wlodarczyk, J. and Neher, E.
Biophysical Journal 99 (7): 2344-2354. 6 October 2010

Intergenic and repeat transcription in human, chimpanzee and macaque brains measured by RNA-Seq.
Xu, A.G. and He, L. and Li, Z. and Xu, Y. and Li, M. and Fu, X. and Yan, Z. and Yuan, Y. and Menzel, C. and Li, N. and Somel, M. and Hu, H. and Chen, W. and Paeaebo, S. and Khaitovich, P.
PLoS Computational Biology 6 (7): e1000843. 1 July 2010

Loss of fish actinotrichia proteins and the fin-to-limb transition.
Zhang, J. and Wagh, P. and Guay, D. and Sanchez-Pulido, L. and Padhi, B.K. and Korzh, V. and Andrade-Navarro, M.A. and Akimenko, M.A.
Nature 466 (7303): 234-237. 8 July 2010

Leading-edge-gel coupling in lamellipodium motion.
Zimmermann, J. and Enculescu, M. and Falcke, M.
Physical Review E 82 (5): 051925. 18 November 2010

Cardiac chamber quantification using magnetic resonance imaging at 7 Tesla-a pilot study.
von Knobelsdorff-Brenkenhoff, F. and Frauenrath, T. and Prothmann, M. and Dieringer, M.A. and Hezel, F. and Renz, W. and Kretschel, K. and Niendorf, T. and Schulz-Menger, J.
European Radiology 20 (12): 2844-2852. December 2010

2009

Gene knockout protocols.
Wurst, W. and Kuehn, R., eds.
Methods in Molecular Biology, 530 . Springer / Humana Press (U.S.A.). ISBN 978-1-934115-26-8 2009

Transcriptional features of genomic regulatory blocks.
Akalin, A. and Fredman, D. and Arner, E and Dong, X and Bryne, JC and Suzuki, H. and Daub, CO and Hayashizaki, Y and Lenhard, B
Genome Biology 10 (4): R38. 19 April 2009

Mitochondrial vesicles: an ancient process providing new links to peroxisomes.
Andrade-Navarro, M.A. and Sanchez-Pulido, L. and McBride, H.M.
Current Opinion in Cell Biology 21 (4): 560-567. August 2009

Identification of novel transcriptional regulators involved in macrophage differentiation and activation in U937 cells.
Baek, Y.-S. and Haas, S. and Hackstein, H. and Bein, G. and Hernandez-Santana, M. and Lehrach, H. and Sauer, S. and Seitz, H.
BMC Immunology 10 : 18. 2 April 2009

Zebrafish enhancer detection (ZED) vector: a new tool to facilitate transgenesis and the functional analysis of cis-regulatory regions in zebrafish.
Bessa, J. and Tena, J.J. and de la Calle-Mustienes, E. and Fernandez-Minan, A. and Naranjo, S. and Fernandez, A. and Montoliu, L. and Akalin, A. and Lenhard, B. and Casares, F. and Gomez-Skarmeta, J.L.
Developmental Dynamics 238 (9): 2409-2417. September 2009

DNA methylation protects hematopoietic stem cell multipotency from myeloerythroid restriction.
Broeske, A.M. and Vockentanz, L. and Kharazi, S. and Huska, M.R. and Mancini, E. and Scheller, M. and Kuhl, C. and Enns, A. and Prinz, M. and Jaenisch, R. and Nerlov, C. and Leutz, A. and Andrade-Navarro, M.A. and Jacobsen, S.E. and Rosenbauer, F.
Nature Genetics 41 (11): 1207-1215. November 2009

The functional annotation of mammalian genomes: the challenge of phenotyping.
Brown, S.D.M. and Wurst, W. and Kuehn, R. and Hancock, J.M.
Annual Review of Genetics 43 : 305-333. December 2009

An integrative approach towards completing genome-scale metabolic networks.
Christian, N. and May, P. and Kempa, S. and Handorf, T. and Ebenhoeh, O.
Molecular BioSystems 5 (12): 1889-1903. December 2009

Quantification of target proteins using hydrogel antibody arrays and MALDI time-of-flight mass spectrometry (A2M2S).
Darii, E. and Lebeau, D. and Papin, N. and Rubina, A.Y. and Stomakhin, A. and Tost, J. and Sauer, S. and Savvateeva, E. and Dementieva, E. and Zasedatelev, A. and Makarov, A.A. and Gut, I.G.
New Biotechnology 25 (6): 404-416. 15 September 2009

Local knockdown of ERK2 in the adult mouse brain via adeno-associated virus-mediated RNA interference.
Di Benedetto, B. and Wefers, B. and Wurst, W. and Kuehn, R.
Molecular Biotechnology 41 (3): 263-269. March 2009

How to become a parasite - lessons from the genomes of nematodes.
Dieterich, C. and Sommer, R.J.
Trends in Genetics 25 (5): 203-209. May 2009

Novel insights into proteomic technologies and their clinical perspective.
Dittmar, G. and Selbach, M.
Genome Medicine 1 (5): 53. 21 May 2009

Introduction to focus issue: intracellular Ca2+ dynamics--a change of modeling paradigm?
Falcke, M.
Chaos 19 (3): 037101. September 2009

MedlineRanker: flexible ranking of biomedical literature.
Fontaine, J.F. and Barbosa-Silva, A. and Schaefer, M. and Huska, M.R. and Muro, E.M. and Andrade-Navarro, M.A.
Nucleic Acids Research 37 (Web Server Issue): W141-W146. 1 July 2009

Increasing the number of thyroid lesions classes in microarray analysis improves the relevance of diagnostic markers.
Fontaine, J.F. and Mirebeau-Prunier, D. and Raharijaona, M. and Franc, B. and Triau, S. and Rodien, P. and Goeau-Brissonniere, O. and Karayan-Tapon, L. and Mello, M. and Houlgatte, R. and Malthiery, Y. and Savagner, F.
PLoS ONE 4 (10): e7632. 29 October 2009

Feasibility of cardiac gating free of interference with electro-magnetic fields at 1.5 Tesla, 3.0 Tesla and 7.0 Tesla using an MR-stethoscope.
Frauenrath, T. and Hezel, F. and Heinrichs, U. and Kozerke, S. and Utting, J.F. and Kob, M. and Butenweg, C. and Boesiger, P. and Niendorf, T.
Investigative Radiology 44 (9): 539-547. September 2009

Phylogenetic classification and identification of bacteria by mass spectrometry.
Freiwald, A. and Sauer, S.
Nature Protocols 4 (5): 732-742. 23 April 2009

3PD: Rapid design of optimal primers for chromosome conformation capture assays.
Froehler, S. and Dieterich, C.
BMC Genomics 10 (1): 635. 29 December 2009

Estimating accuracy of RNA-Seq and microarrays with proteomics.
Fu, X. and Fu, N. and Guo, S. and Yan, Z. and Xu, Y. and Hu, H. and Menzel, C. and Chen, W. and Li, Y. and Zeng, R. and Khaitovich, P.
BMC Genomics 10 : 161. 16 April 2009

A kinetic model of the inositol trisphosphate receptor based on single-channel data.
Gin, E. and Falcke, M. and Wagner, L.E. and Yule, D.I. and Sneyd, J.
Biophysical Journal 96 (10): 4053-4062. 20 May 2009

Markov chain Monte Carlo fitting of single-channel data from inositol trisphosphate receptors.
Gin, E. and Falcke, M. and Wagner, L.E. and Yule, D.I. and Sneyd, J.
Journal of Theoretical Biology 257 (3): 460-474. 7 April 2009

Stress-induced dilated cardiomyopathy in a knock-in mouse model mimicking human titin-based disease.
Gramlich, M. and Michely, B. and Krohne, C. and Heuser, A. and Erdmann, B. and Klaassen, S. and Hudson, B. and Magarin, M. and Kirchner, F. and Todiras, M. and Granzier, H. and Labeit, S. and Thierfelder, L. and Gerull, B.
Journal of Molecular and Cellular Cardiology 47 (3): 352-358. September 2009

Clinical variability in distal spinal muscular atrophy type 1 (DSMA1): determination of steady-state IGHMBP2 protein levels in five patients with infantile and juvenile disease.
Guenther, U.P. and Handoko, L. and Varon, R. and Stephani, U. and Tsao, C.Y. and Mendell, J.R. and Lützkendorf, S. and Hübner, C. and von Au, K. and Jablonka, S. and Dittmar, G. and Heinemann, U. and Schuetz, A. and Schuelke, M.
Journal of Molecular Medicine 87 (1): 31-41. January 2009

Structural appearance of linker histone H1/siRNA complexes.
Haberland, A. and Zaitsev, S. and Waldoefner, N. and Erdmann, B. and Boettger, M. and Henke, W.
Molecular Biology Reports 36 (5): 1083-1093. May 2009

Myocardial T(2) (*) mapping free of distortion using susceptibility-weighted fast spin-echo imaging: A feasibility study at 1.5 T and 3.0 T.
Heinrichs, U. and Utting, J.F. and Frauenrath, T. and Hezel, F. and Krombach, G.A. and Hodenius, M.A. and Kozerke, S. and Niendorf, T.
Magnetic Resonance in Medicine 62 (3): 822-828. September 2009

Waiting time distributions for clusters of IP3 receptors.
Higgins, E.R. and Schmidle, H. and Falcke, M.
Journal of Theoretical Biology 259 (2): 338-349. 21 July 2009

Generation of shRNA transgenic mice.
Hitz, C. and Steuber-Buchberger, P. and Delic, S. and Wurst, W. and Kuehn, R.
Methods in Molecular Biology 530 : 101-129. 2009

Mutation screening in 86 known X-linked mental retardation genes by droplet-based multiplex PCR and massive parallel sequencing.
Hu, H. and Wrogemann, K. and Kalscheuer, V. and Tzschach, A. and Richard, H. and Haas, S.A. and Menzel, C. and Bienek, M. and Froyen, G. and Raynaud, M. and Van Bokhoven, H. and Chelly, J. and Ropers, H. and Chen, W.
HUGO Journal 3 (1-4): 41-49. December 2009

Sequence features associated with microRNA strand selection in humans and flies.
Hu, H.Y. and Yan, Z. and Xu, Y. and Hu, H. and Menzel, C. and Zhou, Y.H. and Chen, W. and Khaitovich, P.
BMC Genomics 10 : 413. 4 September 2009

Comparative analysis of an experimental subcellular protein localization assay and in silico prediction methods.
Hu, Y. and Lehrach, H. and Janitz, M.
Journal of Molecular Histology 40 (5-6): 343-352. October 2009

Death-associated protein 3 is overexpressed in human thyroid oncocytic tumours.
Jacques, C. and Fontaine, J.F. and Franc, B. and Mirebeau-Prunier, D. and Triau, S. and Savagner, F. and Malthiery, Y.
British Journal of Cancer 101 (1): 132-138. 7 July 2009

An automated GCxGC-TOF-MS protocol for batch-wise extraction and alignment of mass isotopomer matrixes from differential 13C-labelling experiments: a case study for photoautotrophic-mixotrophic grown Chlamydomonas reinhardtii cells.
Kempa, S. and Hummel, J. and Schwemmer, T. and Pietzke, M. and Strehmel, N. and Wienkoop, S. and Kopka, J. and Weckwerth, W.
Journal of Basic Microbiology 49 (1): 82-91. February 2009

Overview on mouse mutagenesis.
Kuehn, R. and Wurst, W.
Methods in Molecular Biology 530 : 1-12. 2009

Carbon metabolism and bacteroid functioning are involved in the regulation of nitrogen fixation in Medicago truncatula under drought and recovery.
Larrainzar, E. and Wienkoop, S. and Scherling, C. and Kempa, S. and Ladrera, R. and Arrese-Igor, C. and Weckwerth, W. and Gonzalez, E.M.
Molecular Plant-Microbe Interactions 22 (12): 1565-1576. December 2009

ChlamyCyc: an integrative systems biology database and web-portal for Chlamydomonas reinhardtii.
May, P. and Christian, J.O. and Kempa, S. and Walther, D.
BMC Genomics 10 : 209. 4 May 2009

Use of SNP-arrays for ChIP assays: computational aspects.
Muro, E.M. and McCann, J.A. and Rudnicki, M.A. and Andrade-Navarro, M.A.
Methods in Molecular Biology 567 : 145-154. 2009

Method for automatic motion analysis and quality assurance in cardiovascular Magnetic Resonance Imaging.
Niendorf, T. and Hezel, F.
DE 10 2009 011 382.7. 2009

High-field cardiovascular MRI makes sustained progress: Gains in spatial and temporal resolution can help streamline structural and functional cardiac imaging.
Niendorf, T. and Krombach, G.A. and Sodickson, D.K.
Diagnostic Imaging Europe 25 (5): 2009. 1 August 2009

Detection of alpha-rod protein repeats using a neural network and application to huntingtin.
Palidwor, G.A. and Shcherbinin, S. and Huska, M.R. and Rasko, T. and Stelzl, U. and Arumughan, A. and Foulle, R. and Porras, P. and Sanchez-Pulido, L. and Wanker, E.E. and Andrade-Navarro, M.A.
PLoS Computational Biology 5 (3): e1000304. 13 March 2009

Connective tissue growth factor overexpression in cardiomyocytes promotes cardiac hypertrophy and protection against pressure overload.
Panek, A.N. and Posch, M.G. and Alenina, N. and Ghadge, S.K. and Erdmann, B. and Popova, E. and Perrot, A. and Geier, C. and Dietz, R. and Morano, I. and Bader, M. and Oezcelik, C.
PLoS ONE 4 (8): e6743. 25 August 2009

Growth arrest specific protein 6 participates in DOCA-induced target-organ damage.
Park, J.K. and Theuer, S. and Kirsch, T. and Lindschau, C. and Klinge, U. and Heuser, A. and Plehm, R. and Todiras, M. and Carmeliet, P. and Haller, H. and Luft, F.C. and Mueller, D.N. and Fiebeler, A.
Hypertension 54 (2): 359-364. August 2009

The tumor-associated antigen EBAG9 negatively regulates the cytolytic capacity of mouse CD8+ T cells.
Rueder, C. and Hoepken, U.E. and Wolf, J. and Mittruecker, H.W. and Engels, B. and Erdmann, B. and Wollenzin, S. and Uckert, W. and Doerken, B. and Rehm, A.
Journal of Clinical Investigation 119 (8): 2184-2203. August 2009

Recent developments in StemBase: a tool to study gene expression in human and murine stem cells.
Sandie, R. and Palidwor, G.A. and Huska, M.R. and Porter, C.J. and Krzyzanowski, P.M. and Muro, E.M. and Perez-Iratxeta, C. and Andrade-Navarro, M.A.
BMC Research Notes 2 (1): 39. 10 March 2009

Global analysis of cellular protein translation by pulsed SILAC.
Schwanhaeusser, B. and Gossen, M. and Dittmar, G. and Selbach, M.
Proteomics 9 (1): 205-209. January 2009

mGene: Accurate SVM-based gene finding with an application to nematode genomes.
Schweikert, G. and Zien, A. and Zeller, G. and Behr, J. and Dieterich, C. and Ong, C.S. and Philips, P. and De Bona, F. and Hartmann, L. and Bohlen, A. and Krueger, N. and Sonnenburg, S. and Raetsch, G.
Genome Research 19 (11): 2133-2143. November 2009

From puffs to global Ca2+ signals: how molecular properties shape global signals.
Skupin, A. and Falcke, M.
Chaos 19 (3): 037111. 18 September 2009

Large-scale sorting of C. elegans embryos reveals the dynamics of small RNA expression.
Stoeckius, M. and Maaskola, J. and Colombo, T. and Rahn, H.P. and Friedlaender, M.R. and Li, N. and Chen, W. and Piano, F. and Rajewsky, N.
Nature Methods 6 (10): 745-751. October 2009

Association mapping reveals gene action and interactions in the determination of flowering time in barley.
Stracke, S. and Haseneyer, G. and Veyrieras, J.B. and Geiger, H.H. and Sauer, S. and Graner, A. and Piepho, H.P.
Theoretical and Applied Genetics 118 (2): 259-273. January 2009

The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.
Suzuki, H and Forrest, ARR and van Nimwegen, E and Daub, CO and Balwierz, PJ and Irvine, KM and Lassmann, T and Ravasi, T and Hasegawa, Y and de Hoon, MJL and Katayama, S and Schroder, K and Carninci, P and Tomaru, Y and Kanamori-Katayama, M and Kubosaki, A and Akalin, A. and Ando, Y and Arner, E and Asada, M and Asahara, H and Bailey, T and Bajic, VB and Bauer, D and Beckhouse, AG and Bertin, N and Björkegren, J and Brombacher, F and Bulger, E and Chalk, AM and Chiba, J and Cloonan, N and Dawe, A and Dostie, J and Engstroem, PG and Essack, M and Faulkner, GJ and Fink, JL and Fredman, D and Fujimori, K and Furuno, M and Gojobori, T and Gough, J and Grimmond, SM and Gustafsson, M and Hashimoto, M and Hashimoto, T and Hatakeyama, M and Heinzel, S and Hide, W and Hofmann, O and Hörnquist, M and Huminiecki, L and Ikeo, K and Imamoto, N and Inoue, S and Inoue, Y and Ishihara, R and Iwayanagi, T and Jacobsen, A and Kaur, M and Kawaji, H and Kerr, MC and Kimura, R and Kimura, S and Kimura, Y and Kitano, H and Koga, H and Kojima, T and Kondo, S and Konno, T and Krogh, A and Kruger, A and Kumar, A and Lenhard, B and Lennartsson, A and Lindow, M and Lizio, M and Macpherson, C and Maeda, N and Maher, CA and Maqungo, M and Mar, J and Matigian, NA and Matsuda, H and Mattick, JS and Meier, S and Miyamoto, S and Miyamoto-Sato, E and Nakabayashi, K and Nakachi, Y and Nakano, M and Nygaard, S and Okayama, T and Okazaki, Y and Okuda-Yabukami, H and Orlando, V and Otomo, J and Pachkov, M and Petrovsky, N and Plessy, C and Quackenbush, J and Radovanovic, A and Rehli, M and Saito, R and Sandelin, A and Schmeier, S and Schönbach, C and Schwartz, AS and Semple, CA and Sera, M and Severin, J and Shirahige, K and Simons, C and St Laurent, G and Suzuki, M and Suzuki, T and Sweet, MJ and Taft, RJ and Takeda, S and Takenaka, Y and Tan, K and Taylor, MS and Teasdale, RD and Tegnér, J and Teichmann, S and Valen, E and Wahlestedt, C and Waki, K and Waterhouse, A and Wells, CA and Winther, O and Wu, L and Yamaguchi, K and Yanagawa, H and Yasuda, J and Zavolan, M and Hume, DA and Arakawa, T and Fukuda, S and Imamura, K and Kai, C and Kaiho, A and Kawashima, T and Kawazu, C and Kitazume, Y and Kojima, M and Miura, H and Murakami, K and Murata, M and Ninomiya, N and Nishiyori, H and Noma, S and Ogawa, C and Sano, T and Simon, C and Tagami, M and Takahashi, Y and Kawai, J and Hayashizaki, Y
Nature Genetics 41 (5): 553-562. May 2009

Clustering of InsP3 receptors by InsP3 retunes their regulation by InsP3 and Ca2+.
Taufiq-Ur-Rahman, and Skupin, A. and Falcke, M. and Taylor, C.W.
Nature 458 (7238): 655-659. 2 April 2009

Toward a predictive model of Ca2+ puffs.
Thul, R. and Thurley, K. and Falcke, M.
Chaos 19 (3): 037108. 18 September 2009

Linking genes to diseases: it's all in the data.
Tiffin, N. and Andrade-Navarro, M.A. and Perez-Iratxeta, C.
Genome Medicine 1 (8): 77. 7 August 2009

Feasibility of k-t BLAST for BOLD fMRI with a spin-echo based acquisition at 3 T and 7 T.
Utting, J.F. and Kozerke, S. and Luechinger, R. and Schnitker, R. and Vohn, R. and Bhanniny, R. and Tilbian, M. and Niendorf, T.
Investigative Radiology 44 (9): 495-502. September 2009

G protein - mediated signaling: same receptor, multiple effectors.
Woehler, A. and Ponimaskin, E.G.
Current Molecular Pharmacology 2 (3): 237-248. November 2009

Specific oligomerization of the 5-HT1A receptor in the plasma membrane.
Woehler, A. and Wlodarczyk, J. and Ponimaskin, E.G.
Glycoconjugate Journal 26 (6): 749-756. August 2009

Modeling of the modulation by buffers of Ca2+ release through clusters of IP3 receptors.
Zeller, S. and Ruediger, S. and Engel, H. and Sneyd, J. and Warnecke, G. and Parker, I. and Falcke, M.
Biophysical Journal 97 (4): 992-1002. 19 August 2009

2008

Mapping translocation breakpoints by next-generation sequencing.
Chen, W. and Kalscheuer, V. and Tzschach, A. and Menzel, C. and Ullmann, R. and Schulz, M.H. and Erdogan, F. and Li, N. and Kijas, Z. and Arkesteijn, G. and Pajares, I.L. and Goetz-Sothmann, M. and Heinrich, U. and Rost, I. and Dufke, A. and Grasshoff, U. and Glaeser, B. and Vingron, M. and Ropers, H.H.
Genome Research 18 (7): 1143-1149. July 2008

Novel caspase-suicide proteins for tamoxifen-inducible apoptosis.
Chu, Y. and Senghaas, N. and Koester, R.W. and Wurst, W. and Kuehn, R.
Genesis 46 (10): 530-536. October 2008

Genetic mouse models for behavioral analysis through transgenic RNAi technology.
Delic, S. and Streif, S. and Deussing, J.M. and Weber, P. and Ueffing, M. and Hoelter, S.M. and Wurst, W. and Kuehn, R.
Genes Brain and Behavior 7 (7): 821-830. October 2008

The Pristionchus pacificus genome provides a unique perspective on nematode lifestyle and parasitism.
Dieterich, C. and Clifton, S.W. and Schuster, L.N. and Chinwalla, A. and Delehaunty, K. and Dinkelacker, I. and Fulton, L. and Fulton, R. and Godfrey, J. and Minx, P. and Mitreva, M. and Roeseler, W. and Tian, H. and Witte, H. and Yang, S.P. and Wilson, R.K. and Sommer, R.J.
Nature Genetics 40 (10): 1193-1198. October 2008

A Caenorhabditis motif compendium for studying transcriptional gene regulation.
Dieterich, C. and Sommer, R.J.
BMC Genomics 9 : 30. 23 January 2008

Dynamic regimes and bifurcations in a model of actin-based motility.
Enculescu, M. and Gholami, A. and Falcke, M.
Physical Review E 78 (3 Pt 1): 031915. September 2008

A human snoRNA with microRNA-like functions.
Ender, C. and Krek, A. and Friedlaender, M.R. and Beitzinger, M. and Weinmann, L. and Chen, W. and Pfeffer, S. and Rajewsky, N. and Meister, G.
Molecular Cell 32 (4): 519-528. 21 November 2008

High frequency of submicroscopic genomic aberrations detected by tiling path array comparative genome hybridisation in patients with isolated congenital heart disease.
Erdogan, F. and Larsen, L.A. and Zhang, L. and Tuemer, Z. and Tommerup, N. and Chen, W. and Jacobsen, J.R. and Schubert, M. and Jurkatis, J. and Tzschach, A. and Ropers, H.H. and Ullmann, R.
Journal of Medical Genetics 45 (11): 704-709. November 2008

Announcement: Focus issue on "Intracellular Ca(2+) Dynamics- A Change of Modeling Paradigm?".
Falcke, M.
Chaos 18 (4): 040201. December 2008

Dietary n-3 polyunsaturated fatty acids and direct renin inhibition improve electrical remodeling in a model of high human renin hypertension.
Fischer, R. and Dechend, R. and Qadri, F. and Markovic, M. and Feldt, S. and Herse, F. and Park, J.K. and Gapelyuk, A. and Schwarz, I. and Zacharzowsky, U.B. and Plehm, R. and Safak, E. and Heuser, A. and Schirdewan, A. and Luft, F.C. and Schunck, W.H. and Mueller, D.N.
Hypertension 51 (2): 540-546. February 2008

Acoustic method for synchronization of Magnetic Resonance Imaging (MRI).
Frauenrath, T. and Niendorf, T. and Kob, M.
Acta Acustica united with Acustica 94 (1): 148-155. 1 January 2008

Discovering microRNAs from deep sequencing data using miRDeep.
Friedlaender, M.R. and Chen, W. and Adamidi, C. and Maaskola, J. and Einspanier, R. and Knespel, S. and Rajewsky, N.
Nature Biotechnology 26 (4): 407-415. April 2008

Beyond the sarcomere: CSRP3 mutations cause hypertrophic cardiomyopathy.
Geier, C. and Gehmlich, K. and Ehler, E. and Hassfeld, S. and Perrot, A. and Hayess, K. and Cardim, N. and Wenzel, K. and Erdmann, B. and Krackhardt, F. and Posch, M.G. and Bublak, A. and Naegele, H. and Scheffold, T. and Dietz, R. and Chien, K.R. and Spuler, S. and Fuerst, D.O. and Nuernberg, P. and Oezcelik, C.
Human Molecular Genetics 17 (18): 2753-2765. 15 September 2008

Velocity oscillations in actin-based motility.
Gholami, A. and Falcke, M. and Frey, E.
New Journal of Physics 10 : 033022. 12 March 2008

Evolution of a core gene network for skeletogenesis in chordates.
Hecht, J. and Stricker, S. and Wiecha, U. and Stiege, A. and Panopoulou, G. and Podsiadlowski, L. and Poustka, A.J. and Dieterich, C. and Ehrich, S. and Suvorova, J. and Mundlos, S. and Seitz, V.
PLoS Genetics 4 (3): e1000025. 21 March 2008

Synthesis, physicochemical characterization and MR relaxometry of aqueous ferrofluids.
Hodenius, M.A. and Niendorf, T. and Krombach, G.A. and Richtering, W. and Eckert, T. and Lueken, H. and Speldrich, M. and Guenther, R.W. and Baumann, M. and Soenen, S.J. and De Cuyper, M. and Schmitz-Rode, T.
Journal of Nanoscience and Nanotechnology 8 (5): 2399-2409. May 2008

MRT des Darms bei Kindern: beschleunigte Bildgebung in einem Atemzug [Pediatric bowel MRI: accelerated parallel imaging in a single breathhold].
Hohl, C. and Honnef, D. and Krombach, G. and Ocklenburg, C. and Muehlenbruch, G. and Wenzl, T.G. and Guenther, R.W. and Niendorf, T.
RoeFo Fortschritte auf dem Gebiete der Roentgenstrahlen und der neuen bildgebenden Verfahren 180 (5): 402-409. May 2008

A central role of abscisic acid in stress-regulated carbohydrate metabolism.
Kempa, S. and Krasensky, J. and Dal Santo, S. and Kopka, J. and Jonak, C.
PLoS ONE 3 (12): e3935. 12 December 2008

Comparative genome hybridization suggests a role for NRXN1 and APBA2 in schizophrenia.
Kirov, G. and Gumus, D. and Chen, W. and Norton, N. and Georgieva, L. and Sari, M. and O'Donovan, M.C. and Erdogan, F. and Owen, M.J. and Ropers, H.H. and Ullmann, R.
Human Molecular Genetics 17 (3): 458-465. 1 February 2008

Mutations in sarcomere protein genes in left ventricular noncompaction.
Klaassen, S. and Probst, S. and Oechslin, E. and Gerull, B. and Krings, G. and Schuler, P. and Greutmann, M. and Huerlimann, D. and Yegitbasi, M. and Pons, L. and Gramlich, M. and Drenckhahn, J.D. and Heuser, A. and Berger, F. and Jenni, R. and Thierfelder, L.
Circulation 117 (22): 2893-2901. 3 June 2008

Stimulation- and palmitoylation-dependent changes in oligomeric conformation of serotonin 5-HT1A receptors.
Kobe, F. and Renner, U. and Woehler, A. and Wlodarczyk, J. and Papusheva, E. and Bao, G. and Zeug, A. and Richter, D. and Neher, E. and Ponimaskin, E.
Biochimica et Biophysica Acta - Molecular Cell Research 1783 (8): 1503-1516. August 2008

Estrogen and the inner ear: megalin knockout mice suffer progressive hearing loss.
Koenig, O. and Ruettiger, L. and Mueller, M. and Zimmermann, U. and Erdmann, B. and Kalbacher, H. and Gross, M. and Knipper, M.
FASEB Journal 22 (2): 410-417. February 2008

MicroRNAs in brain function and disease.
Kuss, A.W. and Chen, W.
Current neurology and neuroscience Reports 8 (3): 190-197. May 2008

Stochastic hierarchical systems: excitable dynamics.
Leonhardt, H. and Zaks, M.A. and Falcke, M. and Schimansky-Geier, L.
Journal of Biological Physics 34 (5): 521-538. October 2008

Metabolomics- and proteomics-assisted genome annotation and analysis of the draft metabolic network of Chlamydomonas reinhardtii.
May, P. and Wienkoop, S. and Kempa, S. and Usadel, B. and Christian, N. and Rupprecht, J. and Weiss, J. and Recuenco-Munoz, L. and Ebenhoeh, O. and Weckwerth, W. and Walther, D.J.
Genetics 179 (1): 157-166. 1 May 2008

Investigation of protein-tyrosine phosphatase 1B function by quantitative proteomics.
Mertins, P. and Eberl, H.C. and Renkawitz, J. and Olsen, J.V. and Tremblay, M.L. and Mann, M. and Ullrich, A. and Daub, H.
Molecular & Cellular Proteomics 7 (9): 1763-1777. September 2008

Soluble epoxide hydrolase is a susceptibility factor for heart failure in a rat model of human disease.
Monti, J. and Fischer, J. and Paskas, S. and Heinig, M. and Schulz, H. and Goesele, C. and Heuser, A. and Fischer, R. and Schmidt, C. and Schirdewan, A. and Gross, V. and Hummel, O. and Maatz, H. and Patone, G. and Saar, K. and Vingron, M. and Weldon, S.M. and Lindpaintner, K. and Hammock, B.D. and Rohde, K. and Dietz, R. and Cook, S.A. and Schunck, W.H. and Luft, F.C. and Huebner, N.
Nature Genetics 40 (5): 529-537. May 2008

Differential evolution of the 13 Atlantic salmon Hox clusters.
Mungpakdee, S. and Seo, H.C. and Angotzi, A.R. and Dong, X. and Akalin, A. and Chourrout, D.
Molecular Biology and Evolution 25 (7): 1333-1343. July 2008

Identification of gene 3' ends by automated EST cluster analysis.
Muro, E.M. and Herrington, R. and Janmohamed, S. and Frelin, C. and Andrade-Navarro, M.A. and Iscove, N.N.
Proceedings of the National Academy of Sciences of the United States of America 105 (51): 20286-20290. 23 December 2008

Adaptive numerical simulation of intracellular calcium dynamics using domain decomposition methods.
Nagaiah, C. and Ruediger, S. and Warnecke, G. and Falcke, M.
Applied Numerical Mathematics 58 (11): 1658-1674. November 2008

Cargo-selected transport from the mitochondria to peroxisomes is mediated by vesicular carriers.
Neuspiel, M. and Schauss, A.C. and Braschi, E. and Zunino, R. and Rippstein, P. and Rachubinski, R.A. and Andrade-Navarro, M.A. and McBride, H.M.
Current Biology 18 (2): 102-108. 22 January 2008

Method for susceptibility weighted, distortion free Magnetic Resonance Imaging of the cardiovascular system.
Niendorf, T. and Heinrichs, U.
DE 10 2007 045 172.7. 2008

Highly accelerated cardiovascular MR imaging using many channel technology: concepts and clinical applications.
Niendorf, T. and Sodickson, D.K.
European Radiology 18 (1): 87-102. January 2008

Selective inflammatory pain insensitivity in the African naked mole-rat (Heterocephalus glaber).
Park, T.J. and Lu, Y. and Juettner, R. and Smith, E.S.J. and Hu, J. and Brand, A. and Wetzel, C. and Milenkovic, N. and Erdmann, B. and Heppenstall, P.A. and Laurito, C.E. and Wilson, S.P. and Lewin, G.R.
PLoS Biology 6 (1): e13. 29 January 2008

K2D2: Estimation of protein secondary structure from circular dichroism spectra.
Perez-Iratxeta, C. and Andrade-Navarro, M.A.
BMC Structural Biology 8 (1): 25. 13 May 2008

A missense variant in desmoglein-2 predisposes to dilated cardiomyopathy.
Posch, M.G. and Posch, M.J. and Geier, C. and Erdmann, B. and Mueller, W. and Richter, A. and Ruppert, V. and Pankuweit, S. and Maisch, B. and Perrot, A. and Buttgereit, J. and Dietz, R. and Haverkamp, W. and Oezcelik, C.
Molecular Genetics and Metabolism 95 (1-2): 74-80. September 2008

Isolation of naturally associated bacteria of necromenic Pristionchus nematodes and fitness consequences.
Rae, R. and Riebesell, M. and Dinkelacker, I. and Wang, Q. and Herrmann, M. and Weller, A.M. and Dieterich, C. and Sommer, R.J.
Journal of Experimental Biology 211 (Pt 12): 1927-1936. June 2008

Syntenator: multiple gene order alignments with a gene-specific scoring function.
Roedelsperger, C. and Dieterich, C.
Algorithms for Molecular Biology 3 6 November 2008

Sortilin-related receptor with A-type repeats (SORLA) affects the amyloid precursor protein-dependent stimulation of ERK signaling and adult neurogenesis.
Rohe, M. and Carlo, A.S. and Breyhan, H. and Sporbert, A. and Militz, D. and Schmidt, V. and Wozny, C. and Harmeier, A. and Erdmann, B. and Bales, K.R. and Wolf, S.A. and Kempermann, G. and Paul, S.M. and Schmitz, D. and Bayer, T.A. and Willnow, T.E. and Andersen, O.M.
Journal of Biological Chemistry 283 (21): 14826-14834. 23 May 2008

Time-resolved 3D MR angiography of the foot at 3 T in patients with peripheral arterial disease.
Ruhl, K.M. and Katoh, M. and Langer, S. and Mommertz, G. and Guenther, R.W. and Niendorf, T. and Spuentrup, E.
American Journal of Roentgenology 190 (6): W360-W364. June 2008

Classification and identification of bacteria by mass spectrometry and computational analysis.
Sauer, S. and Freiwald, A. and Maier, T. and Kube, M. and Reinhardt, R. and Kostrzewa, M. and Geider, K.
PLOS ONE 3 (7): e2843. 30 July 2008

Epilepsy and mental retardation limited to females: an under-recognized disorder.
Scheffer, I.E. and Turner, S.J. and Dibbens, L.M. and Bayly, M.A. and Friend, K. and Hodgson, B. and Burrows, L. and Shaw, M. and Chen, W. and Ullmann, R. and Ropers, H.H. and Szepetowski, P. and Haan, E. and Mazarib, A. and Afawi, Z. and Neufeld, M.Y. and Andrews, P.I. and Wallace, G. and Kivity, S. and Lev, D. and Lerman-Sagie, T. and Derry, C.P. and Korczyn, A.D. and Gecz, J. and Mulley, J.C. and Berkovic, S.F.
Brain 131 (4): 918-927. April 2008

Comparison of image quality in magnetic resonance imaging of the knee at 1.5 and 3.0 Tesla using 32-channel receiver coils.
Schoth, F. and Kraemer, N. and Niendorf, T. and Hohl, C. and Gunther, R.W. and Krombach, G.A.
European Radiology 18 (10): 2258-2264. October 2008

How does intracellular Ca2+ oscillate: by chance or by the clock?
Skupin, A. and Kettenmann, H. and Winkler, U. and Wartenberg, M. and Sauer, H. and Tovey, S.C. and Taylor, C.W. and Falcke, M.
Biophysical Journal 94 (6): 2404-2411. 15 March 2008

Identification of outer membrane proteins of Mycobacterium tuberculosis.
Song, H. and Sandie, R. and Wang, Y. and Andrade-Navarro, M.A. and Niederweis, M.
Tuberculosis 88 (6): 526-544. November 2008

Simultaneous Cre-mediated conditional knockdown of two genes in mice.
Steuber-Buchberger, P. and Wurst, W. and Kuehn, R.
Genesis 46 (3): 144-151. March 2008

Prioritization of candidate disease genes for metabolic syndrome by computational analysis of its defining phenotypes.
Tiffin, N. and Okpechi, I. and Perez-Iratxeta, C. and Andrade-Navarro, M.A. and Ramesar, R.
Physiological Genomics 35 (1): 55-64. 17 September 2008

Genes to diseases (G2D) computational method to identify asthma candidate genes.
Tremblay, K. and Lemire, M. and Potvin, C. and Tremblay, A. and Hunninghake, G.M. and Raby, B.A. and Hudson, T.J. and Perez-Iratxeta, C. and Andrade-Navarro, M.A. and Laprise, C.
PLoS ONE 3 (8): e2907. 6 August 2008

Characterization of interstitial Xp duplications in two families by tiling path array CGH.
Tzschach, A. and Chen, W. and Erdogan, F. and Hoeller, A. and Ropers, H.H. and Castellan, C. and Ullmann, R. and Schinzel, A.
American Journal of Medical Genetics A 146A (2): 197-203. 15 January 2008

Sall4 isoforms act during proximal-distal and anterior-posterior axis formation in the mouse embryo.
Uez, N. and Lickert, H. and Kohlhase, J. and de Angelis, M.H. and Kuehn, R. and Wurst, W. and Floss, T.
Genesis 46 (9): 463-477. September 2008

Analysis of FRET signals in the presence of free donors and acceptors.
Wlodarczyk, J. and Woehler, A. and Kobe, F. and Ponimaskin, E. and Zeug, A. and Neher, E.
Biophysical Journal 94 (3): 986-1000. 1 February 2008

Role of the multidomain protein spinophilin in blood pressure and cardiac function regulation.
da Costa-Goncalves, A.C. and Tank, J. and Plehm, R. and Diedrich, A. and Todiras, M. and Gollasch, M. and Heuser, A. and Wellner, M. and Bader, M. and Jordan, J. and Luft, F.C. and Gross, V.
Hypertension 52 (4): 702-707. October 2008

2007

Quasi-steady approximation for ion channel currents.
Bentele, K. and Falcke, M.
Biophysical Journal 93 (8): 2597-2608. 15 October 2007

Development of a species-specific RNA polymerase I-based shRNA expression vector.
Brenz Verca, M.S. and Weber, P. and Mayer, C. and Graf, C. and Refojo, D. and Kuehn, R. and Grummt, I. and Lutz, B.
Nucleic Acids Research 35 (2): e10. January 2007

Mutation screening of brain-expressed X-chromosomal miRNA genes in 464 patients with nonsyndromic X-linked mental retardation.
Chen, W. and Jensen, L.R. and Gecz, J. and Fryns, J.P. and Moraine, C. and de Brouwer, A. and Chelly, J. and Moser, B. and Ropers, H.H. and Kuss, A.W.
European Journal of Human Genetics 15 (3): 375-378. March 2007

Differential mRNA distribution of components of the ERK/MAPK signalling cascade in the adult mouse brain.
Di Benedetto, B. and Hitz, C. and Hoelter, S.M. and Kuehn, R. and Vogt Weisenhorn, D.M. and Wurst, W.
Journal of Comparative Neurology 500 (3): 542-556. 20 January 2007

Developments in CORG: a gene-centric comparative genomics resource.
Dieterich, C. and Franz, M.W. and Vingron, M.
Nucleic Acids Research 35 (Database issue): D32-D35. January 2007

Pristionchus.org: a genome-centric database of the nematode satellite species Pristionchus pacificus.
Dieterich, C. and Roeseler, W. and Sobetzko, P. and Sommer, R.J.
Nucleic Acids Research 35 (Database issue): D498-D502. January 2007

Characterization of a 5.3 Mb deletion in 15q14 by comparative genomic hybridization using a whole genome "tiling path" BAC array in a girl with heart defect, cleft palate, and developmental delay.
Erdogan, F. and Ullmann, R. and Chen, W. and Schubert, M. and Adolph, S. and Hultschig, C. and Kalscheuer, V. and Ropers, H.H. and Spaich, C. and Tzschach, A.
American Journal of Medical Genetics A 143 (2): 172-178. 15 January 2007

Detection of novel skeletogenesis target genes by comprehensive analysis of a Runx2(-/-) mouse model.
Hecht, J. and Seitz, V. and Urban, M. and Wagner, F. and Robinson, P.N. and Stiege, A. and Dieterich, C. and Kornak, U. and Wilkening, U. and Brieske, N. and Zwingman, C. and Kidess, A. and Stricker, S. and Mundlos, S.
Gene Expression Patterns 7 (1-2): 102-112. January 2007

Conditional brain-specific knockdown of MAPK using Cre/loxP regulated RNA interference.
Hitz, C. and Wurst, W. and Kuehn, R.
Nucleic Acids Research 35 (12): e90. June 2007

X-linked mental retardation: a comprehensive molecular screen of 47 candidate genes from a 7.4 Mb interval in Xp11.
Jensen, L.R. and Lenzner, S. and Moser, B. and Freude, K. and Tzschach, A. and Chen, W. and Fryns, J.P. and Chelly, J. and Turner, G. and Moraine, C. and Hamel, B. and Ropers, H.H. and Kuss, A.W.
European Journal of Human Genetics 15 (1): 68-75. January 2007

Transforming growth factor beta1 up-regulates interferon regulatory factor 8 during dendritic cell development.
Ju, X.S. and Ruau, D. and Jaentti, P. and Sere, K. and Becker, C. and Wiercinska, E. and Bartz, C. and Erdmann, B. and Dooley, S. and Zenke, M.
European Journal of Immunology 37 (5): 1174-83. May 2007

A plastid-localized glycogen synthase kinase 3 modulates stress tolerance and carbohydrate metabolism.
Kempa, S. and Rozhon, W. and Samaj, J. and Erban, A. and Baluska, F. and Becker, T. and Haselmayer, J. and Schleiff, E. and Kopka, J. and Hirt, H. and Jonak, C.
Plant Journal 49 (6): 1076-1090. March 2007

Genomic regulatory blocks encompass multiple neighboring genes and maintain conserved synteny in vertebrates.
Kikuta, H. and Laplante, M. and Navratilova, P. and Komisarczuk, A.Z. and Engstroem, P.G. and Fredman, D. and Akalin, A. and Caccamo, M. and Sealy, I. and Howe, K. and Ghislain, J. and Pezeron, G. and Mourrain, P. and Ellingsen, S. and Oates, A.C. and Thisse, C. and Thisse, B. and Foucher, I. and Adolf, B. and Geling, A. and Lenhard, B. and Becker, T.S.
Genome Research 17 (5): 545-555. May 2007

Characterization of myocardial viability using MR and CT imaging.
Krombach, G.A. and Niendorf, T. and Guenther, R.W. and Mahnken, A.H.
European Radiology 17 (6): 1433-1444. June 2007

RNA interference in mice.
Kuehn, R. and Streif, S. and Wurst, W.
Handbook of Experimental Pharmacology 178 (1): 149-176. 2007

Nociceptive tuning by stem cell factor/c-Kit signaling.
Milenkovic, N. and Frahm, C. and Gassmann, M. and Griffel, C. and Erdmann, B. and Birchmeier, C. and Lewin, G.R. and Garratt, A.N.
Neuron 56 (5): 893-906. 6 December 2007

Biomarker discovery in animal health and disease: the application of post-genomic technologies.
Moore, R.E. and Kirwan, J. and Doherty, M.K. and Whitfield, P.D.
Biomarker Insights 2 : 185-196. 1 January 2007

Homozygosity mapping in consanguineous families reveals extreme heterogeneity of non-syndromic autosomal recessive mental retardation and identifies 8 novel gene loci.
Najmabadi, H. and Motazacker, M.M. and Garshasbi, M. and Kahrizi, K. and Tzschach, A. and Chen, W. and Behjati, F. and Hadavi, V. and Nieh, S.E. and Abedini, S.S. and Vazifehmand, R. and Firouzabadi, S.G. and Jamali, P. and Falah, M. and Seifati, S.M. and Grueters, A. and Lenzner, S. and Jensen, L.R. and Rueschendorf, F. and Kuss, A.W. and Ropers, H.H.
Human Genetics 121 (1): 43-48. March 2007

Update of the G2D tool for prioritization of gene candidates to inherited diseases.
Perez-Iratxeta, C. and Bork, P. and Andrade-Navarro, M.A.
Nucleic Acids Research 35 (Web Server Issue): W212-W216. July 2007

StemBase: a resource for the analysis of stem cell gene expression data.
Porter, C.J. and Palidwor, G.A. and Sandie, R. and Krzyzanowski, P.M. and Muro, E.M. and Perez-Iratxeta, C. and Andrade-Navarro, M.A.
Methods in Molecular Biology 407 : 137-148. 2007

Non-Markovian approach to globally coupled excitable systems.
Prager, T. and Falcke, M. and Schimansky-Geier, L. and Zaks, M.A.
Physical Review E 76 (1 Pt 1): 011118. 24 July 2007

Wave trains in an excitable FitzHugh-Nagumo model: bistable dispersion relation and formation of isolas.
Roeder, G. and Bordyugov, G. and Engel, H. and Falcke, M.
Physical Review E 75 (3 Pt 2): 036202. March 2007

Hybrid stochastic and deterministic simulations of calcium blips.
Ruediger, S. and Shuai, J.W. and Huisinga, W. and Nagaiah, C. and Warnecke, G. and Parker, I. and Falcke, M.
Biophysical Journal 93 (6): 1847-1857. 15 September 2007

Reversible clustering under the influence of a periodically modulated binding rate.
Straube, R. and Falcke, M.
Physical Review E 76 (1 Pt 1): 010402. July 2007

Reaction rate of small diffusing molecules on a cylindrical membrane.
Straube, R. and Ward, M.J. and Falcke, M.
Journal of Statistical Physics 129 (2): 377-405. October 2007

Waiting time distributions for clusters of complex molecules.
Thul, R. and Falcke, M.
Europhysics Letters 79 (3): 38003. August 2007

Array CGH identifies reciprocal 16p13.1 duplications and deletions that predispose to autism and/or mental retardation.
Ullmann, R. and Turner, G. and Kirchhoff, M. and Chen, W. and Tonge, B. and Rosenberg, C. and Field, M. and Vianna-Morgante, A.M. and Christie, L. and Krepischi-Santos, A.C. and Banna, L. and Brereton, A.V. and Hill, A. and Bisgaard, A.M. and Mueller, I. and Hultschig, C. and Erdogan, F. and Wieczorek, G. and Ropers, H.H.
Human Mutation 28 (7): 674-682. July 2007

Contrast-dose relation in first-pass myocardial MR perfusion imaging.
Utz, W. and Niendorf, T. and Wassmuth, R. and Messroghli, D. and Dietz, R. and Schulz-Menger, J.
Journal of Magnetic Resonance Imaging 25 (6): 1131-1135. June 2007

A stomatin-domain protein essential for touch sensation in the mouse.
Wetzel, C. and Hu, J. and Riethmacher, D. and Benckendorff, A. and Harder, L. and Eilers, A. and Moshourab, R. and Kozlenkov, A. and Labuz, D. and Caspani, O. and Erdmann, B. and Machelska, H. and Heppenstall, P.A. and Lewin, G.R.
Nature 445 (7124): 206-209. 11 January 2007

2006

Predicting the binding affinity of MHC class II peptides.
Altiparmak, F. and Akalin, A. and Ferhatosmanoglu, H.
Computational Systems Bioinformatics 2006 : 331-334. August 2006

Furin-, ADAM 10-, and γ-secretase-mediated cleavage of a receptor tyrosine phosphatase and regulation of β-catenin's transcriptional activity.
Anders, L. and Mertins, P. and Lammich, S. and Murgia, M. and Hartmann, D. and Saftig, P. and Haass, C. and Ullrich, A.
Molecular and Cellular Biology 26 (10): 3917-3934. May 2006

A novel X-linked recessive mental retardation syndrome comprising macrocephaly and ciliary dysfunction is allelic to oral-facial-digital type I syndrome.
Budny, B. and Chen, W. and Omran, H. and Fliegauf, M. and Tzschach, A. and Wisniewska, M. and Jensen, L.R. and Raynaud, M. and Shoichet, S.A. and Badura, M. and Lenzner, S. and Latos-Bielenska, A. and Ropers, H.H.
Human Genetics 120 (2): 171-178. September 2006

Forebrain-specific knockout of B-raf kinase leads to deficits in hippocampal long-term potentiation, learning, and memory.
Chen, A.P. and Ohno, M. and Giese, K.P. and Kuehn, R. and Chen, R.L. and Silva, A.J.
Journal of Neuroscience Research 83 (1): 28-38. January 2006

Pristionchus pacificus genomics: from genetics to genome sequence.
Dieterich, C. and Roeseler, W. and Srinivasan, J.
WormBook : 1-14. 2006

Comparative promoter analysis in vertebrate genomes with the CORG workbench.
Dieterich, C. and Vingron, M.
Methods in Molecular Biology 338 : 105-118. 2006

Method for the analysis of multiple sequence alignments of related protein sequences, a system, a computer device and a computer readable medium thereof.
Dittmar, G.A. and Kindl, C.
WO0663831. 22 June 2006

A novel locus for dilated cardiomyopathy, diffuse myocardial fibrosis, and sudden death on chromosome 10q25-26.
Ellinor, P.T. and Sasse-Klaassen, S. and Probst, S. and Gerull, B. and Shin, J.T. and Toeppel, A. and Heuser, A. and Michely, B. and Yoerger, D.M. and Song, B.S. and Pilz, B. and Krings, G. and Coplin, B. and Lange, P.E. and Dec, G.W. and Hennies, H.C. and Thierfelder, L. and MacRae, C.A.
Journal of the American College of Cardiology 48 (1): 106-111. 4 July 2006

Complex loci in human and mouse genomes.
Engstroem, P.G. and Suzuki, H. and Ninomiya, N. and Akalin, A. and Sessa, L. and Lavorgna, G. and Brozzi, A. and Luzi, L. and Tan, S.L. and Yang, L. and Kunarso, G. and Ng, E.L.C. and Batalov, S. and Wahlestedt, C. and Kai, C. and Kawai, J. and Carninci, P. and Hayashizaki, Y. and Wells, C. and Bajic, V.B. and Orlando, V. and Reid, J.F. and Lenhard, B. and Lipovich, L.
PLoS Genetics 2 (4): 564-577. 28 April 2006

Impact of low copy repeats on the generation of balanced and unbalanced chromosomal aberrations in mental retardation.
Erdogan, F. and Chen, W. and Kirchhoff, M. and Kalscheuer, V.M. and Hultschig, C. and Mueller, I. and Schulz, R. and Menzel, C. and Bryndorf, T. and Ropers, H.H. and Ullmann, R.
Cytogenetic and Genome Research 115 (3-4): 247-253. November 2006

Identification of a novel frameshift mutation in the giant muscle filament titin in a large Australian family with dilated cardiomyopathy.
Gerull, B. and Atherton, J. and Geupel, A. and Sasse-Klaassen, S. and Heuser, A. and Frenneaux, M. and McNabb, M. and Granzier, H. and Labeit, S. and Thierfelder, L.
Journal of Molecular Medicine 84 (6): 478-483. June 2006

Comprehensive cardiac magnetic resonance imaging at 3.0 Tesla: feasibility and implications for clinical applications.
Gutberlet, M. and Noeske, R. and Schwinge, K. and Freyhardt, P. and Felix, R. and Niendorf, T.
Investigative Radiology 41 (2): 154-167. February 2006

32-element receiver-coil array for cardiac imaging.
Hardy, C.J. and Cline, H.E. and Giaquinto, R.O. and Niendorf, T. and Grant, A.K. and Sodickson, D.K.
Magnetic Resonance in Medicine 55 (5): 1142-1149. May 2006

Mutant desmocollin-2 causes arrhythmogenic right ventricular cardiomyopathy.
Heuser, A. and Plovie, E.R. and Ellinor, P.T. and Grossmann, K.S. and Shin, J.T. and Wichter, T. and Basson, C.T. and Lerman, B.B. and Sasse-Klaassen, S. and Thierfelder, L. and MacRae, C.A. and Gerull, B.
American Journal of Human Genetics 79 (6): 1081-1088. December 2006

Inducible gene deletion in astroglia and radial glia--a valuable tool for functional and lineage analysis.
Mori, T. and Tanaka, K. and Buffo, A. and Wurst, W. and Kuehn, R. and Goetz, M.
Glia 54 (1): 21-34. July 2006

Beschleunigung der kardiovaskulaeren MRT mittels paralleler Bildgebung: Grundlagen, praktische Aspekte, klinische Anwendungen und Perspektiven [Acceleration of cardiovascular MRI using parallel imaging: basic principles, practical considerations, clinical applications and future directions].
Niendorf, T. and Sodickson, D.
RoeFo Fortschritte auf dem Gebiete der Roentgenstrahlen und der neuen bildgebenden Verfahren 178 (1): 15-30. January 2006

Acoustic method for synchronization of Magnetic Resonance Imaging (MRI).
Niendorf, T. and Frauenrath, T. and Kob, M.
DE 10 2006 061 784.3. 2006

Toward single breath-hold whole-heart coverage coronary MRA using highly accelerated parallel imaging with a 32-channel MR system.
Niendorf, T. and Hardy, C.J. and Giaquinto, R.O. and Gross, P. and Cline, H.E. and Zhu, Y. and Kenwood, G. and Cohen, S. and Grant, A.K. and Joshi, S. and Rofsky, N.M. and Sodickson, D.K.
Magnetic Resonance in Medicine 56 (1): 167-176. July 2006

Parallel imaging in cardiovascular MRI: methods and applications.
Niendorf, T. and Sodickson, D.K.
NMR in Biomedicine 19 (3): 325-341. May 2006

Highly accelerated cardiovascular magnetic resonance imaging: concepts and clinical applications.
Niendorf, T. and Sodickson, D.K.
Conference Proceedings : Annual International Conference of the IEEE Engineering in Medicine and Biology Society 1 : 373-376. 2006

Effect of sulfur availability on the integrity of amino acid biosynthesis in plants.
Nikiforova, V.J. and Bielecka, M. and Gakiere, B. and Krueger, S. and Rinder, J. and Kempa, S. and Morcuende, R. and Scheible, W.R. and Hesse, H. and Hoefgen, R.
Amino Acids 30 (2): 173-183. March 2006

Single-nucleotide polymorphisms: analysis by mass spectrometry.
Sauer, S. and Reinhardt, R. and Lehrach, H. and Gut, I.G.
Nature Protocols 1 (4): 1761-1771. 22 November 2006

Ubiquitination.
Sommer, T. and Dittmar, G.
In: Encyclopedic Reference of Genomics and Proteomics in Molecular Medicine ; Vol. 2. Springer, Berlin [u.a.], 1964-1968. ISBN 3-540-44244-8 2006

Kardiovaskulaere MRT in der Praxis: Anleitungen und Fallbeispiele.
Strohm, O. and Bernhardt, P. and Niendorf, T.
Elsevier, Urban & Fischer, Muenchen. ISBN 978-3-437-24040-9 2006

Frequency of elemental events of intracellular Ca(2+) dynamics.
Thul, R. and Falcke, M.
Physical Review E 73 (6 Pt 1): 061923. June 2006

M line-deficient titin causes cardiac lethality through impaired maturation of the sarcomere.
Weinert, S. and Bergmann, N. and Luo, X. and Erdmann, B. and Gotthardt, M.
Journal of Cell Biology 173 (4): 559-570. 22 May 2006

2005

A feasibility study of contrast enhancement of acute myocardial infarction in multislice computed tomography: comparison with magnetic resonance imaging and gross morphology in pigs.
Buecker, A. and Katoh, M. and Krombach, G.A. and Spuentrup, E. and Bruners, P. and Guenther, R.W. and Niendorf, T. and Mahnken, A.H.
Investigative Radiology 40 (11): 700-704. November 2005

CGHPRO - a comprehensive data analysis tool for array CGH.
Chen, W. and Erdogan, F. and Ropers, H.H. and Lenzner, S. and Ullmann, R.
BMC Bioinformatics 6 : 85. 2005

Ab initio identification of putative human transcription factor binding sites by comparative genomics.
Cora, D. and Herrmann, C. and Dieterich, C. and Di Cunto, F. and Provero, P. and Caselle, M.
BMC Bioinformatics 6 2005

Comparative promoter region analysis powered by CORG.
Dieterich, C. and Grossmann, S. and Tanzer, A. and Roepcke, S. and Arndt, P.F. and Stadler, P.F. and Vingron, M.
BMC Genomics 6 (1): 24. 2005

Influence of high magnetic field strengths and parallel acquisition strategies on image quality in cardiac 2D CINE magnetic resonance imaging: comparison of 1.5 T vs. 3.0 T.
Gutberlet, M. and Schwinge, K. and Freyhardt, P. and Spors, B. and Grothoff, M. and Denecke, T. and Luedemann, L. and Noeske, R. and Niendorf, T. and Felix, R.
European Radiology 15 (8): 1586-1597. August 2005

Mouse mutagenesis and gene function.
Kuehn, R. and Wurst, W.
In: Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics. Wiley (U.S.A.), New York, U.S.A., 1184-1201. ISBN 978-0-470-84974-3 15 April 2005

Detecting functional modules of transcription factor binding sites in the human genome.
Manke, T. and Dieterich, C. and Vingron, M.
Lecture Notes in Computer Science 3318 : 14-21. 2005

SITEBLAST - rapid and sensitive local alignment of genomic sequences employing motif anchors.
Michael, M. and Dieterich, C. and Vingron, M.
Bioinformatics 21 (9): 2093-2094. 2005

Short breath-hold, volumetric coronary MR angiography employing steady-state free precession in conjunction with parallel imaging.
Niendorf, T. and Saranathan, M. and Lingamneni, A. and Pedrosa, I. and Spencer, M. and Cline, H. and Foo, T.K. and Rofsky, N.M.
Magnetic Resonance in Medicine 53 (4): 885-894. April 2005

Cardiac troponin C-L29Q, related to hypertrophic cardiomyopathy, hinders the transduction of the protein kinase A dependent phosphorylation signal from cardiac troponin I to C.
Schmidtmann, A. and Lindow, C. and Villard, S. and Heuser, A. and Muegge, A. and Gessner, R. and Granier, C. and Jaquet, K.
FEBS Journal 272 (23): 6087-6097. December 2005

Single copy shRNA configuration for ubiquitous gene knockdown in mice.
Seibler, J. and Kueter-Luks, B. and Kern, H. and Streu, S. and Plum, L. and Mauer, J. and Kuehn, R. and Bruening, J.C. and Schwenk, F.
Nucleic Acids Research 33 (7): e67. 14 April 2005

Models of the inositol trisphosphate receptor.
Sneyd, J. and Falcke, M.
Progress in Biophysics and Molecular Biology 89 (3): 207-245. November 2005

Rapid volumetric MRI using parallel imaging with order-of-magnitude accelerations and a 32-element RF coil array: feasibility and implications.
Sodickson, D.K. and Hardy, C.J. and Zhu, Y. and Giaquinto, R.O. and Gross, P. and Kenwood, G. and Niendorf, T. and Lejay, H. and McKenzie, C.A. and Ohliger, M.A. and Grant, A.K. and Rofsky, N.M.
Academic Radiology 12 (5): 626-635. May 2005

Reactive clusters on a membrane.
Thul, R. and Falcke, M.
Physical Biology 2 (1): 51-59. March 2005

Blood oxygen level-dependent MRI of tissue oxygenation. Relation to endothelium-dependent and endothelium-independent blood flow changes.
Utz, W. and Jordan, J. and Niendorf, T. and Stoffels, M. and Luft, F.C. and Dietz, R. and Friedrich, M.G.
Arteriosclerosis Thrombosis and Vascular Biology 25 (7): 1408-1413. July 2005

2004

Functional inference from non-random distributions of conserved predicted transcription factor binding sites.
Dieterich, C. and Rahmann, S. and Vingron, M.
Bioinformatics 20 (Suppl 1): i109-i115. 4 August 2004

Reading the patterns in living cells - the physics of Ca2+ signaling.
Falcke, M.
Advances in Physics 53 (3): 255-440. May 2004

Mutations in the desmosomal protein plakophilin-2 are common in arrhythmogenic right ventricular cardiomyopathy.
Gerull, B. and Heuser, A. and Wichter, T. and Paul, M. and Basson, C.T. and McDermott, D.A. and Lerman, B.B. and Markowitz, S.M. and Ellinor, P.T. and MacRae, C.A. and Peters, S. and Grossmann, K.S. and Drenckhahn, J. and Michely, B. and Sasse-Klaassen, S. and Birchmeier, W. and Dietz, R. and Breithardt, G. and Schulze-Bahr, E. and Thierfelder, L.
Nature Genetics 36 (11): 1162-1164. November 2004

Requirement of plakophilin 2 for heart morphogenesis and cardiac junction formation.
Grossmann, K.S. and Grund, C. and Huelsken, J. and Behrend, M. and Erdmann, B. and Franke, W.W. and Birchmeier, W.
Journal of Cell Biology 167 (1): 149-160. 11 October 2004

Cardiovascular Magnetic Resonance Imaging at 3.0 Tesla.
Gutberlet, M. and Freyhardt, P. and Spors, B. and Schwinge, K. and Grothoff, M. and Noeske, R. and Niendorf, T. and Felix, R.
Imaging Decisions MRI 8 (3): 23-30. October 2004

Suboptimal local alignments across multiple scoring schemes.
Michael, M. and Dieterich, C. and Stoye, J.
Lecture Notes in Computer Science 3240 : 99-110. 2004

Towards dissecting nutrient metabolism in plants: a systems biology case study on sulphur metabolism.
Nikiforova, V.J. and Gakiere, B. and Kempa, S. and Adamik, M. and Willmitzer, L. and Hesse, H. and Hoefgen, R.
Journal of Experimental Botany 55 (404): 1861-1870. August 2004

The SRF target gene Fhl2 antagonizes RhoA/MAL-dependent activation of SRF.
Philippar, U. and Schratt, G. and Dieterich, C. and Mueller, J.M. and Galgoczy, P. and Engel, F.B. and Keating, M.T. and Gertler, F. and Schuele, R. and Vingron, M. and Nordheim, A.
Molecular Cell 16 (6): 867-880. 22 December 2004

Novel gene locus for autosomal dominant left ventricular noncompaction maps to chromosome 11p15.
Sasse-Klaassen, S. and Probst, S. and Gerull, B. and Oechslin, E. and Nuernberg, P. and Heuser, A. and Jenni, R. and Hennies, H.C. and Thierfelder, L.
Circulation 109 (22): 2720-2723. 8 June 2004

A comparison of three models of the inositol trisphosphate receptor.
Sneyd, J. and Falcke, M. and Dufour, J.F. and Fox, C.
Progress in Biophysics and Molecular Biology 85 (2-3): 121-140. June 2004

Rapid scanning using parallel imaging.
Sodickson, D.K. and Niendorf, T.
Cardiovascular MR Self Assessment Program 2004

Stability of membrane bound reactions.
Thul, R. and Falcke, M.
Physical Review Letters 93 (18): 188103. 29 October 2004

Release currents of IP(3) receptor channel clusters and concentration profiles.
Thul, R. and Falcke, M.
Biophysical Journal 86 (5): 2660-2673. May 2004

Ubiquitin-like protein Hub1 is required for pre-mRNA splicing and localization of an essential splicing factor in fission yeast.
Wilkinson, C.R. and Dittmar, G.A. and Ohi, M.D. and Uetz, P. and Jones, N. and Finley, D.
Current Biology 14 : 2283-2288. 29 December 2004

Highly parallel volumetric imaging with a 32-element RF coil array.
Zhu, Y. and Hardy, C.J. and Sodickson, D.K. and Giaquinto, R.O. and Dumoulin, C.L. and Kenwood, G. and Niendorf, T. and Lejay, H. and McKenzie, C.A. and Ohliger, M.A. and Rofsky, N.M.
Magnetic Resonance in Medicine 52 (4): 869-877. October 2004

2003

Exploring potential target genes of signaling pathways by predicting conserved transcription factor binding sites.
Dieterich, C. and Herwig, R. and Vingron, M.
Bioinformatics 19 (Suppl 2): ii50-ii56. October 2003

CORG: a database for COmparative Regulatory Genomics.
Dieterich, C. and Wang, H. and Rateitschak, K. and Luz, H. and Vingron, M.
Nucleic Acids Research 31 (1): 55-57. 2003

Neuron-specific ablation of PDGF-B is compatible with normal central nervous system development and astroglial response to injury.
Enge, M. and Wilhelmsson, U. and Abramsson, A. and Stakeberg, J. and Kuehn, R. and Betsholtz, C. and Pekny, M.
Neurochemical Research 28 (2): 271-279. February 2003

Deterministic and stochastic models of intracellular Ca2+ waves.
Falcke, M.
New Journal of Physics 5 : 96. July 2003

Buffers and oscillations in intracellular Ca2+ dynamics.
Falcke, M.
Biophysical Journal 84 (1): 28-41. January 2003

On the role of stochastic channel behavior in intracellular Ca2+ dynamics.
Falcke, M.
Biophysical Journal 84 (1): 42-56. January 2003

Modeling the dependence of the period of intracellular Ca2+ waves on SERCA expression.
Falcke, M. and Li, Y. and Lechleiter, J.D. and Camacho, P.
Biophysical Journal 85 (3): 1474-1481. September 2003

Blood oxygen level-dependent magnetic resonance imaging in patients with stress-induced angina.
Friedrich, M.G. and Niendorf, T. and Schulz-Menger, J. and Gross, C.M. and Dietz, R.
Circulation 108 (18): 2219-2223. 1 January 2003

Muscle-type creatine kinase interacts with central domains of the M-band proteins myomesin and M-protein.
Hornemann, T. and Kempa, S. and Himmel, M. and Hayess, K. and Fuerst, D.O. and Wallimann, T.
Journal of Molecular Biology 332 (4): 877-887. 26 September 2003

T1 mapping in patients with acute myocardial infarction.
Messroghli, D.R. and Niendorf, T. and Schulz-Menger, J. and Dietz, R. and Friedrich, M.G.
Journal of Cardiovascular Magnetic Resonance 5 (2): 353-359. 2003

Limbic corticotropin-releasing hormone receptor 1 mediates anxiety-related behavior and hormonal adaptation to stress.
Mueller, M.B. and Zimmermann, S. and Sillaber, I. and Hagemeyer, T.P. and Deussing, J.M. and Timpl, P. and Kormann, M.S.D. and Droste, S.K. and Kuehn, R. and Reul, J.M.H.M. and Holsboer, F. and Wurst, W.
Nature Neuroscience 6 (10): 1100-1107. October 2003

Transcriptome analysis of sulfur depletion in Arabidopsis thaliana: interlacing of biosynthetic pathways provides response specificity.
Nikiforova, V. and Freitag, J. and Kempa, S. and Adamik, M. and Hesse, H. and Hoefgen, R.
Plant Journal 33 (4): 633-650. February 2003

Hybrid embryonic stem cell-derived tetraploid mice show apparently normal morphological, physiological, and neurological characteristics.
Schwenk, F. and Zevnik, B. and Bruening, J. and Roehl, M. and Willuweit, A. and Rode, A. and Hennek, T. and Kauselmann, G. and Jaenisch, R. and Kuehn, R.
Molecular and Cellular Biology 23 (11): 3982-3989. June 2003

Rapid generation of inducible mouse mutants.
Seibler, J. and Zevnik, B. and Kueter-Luks, B. and Andreas, S. and Kern, H. and Hennek, T. and Rode, A. and Heimann, C. and Faust, N. and Kauselmann, G. and Schoor, M. and Jaenisch, R. and Rajewsky, K. and Kuehn, R. and Schwenk, F.
Nucleic Acids Research 31 (4): e12. 15 February 2003

Connexin43 is not expressed in principal cells of mouse cortex and hippocampus.
Theis, M. and Soehl, G. and Speidel, D. and Kuehn, R. and Willecke, K.
European Journal of Neuroscience 18 (2): 267-274. July 2003

2002

Enhanced efficiency through nuclear localization signal fusion on phage PhiC31-integrase: activity comparison with Cre and FLPe recombinase in mammalian cells.
Andreas, S. and Schwenk, F. and Kueter-Luks, B. and Faust, N. and Kuehn, R.
Nucleic Acids Research 30 (11): 2299-2306. 1 June 2002

Annotating regulatory DNA based on man-mouse genomic comparison.
Dieterich, C. and Cusack, B. and Wang, H. and Rateitschak, K. and Krause, A. and Vingron, M.
Bioinformatics 18 (Suppl 2): S84-S90. 2002

In vitro reconstructed human epithelia reveal contributions of Candida albicans EFG1 and CPH1 to adhesion and invasion.
Dieterich, C. and Schandar, M. and Noll, M. and Johannes, F.J. and Brunner, H. and Graeve, T. and Rupp, S.
Microbiology 148 (Pt 2): 497-506. February 2002

Role of a ubiquitin-like modification in polarized morphogenesis.
Dittmar, G.A.G. and Wilkinson, C.R.M. and Jedrzejewski, P.T. and Finley, D.
Science 295 : 2442-2446. 29 March 2002

Male and female mice derived from the same embryonic stem cell clone by tetraploid embryo complementation.
Eggan, K. and Rode, A. and Jentsch, I. and Samuel, C. and Hennek, T. and Tintrup, H. and Zevnik, B. and Erwin, J. and Loring, J. and Jackson-Grusby, L. and Speicher, M.R. and Kuehn, R. and Jaenisch, R.
Nature Biotechnology 20 (5): 455-459. May 2002

Proteasome subunit Rpn1 binds ubiquitin-like protein domains.
Elsasser, S. and Gali, R.R. and Schwickart, M. and Larsen, C.N. and Leggett, D.S. and Mueller, B. and Feng, M.T. and Tuebing, F. and Dittmar, G.A.G. and Finley, D.
Nature Cell Biology 4 : 725-730. 1 September 2002

Conditional knockout mice.
Kuehn, R. and Schwenk, F.
Methods in Molecular Biology 209 : 159-185. 2002

Cre/loxP recombination system and gene targeting.
Kuehn, R. and Torres, R.M.
Methods in Molecular Biology 180 (5): 175-204. 2002

Engineering of cysteine and methionine biosynthesis in potato.
Nikiforova, V. and Kempa, S. and Zeh, M. and Maimann, S. and Kreft, O. and Casazza, A.P. and Riedel, K. and Tauberger, E. and Hoefgen, R. and Hesse, H.
Amino Acids 22 (3): 259-278. April 2002

Parasites and their control in South American camelids in the United Kingdom.
Tait, S.A. and Kirwan, J.A. and Fair, C.J. and Coles, G.C. and Stafford, K.A.
Veterinary Record 150 (20): 637-638. 18 May 2002

2001

Introduction to Go! Poly, a human genome polymorphism database.
Chen, W. and Zhang, G. and Zhang, S.
Chinese Journal of Medical Genetics 18 (6): 482-485. December 2001

Discovery of candidate SNP by bioinformatic methods.
Chen, W. and Zhang, G. and Zhang, S.
Hereditas 23 (2): 153-156. 2001

Ultra-fast low-angle rapid acquisition and relaxation enhancement (UFLARE) in patients with epilepsy.
Eriksson, S.H. and Stepney, A. and Symms, M.R. and Woermann, F.G. and Niendorf, T. and Barker, G.J. and Kendall, B. and Stevens, J.M.
Neuroradiology 43 (12): 1040-1045. December 2001

DNA hypomethylation perturbs the function and survival of CNS neurons in postnatal animals.
Fan, G. and Beard, C. and Chen, R.Z. and Csankovszki, G. and Sun, Y. and Siniaia, M. and Biniszkiewicz, D. and Bates, B. and Lee, P.P. and Kuehn, R. and Trumpp, A. and Poon, C. and Wilson, C.B. and Jaenisch, R.
Journal of Neuroscience 21 (3): 788-797. 1 February 2001

Acute and chronic changes of the apparent diffusion coefficient in neurological disorders - biophysical mechanisms and possible underlying histopathology.
Gass, A. and Niendorf, T. and Hirsch, J.G.
Journal of the Neurological Sciences 186 (Suppl 1): S15-S23. 2001

Actin pedestal formation by enteropathogenic Escherichia coli and intracellular motility of Shigella flexneri are abolished in N-WASP-defective cells.
Lommel, S. and Benesch, S. and Rottner, K. and Franz, T. and Wehland, J. and Kuehn, R.
EMBO Reports 2 (9): 850-857. September 2001

Conditional deletion of brain-derived neurotrophic factor in the postnatal brain leads to obesity and hyperactivity.
Rios, M. and Fan, G. and Fekete, C. and Kelly, J. and Bates, B. and Kuehn, R. and Lechan, R.M. and Jaenisch, R.
Molecular Endocrinology 15 (10): 1748-1757. October 2001

BACE knockout mice are healthy despite lacking the primary beta-secretase activity in brain: implications for Alzheimer's disease therapeutics.
Roberds, S.L. and Anderson, J. and Basi, G. and Bienkowski, M.J. and Branstetter, D.G. and Chen, K.S. and Freedman, S.B. and Frigon, N.L. and Games, D. and Hu, K. and Johnson-Wood, K. and Kappenman, K.E. and Kawabe, T.T. and Kola, I. and Kuehn, R. and Lee, M. and Liu, W. and Motter, R. and Nichols, N.F. and Power, M. and Robertson, D.W. and Schenk, D. and Schoor, M. and Shopp, GM. and Shuck, M.E. and Sinha, S. and Svensson, K.A. and Tatsuno, G. and Tintrup, H. and Wijsman, J. and Wright, S. and McConlogue, L.
Human Molecular Genetics 10 (12): 1317-1324. 1 June 2001

Go!Poly: A gene-oriented polymorphism database.
Zhang, G. and Zhang, S. and Chen, W. and Qiu, W. and Wu, H. and Wang, J. and Luo, J. and Gu, X. and Cotton, R.G.
Human Mutation 18 (5): 382-387. November 2001

2000

Discrete stochastic modeling of calcium channel dynamics.
Baer, M. and Falcke, M. and Levine, H. and Tsimring, L.S.
Physical Review Letters 84 (24): 5664-5667. 12 June 2000

Modeling observed chaotic oscillations in bursting neurons: the role of calcium dynamics and IP3.
Falcke, M. and Huerta, R. and Rabinovich, M.I. and Abarbanel, H.D. and Elson, R.C. and Selverston, A.I.
Biological Cybernetics 82 (6): 517-527. June 2000

Dispersion gap and localized spiral waves in a model for intracellular Ca2+ dynamics.
Falcke, M. and Or-Guil, M. and Baer, M.
Physical Review Letters 84 (20): 4753-4756. 15 May 2000

Stochastic spreading of intracellular Ca(2+) release.
Falcke, M. and Tsimring, L. and Levine, H.
Physical Review E 62 (2 Pt B): 2636-2643. August 2000

Methodische Grundlagen moderner Magnet-Resonanz-Bildgebungsverfahren und ihre Anwendung in der Neurologie [Basic principles of modern Magnetic Resonance Imaging techniques and their application in neurology].
Niendorf, T.
Klinische Neurophysiologie 31 (Suppl. 1): S2-S17. May 2000

Indications for a novel muscular dystrophy pathway. gamma-filamin, the muscle-specific filamin isoform, interacts with myotilin.
van der Ven, P.F. and Wiesner, S. and Salmikangas, P. and Auerbach, D. and Himmel, M. and Kempa, S. and Hayess, K. and Pacholsky, D. and Taivainen, A. and Schroeder, R. and Carpen, O. and Fuerst, D.O.
Journal of Cell Biology 151 (2): 235-248. 16 October 2000

1999

Automated genome sequence analysis and annotation.
Andrade, M.A. and Brown, N.P. and Leroy, C. and Hoersch, S. and de Daruvar, A. and Reich, C. and Franchini, A. and Tamames, J. and Valencia, A. and Ouzounis, C. and Sander, C.
Bioinformatics 15 (5): 391-412. May 1999

Spiral breakup and defect dynamics in a model for intracellular Ca2+ dynamics.
Falcke, M. and Baer, M. and Lechleiter, J.D. and Hudson, J.L.
Physica D 129 (3-4): 236-252. 15 May 1999

Impact of mitochondrial Ca2+ cycling on pattern formation and stability.
Falcke, M. and Hudson, J.L. and Camacho, P. and Lechleiter, J.D.
Biophysical Journal 77 (1): 37-44. July 1999

Essential role for TrkB receptors in hippocampus-mediated learning.
Minichiello, L. and Korte, M. and Wolfer, D. and Kuehn, R. and Unsicker, K. and Cestari, V. and Rossi-Arnaud, C. and Lipp, H.P. and Bonhoeffer, T. and Klein, R.
Neuron 24 (2): 401-414. October 1999

On the application of susceptibility-weighted ultra-fast low-angle RARE experiments in functional MR imaging.
Niendorf, T.
Magnetic Resonance in Medicine 41 (6): 1189-1198. June 1999

1998

Temporal and regional changes during focal ischemia in rat brain studied by proton spectroscopic imaging and quantitative diffusion NMR imaging.
Dreher, W. and Kuehn, B. and Gyngell, M.L. and Busch, E. and Niendorf, T. and Hossmann, K.A. and Leibfritz, D.
Magnetic Resonance in Medicine 39 (6): 878-888. June 1998

Pattern selection by gene expression in Dictyostelium discoideum.
Falcke, M. and Levine, H.
Physical Review Letters 80 (17): 3875-3878. April 1998

Csk controls antigen receptor-mediated development and selection of T-lineage cells.
Schmedt, C. and Saijo, K. and Niidome, T. and Kuehn, R. and Aizawa, S. and Tarakhovsky, A.
Nature 394 (6696): 901-904. 27 August 1998

Cortical areas and the control of self-determined finger movements: an fMRI study.
Schubert, T. and von Cramon, D.Y. and Niendorf, T. and Pollmann, S. and Bublak, P.
NeuroReport 9 (14): 3171-3176. 5 October 1998

Temporally and spatially regulated somatic mutagenesis in mice.
Schwenk, F. and Kuehn, R. and Angrand, P.O. and Rajewsky, K. and Stewart, A.F.
Nucleic Acids Research 26 (6): 1427-1432. 15 March 1998

IL-10 regulates liver pathology in acute murine Schistosomiasis mansoni but is not required for immune down-modulation of chronic disease.
Wynn, T.A. and Cheever, A.W. and Williams, M.E. and Hieny, S. and Caspar, P. and Kuehn, R. and Mueller, W. and Sher, A.
Journal of Immunology 160 (9): 4473-4480. 1 May 1998

1997

Quantification of transients using empirical orthogonal functions.
Arndt, J. and Herzel, H. and Bose, S. and Falcke, M. and Scholl, E.
Chaos Solitons & Fractals 8 (12): 1911-1920. December 1997

Traveling pulses in anisotropic oscillatory media with global coupling.
Falcke, M. and Engel, H.
Physical Review E 56 (1): 635-641. 1997

Gene targeting in immunology.
Kuehn, R. and Mueller, W.
Research in Immunology 148 (7): 447-449. September 1997

Advances in gene targeting methods.
Kuehn, R. and Schwenk, F.
Current Opinion in Immunology 9 (2): 183-188. April 1997

In vivo ablation of surface immunoglobulin on mature B cells by inducible gene targeting results in rapid cell death.
Lam, K.P. and Kuehn, R. and Rajewsky, K.
Cell 90 (6): 1073-1083. 19 September 1997

Generation of Cre recombinase-specific monoclonal antibodies, able to characterize the pattern of Cre expression in cre-transgenic mouse strains.
Schwenk, F. and Sauer, B. and Kukoc, N. and Hoess, R. and Mueller, W. and Kocks, C. and Kuehn, R. and Rajewsky, K.
Journal of Immunological Methods 207 (2): 203-212. 24 September 1997

Laboratory protocols for conditional gene targeting.
Torres, R.M. and Kuehn, R.
Oxford University Press (U.K.). ISBN 0-19-963677-X 1997

1996

Impaired immunosuppressive response to ultraviolet radiation in interleukin-10-deficient mice.
Beissert, S. and Hosoi, J. and Kuehn, R. and Rajewsky, K. and Mueller, W. and Granstein, R.D.
Journal of Investigative Dermatology 107 (4): 553-557. October 1996

Enterocolitis and colon cancer in interleukin-10-deficient mice are associated with aberrant cytokine production and CD4(+) TH1-like responses.
Berg, D.J. and Davidson, N. and Kuehn, R. and Mueller, W. and Menon, S. and Holland, G. and Thompson-Snipes, L. and Leach, M.W. and Rennick, D.
Journal of Clinical Investigation 98 (4): 1010-1020. 15 August 1996

Leishmania promastigotes selectively inhibit interleukin 12 induction in bone marrow-derived macrophages from susceptible and resistant mice.
Carrera, L. and Gazzinelli, R.T. and Badolato, R. and Hieny, S. and Mueller, W. and Kuehn, R. and Sacks, D.L.
Journal of Experimental Medicine 183 (2): 515-526. 1 February 1996

T helper cell 1-type CD4+ T cells, but not B cells, mediate colitis in interleukin 10-deficient mice.
Davidson, N.J. and Leach, M.W. and Fort, M.M. and Thompson-Snipes, L. and Kuehn, R. and Mueller, W. and Berg, D.J. and Rennick, D.M.
Journal of Experimental Medicine 184 (1): 241-251. 1 July 1996

Status of the neonatal rat brain after NMDA-induced excitotoxic injury as measured by MRI, MRS and metabolic imaging.
Dijkhuizen, R.M. and van Lookeren Campagne, M. and Niendorf, T. and Dreher, W. and van der Toorn, A. and Hoehn-Berlage, M. and Verheul, H.B. and Tulleken, C.A. and Leibfritz, D. and Hossmann, K.A. and Nicolay, K.
NMR in Biomedicine 9 (2): 84-92. April 1996

Adaptation of cellular metabolism to anisosmotic conditions in a glial cell line, as assessed by 13C-NMR spectroscopy.
Floegel, U. and Willker, W. and Engelmann, J. and Niendorf, T. and Leibfritz, D.
Developmental Neuroscience 18 (5-6): 449-459. 1996

In the absence of endogenous IL-10, mice acutely infected with Toxoplasma gondii succumb to a lethal immune response dependent on CD4+ T cells and accompanied by overproduction of IL-12, IFN-gamma and TNF-alpha.
Gazzinelli, R.T. and Wysocka, M. and Hieny, S. and Scharton-Kersten, T. and Cheever, A. and Kuehn, R. and Mueller, W. and Trinchieri, G. and Sher, A.
Journal of Immunology 157 (2): 798-805. 15 July 1996

Plasmodium chabaudi chabaudi: differential susceptibility of gene-targeted mice deficient in IL-10 to an erythrocytic-stage infection.
Linke, A and Kuehn, R. and Mueller, W and Honarvar, N and Li, C and Langhorne, J
Experimental Parasitology 84 (2): 253-263. November 1996

Interleukin (IL)-4-independent immunoglobulin class switch to immunoglobulin (Ig)E in the mouse.
Morawetz, R.A. and Gabriele, L. and Rizzo, L.V. and Noben-Trauth, N. and Kuehn, R. and Rajewsky, K. and Mueller, W. and Doherty, T.M. and Finkelman, F. and Coffman, R.L. and Morse, H.C.
Journal of Experimental Medicine 184 (5): 1651-1661. 1 November 1996

Biexponential diffusion attenuation in various states of brain tissue: implications for diffusion-weighted imaging.
Niendorf, T. and Dijkhuizen, R.M. and Norris, D.G. and van Lookeren Campagne, M. and Nicolay, K.
Magnetic Resonance in Medicine 36 (6): 847-857. December 1996

Conditional gene targeting.
Rajewsky, K. and Gu, H. and Kuehn, R. and Betz, U.A. and Mueller, W. and Roes, J. and Schwenk, F.
Journal of Clinical Investigation 98 (3): 600-603. 1 August 1996

Requirement of mammalian DNA polymerase-beta in base-excision repair.
Sobol, R.W. and Horton, J.K. and Kuehn, R. and Gu, H. and Singhal, R.K. and Prasad, R. and Rajewsky, K. and Wilson, S.H.
Nature 379 (6561): 183-186. 11 January 1996

Somatic hypermutation occurs in B cells of terminal deoxynucleotidyl transferase-, CD23-, interleukin-4-, IgD- and CD30-deficient mouse mutants.
Texido, G. and Jacobs, H. and Meiering, M. and Kuehn, R. and Roes, J. and Mueller, W. and Gilfillan, S. and Fujiwara, H. and Kikutani, H. and Yoshida, N. and Amakawa, R. and Benoist, C. and Mathis, D. and Kishimoto, T. and Mak, T.W. and Rajewsky, K.
European Journal of Immunology 26 (8): 1966-1969. August 1996

1995

Antiviral immune responses in mice deficient for both interleukin-2 and interleukin-4.
Bachmann, M.F. and Schorle, H. and Kuehn, R. and Mueller, W. and Hengartner, H. and Zinkernagel, R.M. and Horak, I.
Journal of Virology 69 (8): 4842-4846. August 1995

Interleukin-10 is a central regulator of the response to LPS in murine models of endotoxic shock and the Shwartzman reaction but not endotoxin tolerance.
Berg, D.J. and Kuehn, R. and Rajewsky, K. and Mueller, W. and Menon, S. and Davidson, N. and Gruenig, G. and Rennick, D.
Journal of Clinical Investigation 96 (5): 2339-2347. November 1995

Interleukin 10 but not interleukin 4 is a natural suppressant of cutaneous inflammatory responses.
Berg, D.J. and Leach, M.W. and Kuehn, R. and Rajewsky, K. and Mueller, W. and Davidson, N.J. and Rennick, D.
Journal of Experimental Medicine 182 (1): 99-108. 1 July 1995

Common cytokine receptor gamma chain (gamma c)-dependent cytokines: understanding in vivo functions by gene targeting.
Di Santo, J.P. and Kuehn, R. and Mueller, W.
Immunological Reviews 148 (1): 19-34. December 1995

Cluster formation, standing waves, and stripe patterns in oscillatory active media with local and global coupling.
Falcke, M. and Engel, H. and Neufeld, M.
Physical Review E 52 (1): 763-771. July 1995

Changes in organic solutes, volume, energy state, and metabolism associated with osmotic stress in a glial cell line: a multinuclear NMR study.
Floegel, U. and Niendorf, T. and Serkowa, N. and Brand, A. and Henke, J. and Leibfritz, D.
Neurochemical Research 20 (7): 793-802. July 1995

Inducible gene targeting in mice.
Kuehn, R. and Schwenk, F. and Aguet, M. and Rajewsky, K.
Science 269 (5229): 1427-1429. 8 September 1995

Interpretation of DW-NMR data: dependence on experimental conditions.
Norris, D.G. and Niendorf, T.
NMR in Biomedicine 8 (7-8): 280-288. November 1995

1994

Pattern-formation during the CO oxidation on Pt(110) surfaces under global coupling.
Falcke, M. and Engel, H.
Journal of Chemical Physics 101 (7): 6255-6263. October 1994

Influence of global coupling through the gas phase on the dynamics of CO oxidation on Pt(110).
Falcke, M. and Engel, H.
Physical Review E 50 (2): 1353-1359. August 1994

MHC class I expression in mice lacking the proteasome subunit LMP-7.
Fehling, H.J. and Swat, W. and Laplace, C. and Kuehn, R. and Rajewsky, K. and Mueller, U. and von Boehmer, H.
Science 265 (5176): 1234-1237. 26 August 1994

Resistance to murine acquired immunodeficiency syndrome (MAIDS).
Morawetz, R.A. and Doherty, T.M. and Giese, N.A. and Hartley, J.W. and Mueller, W. and Kuehn, R. and Rajewsky, K. and Coffman, R. and Morse, H.C.
Science 265 (5169): 264-266. 8 July 1994

Detection of apparent restricted diffusion in healthy rat brain at short diffusion times.
Niendorf, T. and Norris, D.G. and Leibfritz, D.
Magnetic Resonance in Medicine 32 (5): 672-677. November 1994

Incidence of apparent restricted diffusion in three different models of cerebral infarction.
Norris, D.G. and Niendorf, T. and Hoehn-Berlage, M. and Kohno, K. and Schneider, E.J. and Hainz, P. and Hropot, M. and Leibfritz, D.
Magnetic Resonance Imaging 12 (8): 1175-1182. 1994

Healthy and infarcted brain tissues studied at short diffusion times: the origins of apparent restriction and the reduction in apparent diffusion coefficient.
Norris, D.G. and Niendorf, T. and Leibfritz, D.
NMR in Biomedicine 7 (7): 304-310. November 1994

Development and proliferation of lymphocytes in mice deficient for both interleukins-2 and -4.
Sadlack, B. and Kuehn, R. and Schorle, H. and Rajewsky, K. and Mueller, W. and Horak, I.
European Journal of Immunology 24 (1): 281-284. January 1994

IL-9 production of naive CD4+ T cells depends on IL-2, is synergistically enhanced by a combination of TGF-beta and IL-4, and is inhibited by IFN-gamma.
Schmitt, E. and Germann, T. and Goedert, S. and Hoehn, P. and Huels, C. and Koelsch, S. and Kuehn, R. and Mueller, W. and Palm, N. and Ruede, E.
Journal of Immunology 153 (9): 3989-3996. 1 November 1994

Induction of interleukin 4 (IL-4) expression in T helper (Th) cells is not dependent on IL-4 from non-Th cells.
Schmitz, J. and Thiel, A. and Kuehn, R. and Rajewsky, K. and Mueller, W. and Assenmacher, M. and Radbruch, A.
Journal of Experimental Medicine 179 (4): 1349-53. 1 April 1994

1993

Knock out mice models for immunodeficiency diseases.
Haas, W. and Kuehn, R.
In: Progress in Immunology. Springer (Germany), 561-570 . ISBN 978-3-642-51481-4 1993

Interleukin-10-deficient mice develop chronic enterocolitis.
Kuehn, R. and Loehler, J. and Rennick, D. and Rajewsky, K. and Mueller, W.
Cell 75 (2): 263-274. 22 October 1993

Interleukin-4 transgenic mice of resistant background are susceptible to Leishmania major infection.
Leal, L.M.C.C. and Moss, D.W. and Kuhn, R. and Mueller, W. and Liew, F.Y.
European Journal of Immunology 23 (2): 566-569. February 1993

Interleukin-4-deficient mice.
Mueller, W and Rajewsky, K and Kuehn, R.
Research in Immunology 144 (8): 637-638. October 1993

1992

Dispersion-relation and spiral rotation in an excitable surface-reaction.
Baer, M. and Falcke, M. and Eiswirth, M.
Physica A 188 (1-3): 78-88. 1 September 1992

Reaction fronts and pulses in the CO oxidation on Pt: therortical analysis.
Baer, M. and Falcke, M. and Zuelicke, C. and Engel, H. and Eiswirth, M. and Ertl, G.
Surface Science 269-270 (Pt A): 471-475. 15 May 1992

Hormonal induction of functional differentiation and mammary-derived growth inhibitor expression in cultured mouse mammary gland explants.
Binas, B. and Spitzer, E. and Zschiesche, W. and Erdmann, B. and Kurtz, A. and Mueller, T. and Niemann, C. and Blenau, W. and Grosse, R.
In Vitro Cellular & Developmental Biology 28A (9-10): 625-634. September 1992

Traveling waves in the CO oxidation on Pt(110) - Theory.
Falcke, M. and Baer, M. and Engel, H. and Eiswirth, M.
Journal of Chemical Physics 97 (6): 4555-4563. 15 September 1992

T helper cell membranes promote IL-4-independent expression of germ-line Cγ1 transcripts in B cells.
Schultz, C.L. and Rothman, P. and Kuehn, R. and Kehry, M. and Mueller, W. and Rajewsky, K. and Alt, F. and Coffman, R.L.
Journal of Immunology 149 (1): 60-64. 1 July 1992

1991

A B cell-deficient mouse by targeted disruption of the membrane exon of the immunoglobulin mu chain gene.
Kitamura, D. and Roes, J. and Kuehn, R. and Rajewsky, K.
Nature 350 (6317): 423-426. 4 April 1991

Generation and analysis of interleukin-4 deficient mice.
Kuehn, R. and Rajewsky, K. and Mueller, W.
Science 254 (5032): 707-710. 1 November 1991

Major histocompatibility complex class II hyperexpression on B cells in interleukin 4-transgenic mice does not lead to B cell proliferation and hypergammaglobulinemia.
Mueller, W. and Kuehn, R. and Rajewsky, K.
European Journal of Immunology 21 (4): 921-925. April 1991

1985

Signal requirements for growth and differentiation of activated murine B lymphocytes.
Mueller, W. and Kuehn, R. and Goldmann, W. and Tesch, H. and Smith, F.I. and Radbruch, A. and Rajewsky, K.
Journal of Immunology 135 (2): 1213-1219. August 1985

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