Browse by Research Team

2023

Ethanol deprivation and central 5-HT deficiency differentially affect the mRNA editing of the 5-HT(2C) receptor in the mouse brain.
Zaniewska, M., Alenina, N., Fröhler, S., Chen, W. and Bader, M.
Pharmacological Reports 75 (6): 1502-1521. December 2023

2021

Profiling of sub-lethal in vitro effects of multi-walled carbon nanotubes reveals changes in chemokines and chemokine receptors.
Keshavan, S., Andón, F.T., Gallud, A., Chen, W., Reinert, K., Tran, L. and Fadeel, B.
Nanomaterials 11 (4): 883. 30 March 2021

Transcriptional repression of NFKBIA triggers constitutive IKK- and proteasome-independent p65/RelA activation in senescence.
Kolesnichenko, M., Mikuda, N., Höpken, U.E., Kärgel, E., Uyar, B., Tufan, A.B., Milanovic, M., Sun, W., Krahn, I., Schleich, K., von Hoff, L., Hinz, M., Willenbrock, M., Jungmann, S., Akalin, A., Lee, S., Schmidt-Ullrich, R., Schmitt, C.A. and Scheidereit, C.
EMBO Journal 40 (6): e104296. 15 March 2021

Rbm10 facilitates heterochromatin assembly via the Clr6 HDAC complex.
Weigt, M., Gao, Q., Ban, H., He, H., Mastrobuoni, G., Kempa, S., Chen, W. and Li, F.
Epigenetics & Chromatin 14 (1): 8. 19 January 2021

2020

Long noncoding RNA TYKRIL plays a role in pulmonary hypertension via the p53-mediated regulation of PDGFRβ.
Zehendner, C.M., Valasarajan, C., Werner, A., Boeckel, J.N., Bischoff, F.C., John, D., Weirick, T., Glaser, S.F., Rossbach, O., Jaé, N., Demolli, S., Khassafi, F., Yuan, K., de Jesus Perez, V.A., Michalik, K.M., Chen, W., Seeger, W., Guenther, A., Wasnick, R.M., Uchida, S., Zeiher, A.M., Dimmeler, S. and Pullamsetti, S.S.
American Journal of Respiratory and Critical Care Medicine 202 (10): 1445-1457. 15 November 2020

DNA sonication inverse PCR for genome scale analysis of uncharacterized flanking sequences.
Alquezar‐Planas, D.E., Löber, U., Cui, P., Quedenau, C., Chen, W. and Greenwood, A.D.
Methods in Ecology and Evolution 22 September 2020

FAM46B is a prokaryotic-like cytoplasmic poly(A) polymerase essential in human embryonic stem cells.
Hu, J.L., Liang, H., Zhang, H., Yang, M.Z., Sun, W., Zhang, P., Luo, L., Feng, J.X., Bai, H., Liu, F., Zhang, T., Yang, J.Y., Gao, Q., Long, Y., Ma, X.Y., Chen, Y., Zhong, Q., Yu, B., Liao, S., Wang, Y., Zhao, Y., Zeng, M.S., Cao, N., Wang, J., Chen, W., Yang, H.T. and Gao, S.
Nucleic Acids Research 48 (5): 2733-2748. 18 March 2020

Inhibiting WNT and NOTCH in renal cancer stem cells and the implications for human patients.
Fendler, A., Bauer, D., Busch, J., Jung, K., Wulf-Goldenberg, A., Kunz, S., Song, K., Myszczyszyn, A., Elezkurtaj, S., Erguen, B., Jung, S., Chen, W. and Birchmeier, W.
Nature Communications 11 (1): 929. 17 February 2020

2019

Proteomic and transcriptomic changes in hibernating grizzly bears reveal metabolic and signaling pathways that protect against muscle atrophy.
Mugahid, D.A., Sengul, T.G., You, X., Wang, Y., Steil, L., Bergmann, N., Radke, M.H., Ofenbauer, A., Gesell-Salazar, M., Balogh, A., Kempa, S., Tursun, B., Robbins, C.T., Völker, U., Chen, W., Nelson, L. and Gotthardt, M.
Scientific Reports 9 (1): 19976. 27 December 2019

The dynamic proteome of influenza A virus infection identifies M segment splicing as a host range determinant.
Bogdanow, B., Wang, X., Eichelbaum, K., Sadewasser, A., Husic, I., Paki, K., Budt, M., Hergeselle, M., Vetter, B., Hou, J., Chen, W., Wiebusch, L., Meyer, I.M., Wolff, T. and Selbach, M.
Nature Communications 10 (1): 5518. 4 December 2019

Full-length transcriptome reconstruction reveals a large diversity of RNA and protein isoforms in rat hippocampus.
Wang, X., You, X., Langer, J.D., Hou, J., Rupprecht, F., Vlatkovic, I., Quedenau, C., Tushev, G., Epstein, I., Schaefke, B., Sun, W., Fang, L., Li, G., Hu, Y., Schuman, E.M. and Chen, W.
Nature Communications 10 (1): 5009. 1 November 2019

A missense mutation in SNRPE linked to non-syndromal microcephaly interferes with U snRNP assembly and pre-mRNA splicing.
Chen, T., Zhang, B., Ziegenhals, T., Prusty, A.B., Fröhler, S., Grimm, C., Hu, Y., Schaefke, B., Fang, L., Zhang, M., Kraemer, N., Kaindl, A.M., Fischer, U. and Chen, W.
PLoS Genetics 15 (10): e1008460. 31 October 2019

Genetics of intellectual disability in consanguineous families.
Hu, H., Kahrizi, K., Musante, L., Fattahi, Z., Herwig, R., Hosseini, M., Oppitz, C., Abedini, S.S., Suckow, V., Larti, F., Beheshtian, M., Lipkowitz, B., Akhtarkhavari, T., Mehvari, S., Otto, S., Mohseni, M., Arzhangi, S., Jamali, P., Mojahedi, F., Taghdiri, M., Papari, E., Soltani Banavandi, M.J., Akbari, S., Tonekaboni, S.H., Dehghani, H., Ebrahimpour, M.R., Bader, I., Davarnia, B., Cohen, M., Khodaei, H., Albrecht, B., Azimi, S., Zirn, B., Bastami, M., Wieczorek, D., Bahrami, G., Keleman, K., Vahid, L.N., Tzschach, A., Gärtner, J., Gillessen-Kaesbach, G., Varaghchi, J.R., Timmermann, B., Pourfatemi, F., Jankhah, A., Chen, W., Nikuei, P., Kalscheuer, V.M., Oladnabi, M., Wienker, T.F., Ropers, H.H. and Najmabadi, H.
Molecular Psychiatry 24 (7): 1027-1039. July 2019

The histone demethylase PHF8 facilitates alternative splicing of the histocompatibility antigen HLA-G.
Leisegang, M.S., Gu, L., Preussner, J., Günther, S., Hitzel, J., Ratiu, C., Weigert, A., Chen, W., Schwarz, E.C., Looso, M., Fork, C. and Brandes, R.P.
FEBS Letters 593 (5): 487-498. March 2019

Splicing factor Rbm10 facilitates heterochromatin assembly in fission yeast.
Weigt, M., Gao, Q., Ban, H., He, H., Mastrobuoni, G., Kempa, S., Chen, W. and Li, F.
bioRxiv : 518936. 11 January 2019

An integrated understanding of the molecular mechanisms how adipose tissue metabolism affects long-term body weight maintenance.
Mai, K., Li, L., Wiegand, S., Brachs, M., Leupelt, V., Ernert, A., Kühnen, P., Hübner, N., Robinson, P., Chen, W., Krude, H. and Spranger, J.
Diabetes 68 (1): 57-65. 1 January 2019

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

2018

The IκB kinase complex is a regulator of mRNA stability.
Mikuda, N., Kolesnichenko, M., Beaudette, P., Popp, O., Uyar, B., Sun, W., Tufan, A.B., Perder, B., Akalin, A., Chen, W., Mertins, P., Dittmar, G., Hinz, M. and Scheidereit, C.
EMBO Journal 37 (24): e98658. 14 December 2018

Degradation and remobilization of endogenous retroviruses by recombination during the earliest stages of a germ-line invasion.
Löber, U., Hobbs, M., Dayaram, A., Tsangaras, K., Jones, K., Alquezar-Planas, D.E., Ishida, Y., Meers, J., Mayer, J., Quedenau, C., Chen, W., Johnson, R.N., Timms, P., Young, P.R., 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

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

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

Long noncoding RNA lISPR1 is required for S1P signaling and endothelial cell function.
Josipovic, I., Pflueger, B., Fork, C., Vasconez, A.E., Oo, J.A., Hitzel, J., Seredinski, S., Gamen, E., Heringdorf, D.M.Z., Chen, W., Looso, M., Pullamsetti, S.S., Brandes, R.P. and Leisegang, M.S.
Journal of Molecular and Cellular Cardiology 116 : 57-68. March 2018

Metabolic labeling of newly synthesized RNA with 4sU to in parallel assess RNA transcription and decay.
Sun, W. and Chen, W.
Methods in Molecular Biology 1720 : 25-34. 2018

2017

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

Identification and functional characterization of hypoxia-induced endoplasmic reticulum stress regulating lncRNA (HypERlnc) in pericytes.
Bischoff, F.C., Werner, A., John, D., Boeckel, J.-N., Melissari, M.-T., Grote, P., Glaser, S.F., Demolli, S., Uchida, S., Michalik, K.M., Meder, B., Katus, H.A., Haas, J., Chen, W., Pullamsetti, S.S., Seeger, W., Zeiher, A.M., Dimmeler, S. and Zehendner, C.M.
Circulation Research 121 (4): 368-375. 4 August 2017

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

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

Identification of the elementary structural units of the DNA damage response.
Natale, F., Rapp, A., Yu, W., Maiser, A., Harz, H., Scholl, A., Grulich, S., Anton, T., Hoerl, D., Chen, W., Durante, M., Taucher-Scholz, G., Leonhardt, H. and Cardoso, M.C.
Nature Communications 8 : 15760. 12 June 2017

Somatic mutations and progressive monosomy modify SAMD9-related phenotypes in humans.
Buonocore, F., Kuehnen, P., Suntharalingham, J.P., Del Valle, I., Digweed, M., Stachelscheid, H., Khajavi, N., Didi, M., Brady, A.F., Blankenstein, O., Procter, A.M., Dimitri, P., Wales, J.K.H., Ghirri, P., Knoebl, D., Strahm, B., Erlacher, M., Wlodarski, M.W., Chen, W., Kokai, G.K., Anderson, G., Morrogh, D., Moulding, D.A., McKee, S. A., Niemeyer, C.M., Grueters, A. and Achermann, J.C.
Journal of Clinical Investigation 127 (5): 1700-1713. 1 May 2017

Pontine tegmental cap dysplasia in an extremely preterm infant and review of the literature.
Picker-Minh, S., Hartenstein, S., Proquitte, H., Froehler, S., Raile, V., Kraemer, N., Apeshiotis, S., Leipoldt, M., Kalache, K.D., Morris-Rosendahl, D., Boltshauser, E., Chen, W. and Kaindl, A.M.
Journal of Child Neurology 32 (3): 334-340. March 2017

Combining transcription factor binding affinities with open-chromatin data for accurate gene expression prediction.
Schmidt, F., Gasparoni, N., Gasparoni, G., Gianmoena, K., Cadenas, C., Polansky, J.K., Ebert, P., Nordstroem, K., Barann, M., Sinha, A., Froehler, S., Xiong, J., Dehghani Amirabad, A., Behjati Ardakani, F., Hutter, B., Zipprich, G., Felder, B., Eils, J., Brors, B., Chen, W., Hengstler, J.G., Hamann, A., Lengauer, T., Rosenstiel, P., Walter, J. and Schulz, M.H.
Nucleic Acids Research 45 (1): 54-66. 9 January 2017

2016

Global analysis of regulatory divergence in the evolution of mouse alternative polyadenylation.
Xiao, M.S., Zhang, B., Li, Y.S., Gao, Q., Sun, W. and Chen, W.
Molecular Systems Biology 12 (12): 890. 8 December 2016

Epigenomic profiling of human CD4(+) T cells supports a linear differentiation model and highlights molecular regulators of memory development.
Durek, P., Nordström, K., Gasparoni, G., Salhab, A., Kressler, C., de Almeida, M., Bassler, K., Ulas, T., Schmidt, F., Xiong, J., Glažar, P., Klironomos, F., Sinha, A., Kinkley, S., Yang, X., Arrigoni, L., Amirabad, A.., Ardakani, F.B., Feuerbach, L., Gorka, O., Ebert, P., Müller, F., Li, N., Frischbutter, S., Schlickeiser, S., Cendon, C., Fröhler, S., Felder, B., Gasparoni, N., Imbusch, C.D., Hutter, B., Zipprich, G., Tauchmann, Y., Reinke, S., Wassilew, G., Hoffmann, U., Richter, A.S., Sieverling, L., Chang, H.D., Syrbe, U., Kalus, U., Eils, J., Brors, B., Manke, T., Ruland, J., Lengauer, T., Rajewsky, N., Chen, W., Dong, J., Sawitzki, B., Chung, H.R., Rosenstiel, P., Schulz, M.H., Schultze, J.L., Radbruch, A., Walter, J., Hamann, A. and Polansky, J.K.
Immunity 45 (5): 1148-1161. 15 November 2016

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

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

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

Adenosine-to-inosine RNA editing controls cathepsin S expression in atherosclerosis by enabling HuR-mediated post-transcriptional regulation.
Stellos, K., Gatsiou, A., Stamatelopoulos, K., Perisic Matic, L., John, D., Lunella, F.F., Jae, N., Rossbach, O., Amrhein, C., Sigala, F., Boon, R.A., Fuertig, B., Manavski, Y., You, X., Uchida, S., Keller, T., Boeckel, J.N., Franco-Cereceda, A., Maegdefessel, L., Chen, W., Schwalbe, H., Bindereif, A., Eriksson, P., Hedin, U., Zeiher, A.M. and Dimmeler, S.
Nature Medicine 22 (10): 1140-1150. October 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., Mietzsch, M., Gogol-Doering, A., Weger, S., Sohn, M., Chen, W. and Heilbronn, R.
PLoS ONE 11 (9): e0161454. 9 September 2016

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

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

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

Epigenetic dynamics of monocyte-to-macrophage differentiation.
Wallner, S., Schroeder, C., Leitão, E., Berulava, T., Haak, C., Beißer, D., Rahmann, S., Richter, A.S., Manke, T., Bönisch, U., Arrigoni, L., Fröhler, S., Klironomos, F., Chen, W., Rajewsky, N., Müller, F., Ebert, P., Lengauer, T., Barann, M., Rosenstiel, P., Gasparoni, G., Nordström, K., Walter, J., Brors, B., Zipprich, G., Felder, B., Klein-Hitpass, L., Attenberger, C., 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., Hou, J., Quedenau, C. and Chen, W.
Molecular Systems Biology 12 (7): 875. 18 July 2016

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

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

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

A germline chromothripsis event stably segregating in 11 individuals through three generations.
Bertelsen, B., Nazaryan-Petersen, L., Sun, W., Mehrjouy, M.M., Xie, G., Chen, W., Hjermind, L.E., Taschner, P.E.M. and Tuemer, Z.
Genetics in Medicine 18 (5): 494-500. May 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., Ammar, I., Gupta, S., Bunse, M., Miskey, C., Chen, W., Uckert, W., Schulz, T.F., Izsvák, Z. and Ivics, Z.
Molecular Therapy 24 (3): 592-606. March 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., Gogol-Doering, A., Botschen, L., Mietzsch, M., Weger, S., Feldkamp, M., Chen, W. and Heilbronn, R.
Journal of Virology 90 (3): 1278-1289. February 2016

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

2015

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

A grainyhead-like 2/Ovo-like 2 pathway regulates renal epithelial barrier function and lumen expansion.
Aue, A., Hinze, C., Walentin, K., Ruffert, J., Yurtdas, Y., Werth, M., Chen, W., Rabien, A., Kilic, E., Schulzke, J.D., Schumann, M. and Schmidt-Ott, K.M.
Journal of the American Society of Nephrology 26 (11): 2704-2715. November 2015

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

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

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

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

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

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

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

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

miR-148a is upregulated by Twist1 and T-bet and promotes Th1-cell survival by regulating the proapoptotic gene Bim.
Haftmann, C., Stittrich, A.B., Zimmermann, J., Fang, Z., Hradilkova, K., Bardua, M., Westendorf, K., Heinz, G.A., Riedel, R., Siede, J., Lehmann, K., Weinberger, E.E., Zimmel, D., Lauer, U., Häupl, T., Sieper, J., Backhaus, M., Neumann, C., Hoffmann, U., Porstner, M., Chen, W., Grün, J.R., Baumgrass, R., Matz, M., Löhning, M., Scheffold, A., Wittmann, J., Chang, H.D., Rajewsky, N., Jäck, H.M., Radbruch, A. and Mashreghi, M.F.
European Journal of Immunology 45 (4): 1192-1205. 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., Melchior, L., Jensen, L.R., Groth, C., Nazaryan, L., Debes, N.M., Skov, L., Xie, G., Sun, W., Brondum-Nielsen, K., Kuss, A.W., Chen, W. and Tuemer, Z.
Psychiatry Research 225 (3): 268-275. 28 February 2015

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

Laminar shear stress inhibits endothelial cell metabolism via KLF2-mediated repression of PFKFB3.
Doddaballapur, A., Michalik, K.M., Manavski, Y., Lucas, T., Houtkooper, R.H., You, X., Chen, W., Zeiher, A.M., Potente, M., Dimmeler, S. and Boon, R.A.
Arteriosclerosis Thrombosis and Vascular Biology 35 (1): 137-145. January 2015

2014

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

Whole genome sequencing and methylome analysis of the wild guinea pig.
Weyrich, A., Schuellermann, T., Heeger, F., Jeschek, M., Mazzoni, C.J., Chen, W., Schumann, K. and Fickel, J.
BMC Genomics 15 (1): 1036. 28 November 2014

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

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

Quantitative profiling of Drosophila melanogaster Dscam1 isoforms reveals no changes in splicing after bacterial exposure.
Armitage, S.A.O., Sun, W., You, X., Kurtz, J., Schmucker, D. and Chen, W.
PLoS ONE 9 (10): e108660. 13 October 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., Gogol-Doering, A., Chen, W. and Heilbronn, R.
Journal of Virology 88 (19): 11253-11263. 1 October 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., Langnick, C., Sommer, R.J. and Dieterich, C.
RNA 20 (9): 1386-1397. September 2014

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

MOV10 is a 5' to 3' RNA helicase contributing to UPF1 mRNA target degradation by translocation along 3' UTRs.
Gregersen, L.H., Schueler, M., Munschauer, M., Mastrobuoni, G., Chen, W., Kempa, S., Dieterich, C. and Landthaler, M.
Molecular Cell 54 (4): 573-585. 22 May 2014

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

Exome sequencing helped the fine diagnosis of two siblings afflicted with atypical Timothy syndrome (TS2).
Froehler, S., Kieslich, M., Langnick, C., Feldkamp, M., Opgen-Rhein, B., Berger, F., Will, J.C. and Chen, W.
BMC Medical Genetics 15 (1): 48. 29 April 2014

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

A 3-base pair deletion, c.9711_9713del, in DMD results in intellectual disability without muscular dystrophy.
de Brouwer, A.P.M., Nabuurs, S.B., Verhaart, I.E.C., Oudakker, A.R., Hordijk, R., Yntema, H.G., Hordijk-Hos, J.M., Voesenek, K., de Vries, B.B.A., van Essen, T., Chen, W., Hu, H., Chelly, J., den Dunnen, J.T., Kalscheuer, V.M., Aartsma-Rus, A.M., Hamel, B.C.J., van Bokhoven, H. and Kleefstra, T.
European Journal of Human Genetics 22 (4): 480-485. April 2014

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

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

Argonaute2 mediates compensatory expansion of the pancreatic β cell.
Tattikota, S.G., Rathjen, T., McAnulty, S.J., Wessels, H.H., Akerman, I., van de Bunt, M., Hausser, J., Esguerra, J.L.S., Musahl, A., Pandey, A.K., You, X., Chen, W., Herrera, P.L., Johnson, P.R., O'Carroll, D., Eliasson, L., Zavolan, M., Gloyn, A.L., Ferrer, J., Shalom-Feuerstein, R., Aberdam, D. and Poy, M.N.
Cell Metabolism 19 (1): 122-134. 7 January 2014

Identification of PENDRIN (SLC26A4) mutations in patients with congenital hypothyroidism and "apparent" thyroid dysgenesis.
Kuehnen, P., Turan, S., Froehler, S., Gueran, T., Abali, S., Biebermann, H., Bereket, A., Grueters, A., Chen, W. and Krude, H.
Journal of Clinical Endocrinology and Metabolism 99 (1): E169-E176. January 2014

2013

Abnormal centrosome and spindle morphology in a patient with autosomal recessive primary microcephaly type 2 due to compound heterozygous WDR62 gene mutations.
Farag, H.G., Froehler, S., Oexle, K., Ravindran, E., Schindler, D., Staab, T., Huebner, A., Kraemer, N., Chen, W. and Kaindl, A.M.
Orphanet Journal of Rare Diseases 8 (1): 178. 14 November 2013

Mutually exclusive signaling signatures define the hepatic and pancreatic progenitor cell lineage divergence.
Rodríguez-Seguel, E., Mah, N., Naumann, H., Pongrac, I.M., Cerdá-Esteban, N., Fontaine, J.F., Wang, Y., Chen, W., Andrade-Navarro, M.A. and Spagnoli, F.M.
Genes & Development 27 (17): 1932-1946. 1 September 2013

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

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

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

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

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

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

Argonaute2 regulates the pancreatic β-cell secretome.
Tattikota, S.G., Sury, M.D., Rathjen, T., Wessels, H.H., Pandey, A.K., You, X., Becker, C., Chen, W., Selbach, M. and Poy, M.N.
Molecular & Cellular Proteomics 12 (5): 1214-1225. May 2013

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

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

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

Widespread splicing changes in human brain development and aging.
Mazin, P., Xiong, J., Liu, X., Yan, Z., Zhang, X., Li, M., He, L., Somel, M., Yuan, Y., Chen, Y.P.P., Li, N., Hu, Y., Fu, N., Ning, Z., Zeng, R., Yang, H., Chen, W., Gelfand, M. and Khaitovich, P.
Molecular Systems Biology 9 : 633. 2013

2012

Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.
Marguerat, S., Schmidt, A., Codlin, S., Chen, W., Aebersold, R. and Baehler, J.
Cell 151 (3): 671-683. 26 October 2012

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

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

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

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

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

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

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

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

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

2011

MicroRNA-driven developmental remodeling in the brain distinguishes humans from other primates.
Somel, M., Liu, X., Tang, L., Yan, Z., Hu, H., Guo, S., Jiang, X., Zhang, X., Xu, G., Xie, G., Li, N., Hu, Y., Chen, W., Paeaebo, S. and Khaitovich, P.
PLoS Biology 9 (12): e1001214. December 2011

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

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

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

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

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

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

De novo assembly and validation of planaria transcriptome by massive parallel sequencing and shotgun proteomics.
Adamidi, C., Wang, Y., Gruen, D., Mastrobuoni, G., You, X., Tolle, D., Dodt, M., Mackowiak, S.D., Gogol-Doering, A., Oenal, P., Rybak, A., Ross, E., Alvarado, A.S., Kempa, S., Dieterich, C., Rajewsky, N. and Chen, W.
Genome Research 21 (7): 1193-1200. July 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., Chen, W., Moser, B., Lipkowitz, B., Schroeder, C., Musante, L., Tzschach, A., Kalscheuer, V.M., Meloni, I., Raynaud, M., van Esch, H., Chelly, J., de Brouwer, A.P., Hackett, A., van der Haar, S., Henn, W., Gecz, J., Riess, O., Bonin, M., Reinhardt, R., Ropers, H.H. and Kuss, A.W.
European Journal of Human Genetics 19 (6): 717-720. June 2011

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

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

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

2010

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

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

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

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

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

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

Altered histone acetylation is associated with age-dependent memory impairment in mice.
Peleg, S., Sananbenesi, F., Zovoilis, A., Burkhardt, S., Bahari-Javan, S., Agis-Balboa, R.C., Cota, P., Wittnam, J.L., Gogol-Doering, A., Opitz, L., Salinas-Riester, G., Dettenhofer, M., Kang, H., Farinelli, L., Chen, W. and Fischer, A.
Science 328 (5979): 753-756. 7 May 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., Hu, Y., Andersen, T.E., Jafari, A., Li, N., Chen, W. and Kassem, M.
Journal of Biological Chemistry 285 (19): 14438-14449. 7 May 2010

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

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

2009

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

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

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

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

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

2008

A human snoRNA with microRNA-like functions.
Ender, C., Krek, A., Friedlaender, M.R., Beitzinger, M., Weinmann, L., Chen, W., Pfeffer, S., 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., Larsen, L.A., Zhang, L., Tuemer, Z., Tommerup, N., Chen, W., Jacobsen, J.R., Schubert, M., Jurkatis, J., Tzschach, A., Ropers, H.H. and Ullmann, R.
Journal of Medical Genetics 45 (11): 704-709. November 2008

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

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

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

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

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

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

2007

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

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

Mutation screening of brain-expressed X-chromosomal miRNA genes in 464 patients with nonsyndromic X-linked mental retardation.
Chen, W., Jensen, L.R., Gecz, J., Fryns, J.P., Moraine, C., de Brouwer, A., Chelly, J., Moser, B., Ropers, H.H. and Kuss, A.W.
European Journal of Human Genetics 15 (3): 375-378. March 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., Ullmann, R., Chen, W., Schubert, M., Adolph, S., Hultschig, C., Kalscheuer, V., Ropers, H.H., Spaich, C. and Tzschach, A.
American Journal of Medical Genetics A 143 (2): 172-178. 15 January 2007

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

2006

Impact of low copy repeats on the generation of balanced and unbalanced chromosomal aberrations in mental retardation.
Erdogan, F., Chen, W., Kirchhoff, M., Kalscheuer, V.M., Hultschig, C., Mueller, I., Schulz, R., Menzel, C., Bryndorf, T., Ropers, H.H. and Ullmann, R.
Cytogenetic and Genome Research 115 (3-4): 247-253. November 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., Chen, W., Omran, H., Fliegauf, M., Tzschach, A., Wisniewska, M., Jensen, L.R., Raynaud, M., Shoichet, S.A., Badura, M., Lenzner, S., Latos-Bielenska, A. and Ropers, H.H.
Human Genetics 120 (2): 171-178. September 2006

2005

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

2001

Introduction to Go! Poly, a human genome polymorphism database.
Chen, W., Zhang, G. and Zhang, S.
Chinese Journal of Medical Genetics 18 (6): 482-485. December 2001

Go!Poly: A gene-oriented polymorphism database.
Zhang, G., Zhang, S., Chen, W., Qiu, W., Wu, H., Wang, J., Luo, J., Gu, X. and Cotton, R.G.
Human Mutation 18 (5): 382-387. November 2001

Discovery of candidate SNP by bioinformatic methods.
Chen, W., Zhang, G. and Zhang, S.
Hereditas 23 (2): 153-156. 2001