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Article

Microglial sex differences in innate high anxiety and modulatory effects of minocycline.
Ugursu, B. and Sah, A. and Sartori, S. and Popp, O. and Mertins, P. and Dunay, I.R. and Kettenmann, H. and Singewald, N. and Wolf, S.A.
Brain, Behavior and Immunity 27 March 2024 (In Press)

Ion mobility-tandem mass spectrometry of mucin-type O-glycans.
Bechtella, L. and Chunsheng, J. and Fentker, K. and Ertürk, G.R. and Safferthal, M. and Polewski, Ł. and Götze, M. and Graeber, S.Y. and Vos, G.M. and Struwe, W.B. and Mall, M.A. and Mertins, P. and Karlsson, N.G. and Pagel, K.
Nature Communications 15 (1): 2611. 23 March 2024

Peripheral priming induces plastic transcriptomic and proteomic responses in circulating neutrophils required for pathogen containment.
Kaiser, R. and Gold, C. and Joppich, M. and Loew, Q. and Akhalkatsi, A. and Mueller, T.T. and Offensperger, F. and Droste Zu Senden, A. and Popp, O. and di Fina, L. and Knottenberg, V. and Martinez-Navarro, A. and Eivers, L. and Anjum, A. and Escaig, R. and Bruns, N. and Briem, E. and Dewender, R. and Muraly, A. and Akgöl, S. and Ferraro, B. and Hoeflinger, J.K.L. and Polewka, V. and Khaled, N.B. and Allgeier, J. and Tiedt, S. and Dichgans, M. and Engelmann, B. and Enard, W. and Mertins, P. and Hubner, N. and Weckbach, L. and Zimmer, R. and Massberg, S. and Stark, K. and Nicolai, L. and Pekayvaz, K.
Science Advances 10 (12): eadl1710. 22 March 2024

Mice with renal-specific alterations 1 of stem cell-associated signaling develop symptoms of chronic kidney disease but surprisingly no tumors.
Myszczyszyn, A. and Popp, O. and Kunz, S. and Sporbert, A. and Jung, S. and Penning, L.C. and Fendler, A. and Mertins, P. and Birchmeier, W.
PLoS ONE 19 (3): e0282938. 21 March 2024

Passenger gene coamplifications create collateral therapeutic vulnerabilities in cancer.
Bei, Y. and Brame, Luca and Kirchner, M. and Fritsche-Guenther, R. and Kunz, S. and Bhattacharya, A. and Rusu, M.C. and Gürgen, D. and Dubois, F.P.B. and Köppke, J.K.C. and Proba, J. and Wittstruck, N. and Sidorova, O.A. and Chamorro González, R. and Dorado Garcia, H. and Brückner, L. and Xu, R. and Giurgiu, M. and Rodriguez-Fos, E. and Yu, Q. and Spanjaard, B. and Koche, R.P, and Schmitt, C.A. and Schulte, J.H. and Eggert, A. and Haase, K. and Kirwan, J. and Hagemann, A.I. and Mertins, P. and Dörr, J.R. and Henssen, A.G.
Cancer Discovery 14 (3): 492-507. 1 March 2024

Herpes simplex virus type 1 modifies the protein composition of extracellular vesicles to promote neurite outgrowth and neuroinfection.
Sun, G. and Kropp, K.A. and Kirchner, M. and Plückebaum, N. and Selich, A. and Serrero, M. and Dhingra, A. and Cabrera, J.R. and Ritter, B. and Bauerfeind, R. and Wyler, E. and Landthaler, M. and Schambach, A. and Sodeik, B. and Mertins, P. and Viejo-Borbolla, A.
mBio 15 (2): e0330823. 14 February 2024

Targeted proteomics reveals quantitative differences in low-abundance glycosyltransferases of patients with congenital disorders of glycosylation.
Sakson, R. and Beedgen, L. and Bernhard, P. and Alp, K.M. and Lübbehusen, N. and Röth, R. and Niesler, B. and Luzarowski, M. and Shevchuk, O. and Mayer, M.P. and Thiel, C. and Ruppert, T.
International Journal of Molecular Sciences 25 (2): 1191. 18 January 2024

The proteomic composition and organization of constitutive heterochromatin in mouse tissues.
Schmidt, A. and Zhang, H. and Schmitt, S. and Rausch, C. and Popp, O. and Chen, J. and Cmarko, D. and Butter, F. and Dittmar, G. and Lermyte, F. and Cardoso, M.C.
Cells 13 (2): 139. 11 January 2024

TTF-1 status in early-stage lung adenocarcinoma is an independent predictor of relapse and survival superior to tumor grading.
Schallenberg, S. and Dernbach, G. and Dragomir, M.P. and Schlachtenberger, G. and Boschung, K. and Friedrich, C. and Standvoss, K. and Ruff, L. and Anders, P. and Grohé, C. and Randerath, W. and Merkelbach-Bruse, S. and Quaas, A. and Heldwein, M. and Keilholz, U. and Hekmat, J.K. and Rückert, C. and Büttner, R. and Horst, D. and Klauschen, F. and Frost, N.
European Journal of Cancer 197 : 113474. January 2024

Direct-to-biology, automated, nano-scale synthesis, and phenotypic screening-enabled E3 ligase modulator discovery.
Wang, Z. and Shaabani, S. and Gao, X. and Ng, Y.L.D. and Sapozhnikova, V. and Mertins, P. and Krönke, J. and Dömling, A.
Nature Communications 14 (1): 8437. 19 December 2023

Using PrISMa to reveal the interactome of the human claudins family.
Perez-Hernandez, D. and Suarez-Artiles, L. and Jones, M.S.O. and Dittmar, G.
STAR Protocols 4 (4): 102549. 15 December 2023

Prdm16 mutation determines sex-specific cardiac metabolism and identifies two novel cardiac metabolic regulators.
Kühnisch, J. and Theisen, S. and Dartsch, J. and Fritsche-Guenther, R. and Kirchner, M. and Obermayer, B. and Bauer, A. and Kahlert, A.K. and Rothe, M. and Beule, D. and Heuser, A. and Mertins, P. and Kirwan, J.A. and Berndt, N. and MacRae, C.A. and Hubner, N. and Klaassen, S.
Cardiovascular Research 119 (18): 2902-2916. December 2023

Leveraging ligand affinity and properties: discovery of novel benzamide-type cereblon binders for the design of PROTACs.
Steinebach, C. and Bricelj, A. and Murgai, A. and Sosič, I. and Bischof, L. and Ng, Y.L.D. and Heim, C. and Maiwald, S. and Proj, M. and Voget, R. and Feller, F. and Košmrlj, J. and Sapozhnikova, V. and Schmidt, A. and Zuleeg, M.R. and Lemnitzer, P. and Mertins, P. and Hansen, F.K. and Gütschow, M. and Krönke, J. and Hartmann, M.D.
Journal of Medicinal Chemistry 66 (21): 14513-14543. 9 November 2023

Frequent ZNF217 mutations lead to transcriptional deregulation of interferon signal transduction via altered chromatin accessibility in B cell lymphoma.
Briest, F. and Noerenberg, D. and Hennch, C. and Yoshida, K. and Hablesreiter, R. and Nimo, J. and Sasca, D. and Kirchner, M. and Mansouri, L. and Inoue, Y. and Wiegand, L. and Staiger, A.M. and Casadei, B. and Korkolopoulou, P. and Weiner, J. and Lopez-Guillermo, A. and Warth, A. and Schneider, T. and Nagy, Á. and Klapper, W. and Hummel, M. and Kanellis, G. and Anagnostopoulos, I. and Mertins, P. and Bullinger, L. and Rosenquist, R. and Vassilakopoulos, T.P. and Ott, G. and Ogawa, S. and Damm, F.
Leukemia 37 (11): 2237-2249. November 2023

Longitudinal effects of elexacaftor/tezacaftor/ivacaftor on sputum viscoelastic properties, airway infection and inflammation in patients with cystic fibrosis.
Schaupp, L. and Addante, A. and Völler, M. and Fentker, K. and Kuppe, A. and Bardua, M. and Duerr, J. and Piehler, L. and Röhmel, J. and Thee, S. and Kirchner, M. and Ziehm, M. and Lauster, D. and Haag, R. and Gradzielski, M. and Stahl, M. and Mertins, P. and Boutin, S. and Graeber, S.Y. and Mall, M.A.
European Respiratory Journal 62 (2): 2202153. 1 August 2023

A proteomics analysis of 5xFAD mouse brain regions reveals the lysosome-associated protein Arl8b as a candidate biomarker for Alzheimer's disease.
Boeddrich, A. and Haenig, C. and Neuendorf, N. and Blanc, E. and Ivanov, A. and Kirchner, M. and Schleumann, P. and Bayraktaroğlu, I. and Richter, M. and Molenda, C.M. and Sporbert, A. and Zenkner, M. and Schnoegl, S. and Suenkel, C. and Schneider, L.S. and Rybak-Wolf, A. and Kochnowsky, B. and Byrne, L.M. and Wild, E.J. and Nielsen, J.E. and Dittmar, G. and Peters, O. and Beule, D. and Wanker, E.E.
Genome Medicine 15 (1): 50. 20 July 2023

Defining the landscape of circular RNAs in neuroblastoma unveils a global suppressive function of MYCN.
Fuchs, S. and Danßmann, C. and Klironomos, F. and Winkler, A. and Fallmann, J. and Kruetzfeldt, L.M. and Szymansky, A. and Naderi, J. and Bernhart, S.H. and Grunewald, L. and Helmsauer, K. and Rodriguez-Fos, E. and Kirchner, M. and Mertins, P. and Astrahantseff, K. and Suenkel, C. and Toedling, J. and Meggetto, F. and Remke, M. and Stadler, P.F. and Hundsdoerfer, P. and Deubzer, H.E. and Künkele, A. and Lang, P. and Fuchs, J. and Henssen, A.G. and Eggert, A. and Rajewsky, N. and Hertwig, F. and Schulte, J.H.
Nature Communications 14 (1): 3936. 4 July 2023

Sex-specific microglia state in the neuroligin-4 knock-out mouse model of autism spectrum disorder.
Guneykaya, D. and Ugursu, B. and Logiacco, F. and Popp, O. and Feiks, M.A. and Meyer, N. and Wendt, S. and Semtner, M. and Cherif, F. and Gauthier, C. and Madore, C. and Yin, Z. and Çınar, Ö. and Arslan, T. and Gerevich, Z. and Mertins, P. and Butovsky, O. and Kettenmann, H. and Wolf, S.A.
Brain Behavior and Immunity 111 : 61-75. July 2023

Carm1-arginine methylation of the transcription factor C/EBPα regulates transdifferentiation velocity.
Torcal Garcia, G. and Kowenz-Leutz, E. and Tian, T.V and Klonizakis, A. and Lerner, J. and De Andres-Aguayo, L. and Sapozhnikova, V. and Berenguer, C. and Carmona, M.P. and Casadesus, M.V. and Bulteau, R. and Francesconi, M. and Peiro, S. and Mertins, P. and Zaret, K. and Leutz, A. and Graf, T.
eLife 12 : e83951. 27 June 2023

Evolutionary origins and interactomes of human, young microproteins and small peptides translated from short open reading frames.
Sandmann, C.L. and Schulz, J.F. and Ruiz-Orera, J. and Kirchner, M. and Ziehm, M. and Adami, E. and Marczenke, M. and Christ, A. and Liebe, N. and Greiner, J. and Schoenenberger, A. and Mücke, M.B. and Liang, N. and Moritz, R.L. and Sun, Z. and Deutsch, E.W. and Gotthardt, M. and Mudge, J.M. and Prensner, J.R. and Willnow, T.E. and Mertins, P. and van Heesch, S. and Hubner, N.
Molecular Cell 83 (6): 994-1011.e18. 16 March 2023

Neurofibromatosis type 1-dependent alterations in mouse microglia function are not cell-intrinsic.
Logiacco, F. and Grzegorzek, L.C. and Cordell, E.C. and Popp, O. and Mertins, P. and Gutmann, D.H. and Kettenmann, H. and Semtner, M.
Acta Neuropathologica Communications 11 (1): 36. 9 March 2023

Disease- and sex-specific differences in patients with heart valve disease: a proteome study.
Nordmeyer, S. and Kraus, M. and Ziehm, M. and Kirchner, M. and Schafstedde, M. and Kelm, M. and Niquet, S. and Stephen, M.M. and Baczko, I. and Knosalla, C. and Schapranow, M.P. and Dittmar, G. and Gotthardt, M. and Falcke, M. and Regitz-Zagrosek, V. and Kuehne, T. and Mertins, P.
Life Science Alliance 6 (3): e202201411. March 2023

Massively parallel identification of mRNA localization elements in primary cortical neurons.
Mendonsa, S. and von Kügelgen, N. and Dantsuji, S. and Ron, M. and Breimann, L. and Baranovskii, A. and Lödige, I. and Kirchner, M. and Fischer, M. and Zerna, N. and Bujanic, L. and Mertins, P. and Ulitsky, I. and Chekulaeva, M.
Nature Neuroscience 26 (3): 394-405. March 2023

SUMOylation inhibition overcomes proteasome inhibitor resistance in multiple myeloma.
Heynen, G.J.J.E. and Baumgartner, F. and Heider, M. and Patra, U. and Holz, M. and Braune, J. and Kaiser, M. and Schäffer, I. and Bamopoulos, S.A. and Ramberger, E. and Murgai, A. and Ng, Y.L.D. and Demel, U.M. and Laue, D. and Liebig, S. and Krüger, J. and Janz, M. and Nogai, A. and Schick, M. and Mertins, P. and Müller, S. and Bassermann, F. and Krönke, J. and Keller, U. and Wirth, M.
Blood Advances 7 (4): 469-481. 28 February 2023

Small molecule specifically inhibiting microglial nitric oxide release could become a potential treatment for neuroinflammation.
Jordan, P. and Costa, A. and Specker, E. and Popp, O. and Volkamer, A. and Piske, R. and Obrusnik, T. and Kleissle, S. and Stuke, K. and Rex, A. and Neuenschwander, M. and von Kries, J.P. and Nazare, M. and Mertins, P. and Kettenmann, H. and Wolf, S.A.
PLoS ONE 18 (2): e0278325. 6 February 2023

A CRISPR/Cas9-mediated screen identifies determinants of early plasma cell differentiation.
Xiong, E. and Popp, O. and Salomon, C. and Mertins, P. and Kocks, C. and Rajewsky, K. and Chu, V.T.
Frontiers in Immunology 13 : 1083119. 5 January 2023

Protective alpha1-antitrypsin effects in autoimmune vasculitis are compromised by methionine oxidation.
Ebert, M.J. and Jerke, U. and Eulenberg-Gustavus, C. and Kling, L. and Jenne, D.E. and Kirchner, M. and Mertins, P. and Bieringer, M. and Elitok, S. and Eckardt, K.U. and Schreiber, A. and Salama, A.D. and Kettritz, R.
Journal of Clinical Investigation 132 (23): e160089. 1 December 2022

DNA methylation-based classification of sinonasal tumors.
Jurmeister, P. and Glöß, S. and Roller, R. and Leitheiser, M. and Schmid, S. and Mochmann, L.H. and Payá Capilla, E. and Fritz, R. and Dittmayer, C. and Friedrich, C. and Thieme, A. and Keyl, P. and Jarosch, A. and Schallenberg, S. and Bläker, H. and Hoffmann, I. and Vollbrecht, C. and Lehmann, A. and Hummel, M. and Heim, D. and Haji, M. and Harter, P. and Englert, B. and Frank, S. and Hench, J. and Paulus, W. and Hasselblatt, M. and Hartmann, W. and Dohmen, H. and Keber, U. and Jank, P. and Denkert, C. and Stadelmann, C. and Bremmer, F. and Richter, A. and Wefers, A. and Ribbat-Idel, J. and Perner, S. and Idel, C. and Chiariotti, L. and Della Monica, R. and Marinelli, A. and Schüller, U. and Bockmayr, M. and Liu, J. and Lund, V.J. and Forster, M. and Lechner, M. and Lorenzo-Guerra, S.L. and Hermsen, M. and Johann, P.D. and Agaimy, A. and Seegerer, P. and Koch, A. and Heppner, F. and Pfister, S.M. and Jones, D.T.W. and Sill, M. and von Deimling, A. and Snuderl, M. and Müller, K.R. and Forgó, E. and Howitt, B.E. and Mertins, P. and Klauschen, F. and Capper, D.
Nature Communications 13 (1): 7148. 28 November 2022

Pan-claudin family interactome analysis reveals shared and specific interactions.
Suarez Artiles, L. and Breiderhoff, T. and Girardello, R. and Gonschior, H. and Rodius, S. and Lesur, A. and Reimer, U. and Ramberger, E. and Perez-Hernandez, D. and Müller, D. and Mertins, P. and Dittmar, G.
Cell Reports 41 (6): 111588. 8 November 2022

Immune phenotypes and target antigens of clonally expanded bone marrow T cells in treatment-naïve multiple myeloma.
Welters, C. and Lammoglia Cobo, M.F. and Stein, C.A. and Hsu, M.T. and Ben Hamza, A. and Penter, L. and Chen, X. and Buccitelli, C. and Popp, O. and Mertins, P. and Dietze, K. and Bullinger, L. and Moosmann, A. and Blanc, E. and Beule, D. and Gerbitz, A. and Strobel, J. and Hackstein, H. and Rahn, H.P. and Dornmair, K. and Blankenstein, T. and Hansmann, L.
Cancer Immunology Research 10 (11): 1407-1419. 1 November 2022

Serum dihydrotestosterone is associated with adverse myocardial remodeling in patients with aortic valve stenosis before and after aortic valve replacement.
Schafstedde, M. and Nordmeyer, J. and Berger, F. and Knosalla, C. and Mertins, P. and Regitz-Zagrosek, V. and Kuehne, T. and Kraus, M. and Nordmeyer, S.
American Journal of Physiology Heart and Circulatory Physiology 323 (5): H949-H957. November 2022

The SCF/KIT axis in human mast cells: capicua acts as potent KIT repressor and ERK predominates PI3K.
Franke, K. and Kirchner, M. and Mertins, P. and Zuberbier, T. and Babina, M.
Allergy 77 (11): 3337-3349. November 2022

Epithelial coxsackievirus adenovirus receptor promotes house dust mite-induced lung inflammation.
Ortiz-Zapater, E. and Bagley, D.C. and Hernandez, V.L. and Roberts, L.B. and Maguire, T.J.A. and Voss, F. and Mertins, P. and Kirchner, M. and Peset-Martin, I. and Woszczek, G. and Rosenblatt, J. and Gotthardt, M. and Santis, G. and Parsons, M.
Nature Communications 13 (1): 6407. 27 October 2022

H3.3K27M mutation is not a suitable target for immunotherapy in HLA-A2(+) patients with diffuse midline glioma.
Immisch, L. and Papafotiou, G. and Popp, O. and Mertins, P. and Blankenstein, T. and Willimsky, G.
Journal for ImmunoTherapy of Cancer 10 (10): e005535. 27 October 2022

A member of the tryptophan-rich protein family is required for efficient sequestration of Plasmodium berghei schizonts.
Gabelich, J.A. and Grützke, J. and Kirscht, F. and Popp, O. and Matz, J.M. and Dittmar, G. and Rug, M. and Ingmundson, A.
PLoS Pathogens 18 (9): e1010846. 20 September 2022

C/EBPβ regulates lipid metabolism and Pparg isoform 2 expression in alveolar macrophages.
Dörr, D. and Obermayer, B. and Weiner, J.M. and Zimmermann, K. and Anania, C. and Wagner, L.K. and Lyras, E.M. and Sapozhnikova, V. and Lara-Astiaso, D. and Prósper, F. and Lang, R. and Lupiáñez, D.G. and Beule, D. and Höpken, U.E. and Leutz, A. and Mildner, A.
Science Immunology 7 (75): eabj0140. September 2022

Exposure to naphthalene and β-pinene-derived secondary organic aerosol induced divergent changes in transcript levels of BEAS-2B cells.
Pardo, M. and Offer, S. and Hartner, E. and Di Bucchianico, S. and Bisig, C. and Bauer, S. and Pantzke, J. and Zimmermann, E.J. and Cao, X. and Binder, S. and Kuhn, E. and Huber, A. and Jeong, S. and Käfer, U. and Schneider, E. and Mesceriakovas, A. and Bendl, J. and Brejcha, R. and Buchholz, A. and Gat, D. and Hohaus, T. and Rastak, N. and Karg, E. and Jakobi, G. and Kalberer, M. and Kanashova, T. and Hu, Y. and Ogris, C. and Marsico, A. and Theis, F. and Shalit, T. and Gröger, T. and Rüger, C.P. and Oeder, S. and Orasche, J. and Paul, A. and Ziehm, T. and Zhang, Z.H. and Adam, T. and Sippula, O. and Sklorz, M. and Schnelle-Kreis, J. and Czech, H. and Kiendler-Scharr, A. and Zimmermann, R. and Rudich, Y.
Environment International 166 : 107366. August 2022

Therapeutic targeting of ATR in alveolar rhabdomyosarcoma.
Dorado Garcia, H. and Pusch, F. and Bei, Y. and von Stebut, J. and Ibáñez, G. and Guillan, K. and Imami, K. and Gürgen, D. and Rolff, J. and Helmsauer, K. and Meyer-Liesener, S. and Timme, N. and Bardinet, V. and Chamorro González, R. and MacArthur, I.C. and Chen, C.Y. and Schulz, J. and Wengner, A.M. and Furth, C. and Lala, B. and Eggert, A. and Seifert, G. and Hundsoerfer, P. and Kirchner, M. and Mertins, P. and Selbach, M. and Lissat, A. and Dubois, F. and Horst, D. and Schulte, J.H. and Spuler, S. and You, D. and Dela Cruz, F. and Kung, A.L. and Haase, K. and Di Virgilio, M. and Scheer, M. and Ortiz, M.V. and Henssen, A.G.
Nature Communications 13 (1): 4297. 25 July 2022

Metabolic reprogramming of synovial fibroblasts in osteoarthritis by inhibition of pathologically overexpressed pyruvate dehydrogenase kinases.
Damerau, A. and Kirchner, M. and Pfeiffenberger, M. and Ehlers, L. and Do Nguyen, D.H. and Mertins, P. and Bartek, B. and Maleitzke, T. and Palmowski, Y. and Hardt, S. and Winkler, T. and Buttgereit, F. and Gaber, T.
Metabolic Engineering 72 : 116-132. July 2022

SUMOylation of the chromodomain factor MRG-1 in C. elegans affects chromatin-regulatory dynamics.
Baytek, G. and Blume, A. and Demirel, F.G. and Bulut, S. and Popp, O. and Mertins, P. and Tursun, B.
Biotechniques 73 (1): 5-17. June 2022

The anti-glucocorticoid receptor antibody clone 5E4: raising awareness of unspecific antibody binding.
Ehlers, L. and Kirchner, M. and Mertins, P. and Strehl, C. and Buttgereit, F. and Gaber, T.
International Journal of Molecular Sciences 23 (9): 5049. 2 May 2022

Robust co-immunoprecipitation with mass spectrometry for Caenorhabditis elegans using solid-phase enhanced sample preparation.
Baytek, G. and Popp, O. and Mertins, P. and Tursun, B.
Biotechniques 72 (5): 175-184. May 2022

MYCN mediates cysteine addiction and sensitizes neuroblastoma to ferroptosis.
Alborzinia, H. and Flórez, A.F. and Kreth, S. and Brückner, L.M. and Yildiz, U. and Gartlgruber, M. and Odoni, D.I. and Poschet, G. and Garbowicz, K. and Shao, C. and Klein, C. and Meier, J. and Zeisberger, P. and Nadler-Holly, M. and Ziehm, M. and Paul, F. and Burhenne, J. and Bell, E. and Shaikhkarami, M. and Würth, R. and Stainczyk, S.A. and Wecht, E.M. and Kreth, J. and Büttner, M. and Ishaque, N. and Schlesner, M. and Nicke, B. and Stresemann, C. and Llamazares-Prada, M. and Reiling, J.H. and Fischer, M. and Amit, I. and Selbach, M. and Herrmann, C. and Wölfl, S. and Henrich, K.O. and Höfer, T. and Trumpp, A. and Westermann, F.
Nature Cancer 3 (4): 471-485. 28 April 2022

Protection of nascent DNA at stalled replication forks is mediated by phosphorylation of RIF1 intrinsically disordered region.
Balasubramanian, S. and Andreani, M. and Goncalves Andrade, J. and Saha, T. and Sundaravinayagam, D. and Garzón, J. and Zhang, W. and Popp, O. and Hiraga, S. and Rahjouei, A. and Rosen, D.B. and Mertins, P. and Chait, B.T. and Donaldson, A.D. and Di Virgilio, M.
eLife 11 : e75047. 13 April 2022

The arginine methyltransferase PRMT7 promotes extravasation of monocytes resulting in tissue injury in COPD.
Günes Günsel, G. and Conlon, T.M. and Jeridi, A. and Kim, R. and Ertüz, Z. and Lang, N.J. and Ansari, M. and Novikova, M. and Jiang, D. and Strunz, M. and Gaianova, M. and Hollauer, C. and Gabriel, C. and Angelidis, I. and Doll, S. and Pestoni, J.C. and Edelmann, S.L. and Kohlhepp, M.S. and Guillot, A. and Bassler, K. and Van Eeckhoutte, H.P. and Kayalar, Ö. and Konyalilar, N. and Kanashova, T. and Rodius, S. and Ballester-López, C. and Genes Robles, C.M. and Smirnova, N. and Rehberg, M. and Agarwal, C. and Krikki, I. and Piavaux, B. and Verleden, S.E. and Vanaudenaerde, B. and Königshoff, M. and Dittmar, G. and Bracke, K.R. and Schultze, J.L. and Watz, H. and Eickelberg, O. and Stoeger, T. and Burgstaller, G. and Tacke, F. and Heissmeyer, V. and Rinkevich, Y. and Bayram, H. and Schiller, H.B. and Conrad, M. and Schneider, R. and Yildirim, A.Ö.
Nature Communications 13 (1): 1303. 14 March 2022

Protective immune trajectories in early viral containment of non-pneumonic SARS-CoV-2 infection.
Pekayvaz, K. and Leunig, A. and Kaiser, R. and Joppich, M. and Brambs, S. and Janjic, A. and Popp, O. and Nixdorf, D. and Fumagalli, V. and Schmidt, N. and Polewka, V. and Anjum, A. and Knottenberg, V. and Eivers, L. and Wange, L.E. and Gold, C. and Kirchner, M. and Muenchhoff, M. and Hellmuth, J.C. and Scherer, C. and Rubio-Acero, R. and Eser, T. and Deák, F. and Puchinger, K. and Kuhl, N. and Linder, A. and Saar, K. and Tomas, L. and Schulz, C. and Wieser, A. and Enard, W. and Kroidl, I. and Geldmacher, C. and von Bergwelt-Baildon, M. and Keppler, O.T. and Munschauer, M. and Iannacone, M. and Zimmer, R. and Mertins, P. and Hubner, N. and Hoelscher, M. and Massberg, S. and Stark, K. and Nicolai, L.
Nature Communications 13 (1): 1018. 23 February 2022

Proteomic profiling reveals CDK6 upregulation as a targetable resistance mechanism for lenalidomide in multiple myeloma.
Ng, Y.L.D. and Ramberger, E. and Bohl, S.R. and Dolnik, A. and Steinebach, C. and Conrad, T. and Müller, S. and Popp, O. and Kull, M. and Haji, M. and Gütschow, M. and Döhner, H. and Walther, W. and Keller, U. and Bullinger, L. and Mertins, P. and Krönke, J.
Nature Communications 13 (1): 1009. 23 February 2022

Effect of atmospheric aging on soot particle toxicity in lung cell models at the air-liquid interface: differential toxicological impacts of biogenic and anthropogenic secondary organic aerosols (SOAs).
Offer, S. and Hartner, E. and Di Bucchianico, S. and Bisig, C. and Bauer, S. and Pantzke, J. and Zimmermann, E.J. and Cao, X. and Binder, S. and Kuhn, E. and Huber, A. and Jeong, S. and Käfer, U. and Martens, P. and Mesceriakovas, A. and Bendl, J. and Brejcha, R. and Buchholz, A. and Gat, D. and Hohaus, T. and Rastak, N. and Jakobi, G. and Kalberer, M. and Kanashova, T. and Hu, Y. and Ogris, C. and Marsico, A. and Theis, F. and Pardo, M. and Gröger, T. and Oeder, S. and Orasche, J. and Paul, A. and Ziehm, T. and Zhang, Z.H. and Adam, T. and Sippula, O. and Sklorz, M. and Schnelle-Kreis, J. and Czech, H. and Kiendler-Scharr, A. and Rudich, Y. and Zimmermann, R.
Environmental Health Perspectives 130 (2): 27003. 3 February 2022

Uncoupling the excitatory amino acid transporter 2 from its C-terminal interactome restores synaptic glutamate clearance at corticostriatal synapses and alleviates mutant huntingtin-induced hypokinesia.
Hirschberg, S. and Dvorzhak, A. and Rasooli-Nejad, S.M.A. and Angelov, S. and Kirchner, M. and Mertins, P. and Lättig-Tünnemann, G. and Harms, C. and Schmitz, D. and Grantyn, R.
Frontiers in Cellular Neuroscience 15 : 792652. 31 January 2022

Paracrine interleukin 6 induces cerebral remodeling at early stages after unilateral common carotid artery occlusion in mice.
Kuffner, M.T.C. and Koch, S.P and Kirchner, M. and Mueller, S. and Lips, J. and An, J. and Mertins, P. and Dirnagl, U. and Endres, M. and Boehm-Sturm, P. and Harms, C. and Hoffmann, C.J.
Frontiers in Cardiovascular Medicine 8 : 805095. 27 January 2022

CARDIOKIN1: computational assessment of myocardial metabolic capability in healthy controls and patients with valve diseases.
Berndt, N. and Eckstein, J. and Wallach, I. and Nordmeyer, S. and Kelm, M. and Kirchner, M. and Goubergrits, L. and Schafstedde, M. and Hennemuth, A. and Kraus, M. and Grune, T. and Mertins, P. and Kuehne, T. and Holzhütter, H.G.
Circulation 144 (24): 1926-1939. 14 December 2021

Multiomic characterization of oncogenic signaling mediated by wild-type and mutant RIT1.
Lo, A. and Holmes, K. and Kamlapurkar, S. and Mundt, F. and Moorthi, S. and Fung, I. and Fereshetian, S. and Watson, J. and Carr, S.A. and Mertins, P. and Berger, A.H.
Science Signaling 14 (711): eabc4520. 30 November 2021

GAS1 is required for Notch-dependent facilitation of SHH signaling in the ventral forebrain neuroepithelium.
Marczenke, M. and Sunaga, D. and Popp, O. and Althaus, I.W. and Sauer, S. and Mertins, P. and Christ, A. and Allen, B.L. and Willnow, T.E.
Development 148 (21): dev200080. 11 November 2021

Self-sustaining interleukin-8 loops drive a prothrombotic neutrophil phenotype in severe COVID-19.
Kaiser, R. and Leunig, A. and Pekayvaz, K. and Popp, O. and Joppich, M. and Polewka, V. and Escaig, R. and Anjum, A. and Hoffknecht, M.L. and Gold, C. and Brambs, S. and Engel, A. and Stockhausen, S. and Knottenberg, V. and Titova, A. and Haji, M. and Scherer, C. and Muenchhoff, M. and Hellmuth, J.C. and Saar, K. and Schubert, B. and Hilgendorff, A. and Schulz, C. and Kääb, S. and Zimmer, R. and Hübner, N. and Massberg, S. and Mertins, P. and Nicolai, L. and Stark, K.
JCI Insight 6 (18): e150862. 22 September 2021

The newly identified MEK1 tyrosine phosphorylation target MACC1 is druggable by approved MEK1 inhibitors to restrict colorectal cancer metastasis.
Kobelt, D. and Perez-Hernandez, D. and Fleuter, C. and Dahlmann, M. and Zincke, F. and Smith, J. and Migotti, R. and Popp, O. and Burock, S. and Walther, W. and Dittmar, G. and Mertins, P. and Stein, U.
Oncogene 40 (34): 5286-5301. 26 August 2021

A universal peptide matrix interactomics approach to disclose motif dependent protein binding.
Ramberger, E. and Suarez-Artiles, L. and Perez-Hernandez, D. and Haji, M. and Popp, O. and Reimer, U. and Leutz, A. and Dittmar, G. and Mertins, P.
Molecular & Cellular Proteomics 20 : 100135. 13 August 2021

Surface AMP deaminase 2 as a novel regulator modifying extracellular adenine nucleotide metabolism.
Ehlers, L. and Kuppe, A. and Damerau, A. and Wilantri, S. and Kirchner, M. and Mertins, P. and Strehl, C. and Buttgereit, F. and Gaber, T.
FASEB Journal 35 (7): e21684. July 2021

PRISMA and BioID disclose a motifs-based interactome of the intrinsically disordered transcription factor C/EBPα.
Ramberger, E. and Sapozhnikova, V. and Kowenz-Leutz, E. and Zimmermann, K. and Nicot, N. and Nazarov, P.V. and Perez-Hernandez, D. and Reimer, U. and Mertins, P. and Dittmar, G. and Leutz, A.
iScience 24 (6): 102686. 25 June 2021

Comprehensive micro-scaled proteome and phosphoproteome characterization of archived retrospective cancer repositories.
Friedrich, C. and Schallenberg, S. and Kirchner, M. and Ziehm, M. and Niquet, S. and Haji, M. and Beier, C. and Neudecker, J. and Klauschen, F. and Mertins, P.
Nature Communications 12 (1): 3576. 11 June 2021

YAP and β-catenin cooperate to drive oncogenesis in basal breast cancer.
Quinn, H.M. and Vogel, R. and Popp, O. and Mertins, P. and Lan, L. and Messerschmidt, C. and Landshammer, A. and Lisek, K. and Château-Joubert, S. and Marangoni, E. and Koren, E. and Fuchs, Y. and Birchmeier, W.
Cancer Research 81 (8): 2116-2127. April 2021

Alternative lengthening of telomeres in childhood neuroblastoma from genome to proteome.
Hartlieb, S.A. and Sieverling, L. and Nadler-Holly, M. and Ziehm, M. and Toprak, U.H. and Herrmann, C. and Ishaque, N. and Okonechnikov, K. and Gartlgruber, M. and Park, Y.G. and Wecht, E.M. and Savelyeva, L. and Henrich, K.O. and Rosswog, C. and Fischer, M. and Hero, B. and Jones, D.T.W. and Pfaff, E. and Witt, O. and Pfister, S.M. and Volckmann, Ri. and Koster, J. and Kiesel, K. and Rippe, K. and Taschner-Mandl, S. and Ambros, P. and Brors, B. and Selbach, M. and Feuerbach, L. and Westermann, F.
Nature Communications 12 (1): 1269. 24 February 2021

Patient-derived xenograft (PDX) models of colorectal carcinoma (CRC) as a platform for chemosensitivity and biomarker analysis in personalized medicine.
Rivera, M. and Fichtner, I. and Wulf-Goldenberg, A. and Sers, C. and Merk, J. and Patone, G. and Alp, K.M. and Kanashova, T. and Mertins, P. and Hoffmann, J. and Stein, U. and Walther, W.
Neoplasia 23 (1): 21-35. January 2021

USP15 deubiquitinase safeguards hematopoiesis and genome integrity in hematopoietic stem cells and leukemia cells.
van den Berk, P. and Lancini, C. and Company, C. and Serresi, M. and Sanchez-Bailon, M.P. and Hulsman, D. and Pritchard, C. and Song, J.Y. and Schmitt, M.J. and Tanger, E. and Popp, O. and Mertins, P. and Huijbers, I.J. and Jacobs, H. and van Lohuizen, M. and Gargiulo, G. and Citterio, E.
Cell Reports 33 (13): 108533. 29 December 2020

B-cell-specific Myd88 L252P expression causes a premalignant gammopathy resembling IgM MGUS.
Schmidt, K. and Sack, U. and Graf, R. and Winkler, W. and Popp, O. and Mertins, P. and Sommermann, T. and Kocks, C. and Rajewsky, K.
Frontiers in Immunology 11 : 602868. 1 December 2020

Proteogenomic landscape of breast cancer tumorigenesis and targeted therapy.
Krug, K. and Jaehnig, E.J. and Satpathy, S. and Blumenberg, L. and Karpova, A. and Anurag, M. and Miles, G. and Mertins, P. and Geffen, Y. and Tang, L.C. and Heiman, D.I. and Cao, S. and Maruvka, Y.E. and Lei, J.T. and Huang, C. and Kothadia, R.B. and Colaprico, A. and Birger, C. and Wang, J. and Dou, Y. and Wen, B. and Shi, Z. and Liao, Y. and Wiznerowicz, M. and Wyczalkowski, M.A. and Chen, X.S. and Kennedy, J.J. and Paulovich, A.G. and Thiagarajan, M. and Kinsinger, C.R. and Hiltke, T. and Boja, E.S. and Mesri, M. and Robles, A.I. and Rodriguez, H. and Westbrook, T.F. and Ding, L. and Getz, G. and Clauser, K.R. and Fenyö, D. and Ruggles, K.V. and Zhang, B. and Mani, D.R and Carr, S.A. and Ellis, M.J. and Gillette, M.A.
Cell 183 (5): 1436-1456. 25 November 2020

Pairwise stimulations of pathogen-sensing pathways predict immune responses to multi-adjuvant combinations.
Pandey, S. and Gruenbaum, A. and Kanashova, T. and Mertins, P. and Cluzel, P. and Chevrier, N.
Cell Systems 11 (5): 495-508. 18 November 2020

Integrated proteomic and glycoproteomic characterization of human high-grade serous ovarian carcinoma.
Hu, Y. and Pan, J. and Shah, P. and Ao, M. and Thomas, S.N. and Liu, Y. and Chen, L. and Schnaubelt, M. and Clark, D.J. and Rodriguez, H. and Boja, E.S. and Hiltke, T. and Kinsinger, C.R. and Rodland, K.D. and Li, Q.K. and Qian, J. and Zhang, Z. and Chan, D.W. and Zhang, H.
Cell Reports 33 (3): 108276. 20 October 2020

Deconstructing sarcomeric structure-function relations in titin-BioID knock-in mice.
Rudolph, F. and Fink, C. and Hüttemeister, J. and Kirchner, M. and Radke, M.H. and Lopez Carballo, J. and Wagner, E. and Kohl, T. and Lehnart, S.E. and Mertins, P. and Gotthardt, M.
Nature Communications 11 (1): 3133. 19 June 2020

Influence of wood species on toxicity of log-wood stove combustion aerosols: a parallel animal and air-liquid interface cell exposure study on spruce and pine smoke.
Ihantola, T. and Di Bucchianico, S. and Happo, M. and Ihalainen, M. and Uski, O. and Bauer, S. and Kuuspalo, K. and Sippula, O. and Tissari, J. and Oeder, S. and Hartikainen, A. and Rönkkö, T.J. and Martikainen, M.V. and Huttunen, K. and Vartiainen, P. and Suhonen, H. and Kortelainen, M. and Lamberg, H. and Leskinen, A. and Sklorz, M. and Michalke, B. and Dilger, M. and Weiss, C. and Dittmar, G. and Beckers, J. and Irmler, M. and Buters, J. and Candeias, J. and Czech, H. and Yli-Pirilä, P. and Abbaszade, G. and Jakobi, G. and Orasche, J. and Schnelle-Kreis, J. and Kanashova, T. and Karg, E. and Streibel, T. and Passig, J. and Hakkarainen, H. and Jokiniemi, J. and Zimmermann, R. and Hirvonen, M.R. and Jalava, P.I.
Particle and Fibre Toxicology 17 (1): 27. 15 June 2020

Progression-dependent altered metabolism in osteosarcoma resulting in different nutrient source dependencies.
Fritsche-Guenther, R. and Gloaguen, Y. and Kirchner, M. and Mertins, P. and Tunn, P.U. and Kirwan, J.A.
Cancers 12 (6): 1371. 27 May 2020

The VGF-derived peptide TLQP21 impairs purinergic control of chemotaxis and phagocytosis in mouse microglia.
Elmadany, N. and de Almeida Sassi, F. and Wendt, S. and Logiacco, F. and Visser, J. and Haage, V. and Perez Hernandez, D. and Mertins, P. and Hambardzumyan, D. and Wolf, S. and Kettenmann, H. and Semtner, M.
Journal of Neuroscience 40 (17): 3320-3331. 22 April 2020

Systems analysis of RhoGEF and RhoGAP regulatory proteins reveals spatially organized RAC1 signalling from integrin adhesions.
Müller, P.M. and Rademacher, J. and Bagshaw, R.D. and Wortmann, C. and Barth, C. and van Unen, J. and Alp, K.M. and Giudice, G. and Eccles, R.L. and Heinrich, L.E. and Pascual-Vargas, P. and Sanchez-Castro, M. and Brandenburg, L. and Mbamalu, G. and Tucholska, M. and Spatt, L. and Czajkowski, M.T. and Welke, R.W. and Zhang, S. and Nguyen, V. and Rrustemi, T. and Trnka, P. and Freitag, K. and Larsen, B. and Popp, O. and Mertins, P. and Gingras, A.C. and Roth, F.P. and Colwill, K. and Bakal, C. and Pertz, O. and Pawson, T. and Petsalaki, E. and Rocks, O.
Nature Cell Biology 22 (4): 498-511. April 2020

Cyclin-dependent kinase 18 controls trafficking of aquaporin-2 and its abundance through ubiquitin ligase STUB1, which functions as an AKAP.
Dema, A. and Faust, D. and Lazarow, K. and Wippich, M. and Neuenschwander, M. and Zühlke, K. and Geelhaar, A. and Pallien, T. and Hallscheidt, E. and Eichhorst, J. and Wiesner, B. and Cernecká, H. and Popp, O. and Mertins, P. and Dittmar, G. and von Kries, J.P. and Klussmann, E.
Cells 9 (3): 673. 10 March 2020

Rapid and deep-scale ubiquitylation profiling for biology and translational research.
Udeshi, N.D. and Mani, D.C. and Satpathy, S. and Fereshetian, S. and Gasser, J.A. and Svinkina, T. and Olive, M.E. and Ebert, B.L. and Mertins, P. and Carr, S.A.
Nature Communications 11 (1): 359. 17 January 2020

Cold-induced urticarial autoinflammatory syndrome related to factor XII activation.
Scheffel, J. and Mahnke, N.A. and Hofman, Z.L.M. and Maat, S.d. and Wu, J. and Bonnekoh, H. and Pengelly, R.J. and Ennis, S. and Holloway, J.W. and Kirchner, M. and Mertins, P. and Church, M.K. and Maurer, M. and Maas, C. and Krause, K.
Nature Communications 11 (1): 179. 10 January 2020

Phosphorylation of RAB7 by TBK1/IKKε regulates innate immune signaling in triple negative breast cancer.
Ritter, J.L. and Zhu, Z. and Thai, T.C. and Mahadevan, N.R. and Mertins, P. and Knelson, E.H. and Piel, B.P. and Han, S. and Jaffe, J.D. and Carr, S.A. and Barbie, D.A. and Barbie, T.U.
Cancer Research 80 (1): 44-56. January 2020

Combined analysis of metabolomes, proteomes, and transcriptomes of hepatitis C virus-infected cells and liver to identify pathways associated with disease development.
Lupberger, J. and Croonenborghs, T. and Roca Suarez, A.A. and Van Renne, N. and Jühling, F. and Oudot, M.A. and Virzì, A. and Bandiera, S. and Jamey, C. and Meszaros, G. and Brumaru, D. and Mukherji, A. and Durand, S.C. and Heydmann, L. and Verrier, E.R. and El Saghire, H. and Hamdane, N. and Bartenschlager, R. and Fereshetian, S. and Ramberger, E. and Sinha, R. and Nabian, M. and Everaert, C. and Jovanovic, M. and Mertins, P. and Carr, S.A. and Chayama, K. and Dali-Youcef, N. and Ricci, R. and Bardeesy, N.M. and Fujiwara, N. and Gevaert, O. and Zeisel, M.B. and Hoshida, Y. and Pochet, N. and Baumert, T.F.
Gastroenterology 157 (2): 537-551. August 2019

TMT labeling for the masses: a robust and cost-efficient, in-solution labeling approach.
Zecha, J. and Satpathy, S. and Kanashova, T. and Avanessian, S.C. and Kane, M.H. and Clauser, K.R. and Mertins, P. and Carr, S.A. and Kuster, B.
Molecular & Cellular Proteomics 18 (7): 1468-1478. 1 July 2019

The translational landscape of the human heart.
van Heesch, S. and Witte, F. and Schneider-Lunitz, V. and Schulz, J.F. and Adami, E. and Faber, A. and Kirchner, M. and Maatz, H. and Blachut, S. and Sandmann, C.L. and Kanda, M. and Worth, C.L. and Schafer, S. and Calviello, L. and Merriott, R. and Patone, G. and Hummel, O. and Wyler, E. and Obermayer, B. and Mücke, M. and Lindberg, E.L. and Trnka, F. and Memczak, S. and Schilling, M. and Felkin, L.E. and Barton, P.J.R. and Quaife, N.M. and Vanezis, K. and Diecke, S. and Mukai, M. and Mah, N. and Oh, S.J. and Kurtz, A. and Schramm, C. and Schwinge, D. and Sebode, M. and Harakalova, M. and Asselbergs, F.W. and Vink, A. and de Weger, R.A. and Viswanathan, S. and Widjaja, A.A. and Gärtner-Rommel, A. and Milting, H. and Dos Remedios, C. and Knosalla, C. and Mertins, P. and Landthaler, M. and Vingron, M. and Linke, W.A. and Seidman, J.G. and Seidman, C.E. and Rajewsky, N. and Ohler, U. and Cook, S.A. and Hubner, N.
Cell 178 (1): 242-260. 27 June 2019

Proteogenomic analysis of human colon cancer reveals new therapeutic opportunities.
Vasaikar, S. and Huang, C. and Wang, X. and Petyuk, V.A. and Savage, S.R. and Wen, B. and Dou, Y. and Zhang, Y. and Shi, Z. and Arshad, O.A. and Gritsenko, M.A. and Zimmerman, L.J. and McDermott, J.E. and Clauss, T.R. and Moore, R.J. and Zhao, R. and Monroe, M.E. and Wang, Y.T. and Chambers, M.C. and Slebos, R.J.C. and Lau, K.S. and Mo, Q. and Ding, L. and Ellis, M. and Thiagarajan, M. and Kinsinger, C.R. and Rodriguez, H. and Smith, R.D. and Rodland, K.D. and Liebler, D.C. and Liu, T. and Zhang, B.
Cell 177 (4): 1035-1049. 2 May 2019

PRISMA: Protein Interaction Screen on Peptide Matrix reveals interaction footprints and modifications- dependent interactome of intrinsically disordered C/EBPb.
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 Hofstätter, M. and Muller, A. and Wolf, J. and Reimer, U. and Leutz, A.
iScience 13 : 351-370. 29 March 2019

SorCS2 controls functional expression of amino acid transporter EAAT3 and protects neurons from oxidative stress and epilepsy-induced pathology.
Malik, A.R. and Szydlowska, K. and Nizinska, K. and Asaro, A. and van Vliet, E.A. and Popp, O. and Dittmar, G. and Fritsche-Guenther, R. and Kirwan, J.A. and Nykjaer, A. and Lukasiuk, K. and Aronica, E. and Willnow, T.E.
Cell Reports 26 (10): 2792-2804. 5 March 2019

A curated resource for phosphosite-specific signature analysis.
Krug, K. and Mertins, P. and Zhang, B. and Hornbeck, P. and Raju, R. and Ahmad, R. and Szucs, M. and Mundt, F. and Forestier, D. and Jane-Valbuena, J. and Keshishian, H. and Gillette, M.A. and Tamayo, P. and Mesirov, J.P. and Jaffe, J.D. and Carr, S.A. and Mani, D.R.
Molecular & Cellular Proteomics 18 (3): 576-593. 1 March 2019

Collagen I-based scaffolds negatively impact fracture healing in a mouse-osteotomy-model although used routinely in research and clinical application.
Lang, A. and Kirchner, M. and Stefanowski, J. and Durst, M. and Weber, M.C. and Pfeiffenberger, M. and Damerau, A. and Hauser, A.E. and Hoff, P. and Duda, G.N. and Buttgereit, F. and Schmidt-Bleek, K. and Gaber, T.
Acta Biomaterialia 86 : 171-184. 1 March 2019

Unique properties of PTEN-L contribute to neuroprotection in response to ischemic-like stress.
Jochner, M.C.E. and An, J. and Lättig-Tünnemann, G. and Kirchner, M. and Dagane, A. and Dittmar, G. and Dirnagl, U. and Eickholt, B.J. and Harms, C.
Scientific Reports 9 (1): 3183. 28 February 2019

Comprehensive gene expression meta-analysis identifies signature genes that distinguish microglia from peripheral monocytes/macrophages in health and glioma.
Haage, V. and Semtner, M. and Oliveira Vidal, R. and Perez Hernandez, D. and Pong, W.W. and Chen, Z. and Hambardzumyan, D. and Magrini, V. and Ly, A. and Walker, J. and Mardis, E. and Mertins, P. and Sauer, S. and Kettenmann, H. and Gutmann, D.H.
Acta Neuropathologica Communications 7 (1): 20. 14 February 2019

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 73 (1): 36-47. 3 January 2019

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 211 (1): 121-139. 1 January 2019

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 37 (24): e98658. 14 December 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

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

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

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

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

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

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

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

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

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

Receptor tyrosine kinase activation of RhoA is mediated by AKT phosphorylation of DLC1.
Tripathi, B.K. and Grant, T. and Qian, X. and Zhou, M. and Mertins, P. and Wang, D. and Papageorge, A.G. and Tarasov, S.G. and Hunter, K.W. and Carr, S.A. and Lowy, D.R.
Journal of Cell Biology 216 (12): 4255. 4 December 2017

An integrative framework reveals signaling-to-transcription events in toll-like receptor signaling.
Mertins, P. and Przybylski, D. and Yosef, N. and Qiao, J. and Clauser, K. and Raychowdhury, R. and Eisenhaure, T.M. and Maritzen, T. and Haucke, V. and Satoh, T. and Akira, S. and Carr, S.A. and Regev, A. and Hacohen, N. and Chevrier, N.
Cell Reports 19 (13): 2853-2866. 27 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

Proteogenomic integration reveals therapeutic targets in breast cancer xenografts.
Huang, K.L. and Li, S. and Mertins, P. and Cao, S. and Gunawardena, H.P. and Ruggles, K.V. and Mani, D.R. and Clauser, K.R. and Tanioka, M. and Usary, J. and Kavuri, S.M. and Xie, L. and Yoon, C. and Qiao, J.W. and Wrobel, J. and Wyczalkowski, M.A. and Erdmann-Gilmore, P. and Snider, J.E. and Hoog, J. and Singh, P. and Niu, B. and Guo, Z. and Sun, S.Q. and Sanati, S. and Kawaler, E. and Wang, X. and Scott, A. and Ye, K. and McLellan, M.D. and Wendl, M.C. and Malovannaya, A. and Held, J.M. and Gillette, M.A. and Fenyö, D. and Kinsinger, C.R. and Mesri, M. and Rodriguez, H. and Davies, S.R. and Perou, C.M. and Ma, C. and Townsend, R.R. and Chen, X. and Carr, S.A. and Ellis, M.J. and Ding, L.
Nature Communications 8 : 14864. 28 March 2017

Proteome profiling outperforms transcriptome profiling for coexpression based gene function prediction.
Wang, J. and Ma, Z. and Carr, S.A. and Mertins, P. and Zhang, H. and Zhang, Z. and Chan, D.W. and Ellis, M.J.C. and Townsend, R.R. and Smith, R.D. and McDermott, J.E. and Chen, X. and Paulovich, A.G. and Boja, E.S. and Mesri, M. and Kinsinger, C.R. and Rodriguez, H. and Rodland, K.D. and Liebler, D.C. and Zhang, B.
Molecular & Cellular Proteomics 16 (1): 121-134. 1 January 2017

Integrated proteogenomic characterization of human high-grade serous ovarian cancer.
Zhang, H. and Liu, T. and Zhang, Z. and Payne, S.H. and Zhang, B. and McDermott, J.E. and Zhou, J.Y. and Petyuk, V.A. and Chen, L. and Ray, D. and Sun, S. and Yang, F. and Chen, L. and Wang, J. and Shah, P. and Cha, S.W. and Aiyetan, P. and Woo, S. and Tian, Y. and Gritsenko, M.A. and Clauss, T.R. and Choi, C. and Monroe, M.E. and Thomas, S. and Nie, S. and Wu, C. and Moore, R.J. and Yu, K.H. and Tabb, D.L. and Fenyö, D. and Bafna, V. and Wang, Y. and Rodriguez, H. and Boja, E.S. and Hiltke, T. and Rivers, R.C. and Sokoll, L. and Zhu, H. and Shih, I.M. and Cope, L. and Pandey, A. and Zhang, B. and Snyder, M.P. and Levine, D.A. and Smith, R.D. and Chan, D.W. and Rodland, K.D.
Cell 166 (3): 755-765. 28 July 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

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

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

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

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

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

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

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

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

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

Proteogenomic characterization of human colon and rectal cancer.
Zhang, B. and Wang, J. and Wang, X. and Zhu, J. and Liu, Q. and Shi, Z. and Chambers, M.C. and Zimmerman, L.J. and Shaddox, K.F. and Kim, S. and Davies, S.R. and Wang, S. and Wang, P. and Kinsinger, C.R. and Rivers, R.C. and Rodriguez, H. and Townsend, R.R. and Ellis, M.J.C. and Carr, S.A. and Tabb, D.L. and Coffey, R.J. and Slebos, R.J.C. and Liebler, D.C.
Nature 513 (7518): 382-387. 18 September 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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

Letter

Response to: Correspondence on 'H3.3K27M mutation is not a suitable target for immunotherapy in HLA-A2+ patients with diffuse midline glioma' by Chheda et al.
Immisch, L. and Papafotiou, G. and Popp, O. and Mertins, P. and Blankenstein, T. and Willimsky, G.
Journal for ImmunoTherapy of Cancer 11 (3): e006784. 14 March 2023

Peritoneal metastasis of colorectal cancer (pmCRC): identification of predictive molecular signatures by a novel preclinical platform of matching pmCRC PDX/PD3D models.
Dahlmann, M. and Gambara, G. and Brzezicha, B. and Popp, O. and Pachmayr, E. and Wedeken, L. and Pflaume, A. and Mokritzkij, M. and Gül-Klein, S. and Brandl, A. and Schweiger-Eisbacher, C. and Mertins, P. and Hoffmann, J. and Keilholz, U. and Walther, W. and Regenbrecht, C. and Rau, B. and Stein, U.
Molecular Cancer 20 (1): 129. 21 October 2021

Proteomic analysis reveals upregulation of ACE2, the putative SARS-CoV-2 receptor in pressure- but not volume-overloaded human hearts.
Stegbauer, J. and Kraus, M. and Nordmeyer, S. and Kirchner, M. and Ziehm, M. and Dommisch, H. and Kelle, S. and Kelm, M. and Baczko, I. and Landmesser, U. and Tschope, C. and Knosalla, C. and Falcke, M. and Schapranow, M.P. and Regitz-Zagrosek, V. and Mertins, P. and Kuehne, T.
Hypertension 76 (6): e41-e43. December 2020

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

Preprint

Prdm16 mutation determines sex-specific cardiac metabolism and identifies two novel cardiac metabolic regulators.
Kühnisch, J. and Theisen, S. and Dartsch, J. and Fritsche-Guenther, R. and Kirchner, M. and Obermayer, B. and Bauer, A. and Kahlert, A.K. and Rothe, M. and Beule, D. and Heuser, A. and Mertins, P. and Kirwan, J.A. and Berndt, N. and MacRae, C.A. and Hubner, N. and Klaassen, S.
bioRxiv : 2023.01.10.523243. 10 January 2023

Replicative aging impedes stress-induced assembly of a key human protein disaggregase.
Mathangasinghe, Y. and Alberts, N. and Rosado, C.J. and Cox, D. and Payne, N.L. and Ormsby, A.R. and Alp, K.M. and Sakson, R. and Uthishtran, S. and Ruppert, T. and Arumugam, S. and Hatters, D.M. and Kampinga, H.H. and Nillegoda, N.B.
bioRxiv : 2022.06.25.497591. 8 January 2023

Expression of a modified astrocytic glutamate transporter alleviates Huntington’s hypokinesia, promotes synaptic glutamate clearance and counteracts potentially adverse EAAT2 interactions.
Hirschberg, S. and Dvorzhak, A. and Rasooli-Nejad, S.M.A. and Angelov, S. and Kirchner, M. and Mertins, P. and Lättig-Tünnemann, G. and Harms, C. and Schmitz, D. and Grantyn, R.
bioRxiv : 2020.09.17.302158. 26 March 2021

SUMOylation of the chromodomain factor MRG-1 in C. elegans affects chromatin-regulatory dynamics.
Baytek, G. and Blume, A. and Gerceker Demirel, F. and Bulut, S. and Mertins, P. and Tursun, B.
bioRxiv : 2021.02.14.431134. 14 February 2021

Protective immune trajectories in early viral containment of non-pneumonic SARS-CoV-2 infection.
Pekayvaz, K. and Leunig, A. and Kaiser, R. and Brambs, S. and Joppich, M. and Janjic, A. and Popp, O. and Polewka, V. and Wange, L.E. and Gold, C. and Kirchner, M. and Muenchhoff, M. and Hellmuth, J.C. and Scherer, C. and Eser, T. and Deák, F. and Kuhl, N. and Linder, A. and Saar, K. and Tomas, L. and Schulz, C. and Enard, W. and Kroidl, I. and Geldmacher, C. and von Bergwelt-Baildon, M. and Keppler, O.T. and Zimmer, R. and Mertins, P. and Hubner, N. and Hölscher, M. and Massberg, S. and Stark, K. and Nicolai, L.
bioRxiv : 2021.02.03.429351. 3 February 2021

A comprehensive motifs-based interactome of the C/EBPα transcription factor.
Ramberger, E. and Sapozhnikova, V. and Kowenz-Leutz, E. and Zimmermann, K. and Nicot, N. and Nazarov, P.V. and Perez-Hernandez, D. and Reimer, U. and Mertins, P. and Dittmar, G. and Leutz, A.
bioRxiv : 2020.12.28.424569. 28 December 2020

Targeted proteomics reveals quantitative differences in low abundance glycosyltransferases of patients with congenital disorders of glycosylation.
Sakson, R. and Beedgen, L. and Bernhard, P. and Alp, K.M. and Lübbehusen, N. and Röth, R. and Niesler, B. and Mayer, M.P. and Thiel, C. and Ruppert, T.
bioRxiv : 2020.09.15.291732. 16 September 2020

Pairwise interactions in adjuvant combinations dictate immune responses and inform cancer immunotherapy design.
Pandey, S. and Gruenbaum, A. and Kanashova, T. and Mertins, P. and Cluzel, P. and Chevrier, N.
bioRxiv : 2020.07.11.198879. 12 July 2020

YAP and β-catenin co-operate to drive oncogenesis in basal breast cancer.
Quinn, H. and Koren, E. and Vogel, R. and Popp, O. and Mertins, P. and Messerschmidt, C. and Marangoni, E. and Fuchs, Y. and Birchmeier, W.
bioRxiv : 2020.06.05.115881. 6 June 2020

Mapping the unique and shared functions of oncogenic KRAS and RIT1 with proteome and transcriptome profiling.
Lo, A. and Holmes, K. and Mundt, F. and Moorthi, S. and Fung, I. and Fereshetian, S. and Watson, J. and Carr, S.A. and Mertins, P. and Berger, A.H.
bioRxiv : 2020.04.10.030460. 11 April 2020

Exploiting a PAX3-FOXO1-induced synthetic lethal ATR dependency for rhabdomyosarcoma therapy.
García, H.D. and Bei, Y. and von Stebut, J. and Ibáñez, G. and Imami, K. and Gürgen, D. and Rolff, J. and Helmsauer, K. and Timme, N. and Bardinet, V. and Chamorro González, R. and MacArthur, I.C. and Pusch, F.F. and Chen, C.Y. and Schulz, J. and Wengner, A.M. and Furth, C. and Lala, B. and Eggert, A. and Seifert, G. and Hundsoerfer, P. and Kirchner, M. and Mertins, P. and Selbach, M. and Lissat, A. and Schulte, J.H. and Haase, K. and Scheer, M. and Ortiz, M.V. and Henssen, A.G.
bioRxiv : 2020.12.04.411413. 2020

UbiFast, a rapid and deep-scale ubiquitylation profiling approach for biology and translational research.
Udeshi, N.D. and Mani, D.C. and Satpathy, S. and Fereshetian, S. and Gasser, J.A. and Svinkina, T. and Ebert, B.L. and Mertins, P. and Carr, S.A.
bioRxiv : 785378. 27 September 2019

Endothelial PKA targets ATG16L1 to regulate angiogenesis by limiting autophagy.
Zhao, X. and Nedvetsky, P. and Vion, A.C. and Popp, O. and Zühlke, K. and Dittmar, G. and Klussmann, E. and Gerhardt, H.
bioRxiv : 573683. 12 March 2019

SorCS2 controls functional expression of amino acid transporter EAAT3 to protect neurons from oxidative stress and epilepsy-induced pathology.
Malik, A.R. and Szydlowska, K. and Nizinska, K. and Asaro, A. and van Vliet, E.A. and Popp, O. and Dittmar, G. and Nykjaer, A. and Lukasiuk, K. and Aronica, E. and Willnow, T.E.
bioRxiv : 426734. 25 September 2018

Spatial organization of Rho GTPase signaling by RhoGEF/RhoGAP proteins.
Müller, P.M. and Rademacher, J. and Bagshaw, R.D. and Alp, K.M. and Giudice, G. and Heinrich, L.E. and Barth, C. and Eccles, R.L. and Sanchez-Castro, M. and Brandenburg, L. and Mbamalu, G. and Tucholska, M. and Spatt, L. and Wortmann, C. and Czajkowski, M.T. and Welke, R.W. and Zhang, S. and Nguyen, V. and Rrustemi, T. and Trnka, P. and Freitag, K. and Larsen, B. and Popp, O. and Mertins, P. and Bakal, C. and Gingras, A.C. and Pertz, O. and Roth, F.P. and Colwill, K. and Pawson, T. and Petsalaki, E. and Rocks, O.
bioRxiv : 354316. 29 August 2018

An eicosanoid protects from statin-induced myopathic changes in primary human cells.
Grunwald, S.A. 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

Picky: a simple method designer for targeted proteomics.
Zauber, H. and Kirchner, M. and Selbach, M.
bioRxiv : 163154. 6 October 2017