Browse by Research Team

2024

A point-of-research decision in synovial tissue engineering: Mesenchymal stromal cells, tissue derived fibroblast or CTGF-mediated mesenchymal-to-fibroblast transition.
Damerau, A., Kirchner, M., Mertins, P., Buttgereit, F. and Gaber, T.
European Journal of Cell Biology 103 (4): 151455. December 2024

Systemic effects of cystic fibrosis transmembrane conductance regulator (CFTR) modulators on the blood proteome.
Fentker, K., Kirchner, M., Ziehm, M., Niquet, S., Popp, O., Duerr, J., Schaupp, L., Roehmel, J., Thee, S., Haemmerling, S., Sommerburg, O., Stahl, M., Graeber, S.Y., Mall, M.A. and Mertins, P.
bioRxiv : 2024.10.18.619058. 18 October 2024

Cytokine-armed vaccinia virus promotes cytotoxicity toward pancreatic carcinoma cells via activation of human intermediary CD56(dim)CD16(dim) natural killer cells.
Wang, R., Hu, M., Lozzi, I., Jin, C.Z.J., Ma, D., Splith, K., Mengwasser, J., Wolf, V., Feldbrügge, L., Tang, P., Timmermann, L., Hillebrandt, K.H., Kirchner, M., Mertins, P., Hilfenhaus, G., Neumann, C.C.M., Kammertoens, T., Pratschke, J., Malinka, T., Sauer, I.M., Noessner, E., Guo, Z.S. and Felsenstein, M.
International Journal of Cancer 14 October 2024 (In Press)

TENM4 is an essential transduction component for touch and pain.
Khallaf, M.A., Huang, A.T.L., Dalmasso, L., Chakrabarti, S., Groeneveld, R., Sierra, Y.A.B., Garcia-Contreras, J.A., Schutz, A., Bégay, V., Hedtrich, S., Zhong, W., Popp, O., Mertins, P. and Lewin, G.R.
bioRxiv : 2024.10.10.617546. 12 October 2024

Quantitative modeling of signaling in aggressive B cell lymphoma unveils conserved core network.
Klinger, B., Rausch, I., Siebert, A., Kutz, H., Kruse, V., Kirchner, M., Mertins, P., Kieser, A., Blüthgen, N. and Kube, D.
PLoS Computational Biology 20 (10): e1012488. 1 October 2024

Combining Data Independent Acquisition with spike-in SILAC (DIA-SiS) improves proteome coverage and quantification.
Welter, A.S., Gerwien, M., Kerridge, R., Alp, K.M., Mertins, P. and Selbach, M.
Molecular & Cellular Proteomics 23 (10): 100839. October 2024

Autophagy acts as a brake on obesity-related fibrosis by controlling purine nucleoside signalling.
Piletic, K., Kayvanjoo, A.H., Richter, F.C., Borsa, M., Lechuga-Vieco, A.V., Popp, O., Grenet, S., Ko, J.K.L., Zec, K., Kyriazi, M., Koneva, L., Sansom, S., Mertins, P., Powrie, F., Alsaleh, G. and Simon, A.K.
bioRxiv : 2024.09.17.613382. 17 September 2024

Antibodies and complement are key drivers of thrombosis.
Stark, K., Kilani, B., Stockhausen, S., Busse, J., Schubert, I., Tran, T.D., Gaertner, F., Leunig, A., Pekayvaz, K., Nicolai, L., Fumagalli, V., Stermann, J., Stephan, F., David, C., Müller, M.B., Heyman, B., Lux, A., da Palma Guerreiro, A., Frenzel, L.P., Schmidt, C.Q., Dopler, A., Moser, M., Chandraratne, Sue, von Brühl, M.L., Lorenz, M., Korff, T., Rudelius, M., Popp, O., Kirchner, M., Mertins, P., Nimmerjahn, F., Iannacone, M., Sperandio, M., Engelmann, B., Verschoor, A. and Massberg, S.
Immunity 57 (9): 2140-2156.e10. 10 September 2024

High serum prevalence of autoreactive IgG antibodies against peripheral nerve structures in patients with neurological post-COVID-19 vaccination syndrome.
Arlt, F.A., Breuer, A., Trampenau, E., Boesl, F., Kirchner, M., Mertins, P., Sánchez-Sendín, E., Nasouti, M., Mayrhofer, M., Blüthner, M., Endres, M., Prüss, H. and Franke, C.
Frontiers in Immunology 15 : 1404800. 2 August 2024

Immunosuppression with cyclosporine versus tacrolimus shows distinctive nephrotoxicity profiles within renal compartments.
Demirci, H., Popovic, S., Dittmayer, C., Yilmaz, D.E., El-Shimy, I.A., Mülleder, M., Hinze, C., Su, M., Mertins, P., Kirchner, M., Osmanodja, B., Paliege, A., Budde, K., Amann, K., Persson, P.B., Mutig, K. and Bachmann, S.
Acta Physiologica 240 (8): e14190. August 2024

K48- and K63-linked ubiquitin chain interactome reveals branch- and length-specific ubiquitin interactors.
Waltho, A., Popp, O., Lenz, C., Pluska, L., Lambert, M., Dötsch, V., Mertins, P. and Sommer, T.
Life Science Alliance 7 (8): e202402740. August 2024

The proteogenomic landscape of multiple myeloma reveals insights into disease biology and therapeutic opportunities.
Ramberger, E., Sapozhnikova, V., Ng, Y.L.D., Dolnik, A., Ziehm, M., Popp, O., Sträng, E., Kull, M., Grünschläger, F., Krüger, J., Benary, M., Müller, S., Gao, X., Murgai, A., Haji, M., Schmidt, A., Lutz, R., Nogai, A., Braune, J., Laue, D., Langer, C., Khandanpour, C., Bassermann, F., Döhner, H., Engelhardt, M., Straka, C., Hundemer, M., Beule, D., Haas, S., Keller, U., Einsele, H., Bullinger, L., Knop, S., Mertins, P. and Krönke, J.
Nature Cancer 5 (8): 1267-1284. August 2024

Comprehensive characterization of the viscoelastic properties of bovine submaxillary mucin (BSM) hydrogels and the effect of additives.
Rulff, H., Schmidt, R.F., Wei, L.F., Fentker, K., Kerkhoff, Y., Mertins, P., Mall, M.A., Lauster, D. and Gradzielski, M.
Biomacromolecules 25 (7): 4014-4029. 8 July 2024

Microglial sex differences in innate high anxiety and modulatory effects of minocycline.
Ugursu, B., Sah, A., Sartori, S., Popp, O., Mertins, P., Dunay, I.R., Kettenmann, H., Singewald, N. and Wolf, S.A.
Brain Behavior and Immunity 119 : 465-481. July 2024

Multiomic analyses uncover immunological signatures in acute and chronic coronary syndromes.
Pekayvaz, K., Losert, C., Knottenberg, V., Gold, C., van Blokland, I.V., Oelen, R., Groot, H.E., Benjamins, J.W., Brambs, S., Kaiser, R., Gottschlich, A., Hoffmann, G.V., Eivers, L., Martinez-Navarro, A., Bruns, N., Stiller, S., Akgöl, S., Yue, K., Polewka, V., Escaig, R., Joppich, M., Janjic, A., Popp, O., Kobold, S., Petzold, T., Zimmer, R., Enard, W., Saar, K., Mertins, P., Huebner, N., van der Harst, P., Franke, L.H., van der Wijst, M.G.P., Massberg, S., Heinig, M., Nicolai, L. and Stark, K.
Nature Medicine 30 (6): 1696-1710. June 2024

Ion mobility-tandem mass spectrometry of mucin-type O-glycans.
Bechtella, L., Chunsheng, J., Fentker, K., Ertürk, G.R., Safferthal, M., Polewski, Ł., Götze, M., Graeber, S.Y., Vos, G.M., Struwe, W.B., Mall, M.A., Mertins, P., 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., Gold, C., Joppich, M., Loew, Q., Akhalkatsi, A., Mueller, T.T., Offensperger, F., Droste Zu Senden, A., Popp, O., di Fina, L., Knottenberg, V., Martinez-Navarro, A., Eivers, L., Anjum, A., Escaig, R., Bruns, N., Briem, E., Dewender, R., Muraly, A., Akgöl, S., Ferraro, B., Hoeflinger, J.K.L., Polewka, V., Khaled, N.B., Allgeier, J., Tiedt, S., Dichgans, M., Engelmann, B., Enard, W., Mertins, P., Hubner, N., Weckbach, L., Zimmer, R., Massberg, S., Stark, K., 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., Popp, O., Kunz, S., Sporbert, A., Jung, S., Penning, L.C., Fendler, A., Mertins, P. and Birchmeier, W.
PLoS ONE 19 (3): e0282938. 21 March 2024

Passenger gene coamplifications create collateral therapeutic vulnerabilities in cancer.
Bei, Y., Brame, Luca, Kirchner, M., Fritsche-Guenther, R., Kunz, S., Bhattacharya, A., Rusu, M.C., Gürgen, D., Dubois, F.P.B., Köppke, J.K.C., Proba, J., Wittstruck, N., Sidorova, O.A., Chamorro González, R., Dorado Garcia, H., Brückner, L., Xu, R., Giurgiu, M., Rodriguez-Fos, E., Yu, Q., Spanjaard, B., Koche, R.P., Schmitt, C.A., Schulte, J.H., Eggert, A., Haase, K., Kirwan, J., Hagemann, A.I., Mertins, P., 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., Kropp, K.A., Kirchner, M., Plückebaum, N., Selich, A., Serrero, M., Dhingra, A., Cabrera, J.R., Ritter, B., Bauerfeind, R., Wyler, E., Landthaler, M., Schambach, A., Sodeik, B., 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., Beedgen, L., Bernhard, P., Alp, K.M., Lübbehusen, N., Röth, R., Niesler, B., Luzarowski, M., Shevchuk, O., Mayer, M.P., 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., Zhang, H., Schmitt, S., Rausch, C., Popp, O., Chen, J., Cmarko, D., Butter, F., Dittmar, G., 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., Dernbach, G., Dragomir, M.P., Schlachtenberger, G., Boschung, K., Friedrich, C., Standvoss, K., Ruff, L., Anders, P., Grohé, C., Randerath, W., Merkelbach-Bruse, S., Quaas, A., Heldwein, M., Keilholz, U., Hekmat, J.K., Rückert, C., Büttner, R., Horst, D., Klauschen, F. and Frost, N.
European Journal of Cancer 197 : 113474. January 2024

2023

Direct-to-biology, automated, nano-scale synthesis, and phenotypic screening-enabled E3 ligase modulator discovery.
Wang, Z., Shaabani, S., Gao, X., Ng, Y.L.D., Sapozhnikova, V., Mertins, P., 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., Suarez-Artiles, L., 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., Theisen, S., Dartsch, J., Fritsche-Guenther, R., Kirchner, M., Obermayer, B., Bauer, A., Kahlert, A.K., Rothe, M., Beule, D., Heuser, A., Mertins, P., Kirwan, J.A., Berndt, N., MacRae, C.A., 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., Bricelj, A., Murgai, A., Sosič, I., Bischof, L., Ng, Y.L.D., Heim, C., Maiwald, S., Proj, M., Voget, R., Feller, F., Košmrlj, J., Sapozhnikova, V., Schmidt, A., Zuleeg, M.R., Lemnitzer, P., Mertins, P., Hansen, F.K., Gütschow, M., 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., Noerenberg, D., Hennch, C., Yoshida, K., Hablesreiter, R., Nimo, J., Sasca, D., Kirchner, M., Mansouri, L., Inoue, Y., Wiegand, L., Staiger, A.M., Casadei, B., Korkolopoulou, P., Weiner, J., Lopez-Guillermo, A., Warth, A., Schneider, T., Nagy, Á., Klapper, W., Hummel, M., Kanellis, G., Anagnostopoulos, I., Mertins, P., Bullinger, L., Rosenquist, R., Vassilakopoulos, T.P., Ott, G., 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., Addante, A., Völler, M., Fentker, K., Kuppe, A., Bardua, M., Duerr, J., Piehler, L., Röhmel, J., Thee, S., Kirchner, M., Ziehm, M., Lauster, D., Haag, R., Gradzielski, M., Stahl, M., Mertins, P., Boutin, S., 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., Haenig, C., Neuendorf, N., Blanc, E., Ivanov, A., Kirchner, M., Schleumann, P., Bayraktaroğlu, I., Richter, M., Molenda, C.M., Sporbert, A., Zenkner, M., Schnoegl, S., Suenkel, C., Schneider, L.S., Rybak-Wolf, A., Kochnowsky, B., Byrne, L.M., Wild, E.J., Nielsen, J.E., Dittmar, G., Peters, O., 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., Danßmann, C., Klironomos, F., Winkler, A., Fallmann, J., Kruetzfeldt, L.M., Szymansky, A., Naderi, J., Bernhart, S.H., Grunewald, L., Helmsauer, K., Rodriguez-Fos, E., Kirchner, M., Mertins, P., Astrahantseff, K., Suenkel, C., Toedling, J., Meggetto, F., Remke, M., Stadler, P.F., Hundsdoerfer, P., Deubzer, H.E., Künkele, A., Lang, P., Fuchs, J., Henssen, A.G., Eggert, A., Rajewsky, N., 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., Ugursu, B., Logiacco, F., Popp, O., Feiks, M.A., Meyer, N., Wendt, S., Semtner, M., Cherif, F., Gauthier, C., Madore, C., Yin, Z., Çınar, Ö., Arslan, T., Gerevich, Z., Mertins, P., Butovsky, O., 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., Kowenz-Leutz, E., Tian, T.V, Klonizakis, A., Lerner, J., De Andres-Aguayo, L., Sapozhnikova, V., Berenguer, C., Carmona, M.P., Casadesus, M.V., Bulteau, R., Francesconi, M., Peiro, S., Mertins, P., Zaret, K., 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., Schulz, J.F., Ruiz-Orera, J., Kirchner, M., Ziehm, M., Adami, E., Marczenke, M., Christ, A., Liebe, N., Greiner, J., Schoenenberger, A., Mücke, M.B., Liang, N., Moritz, R.L., Sun, Z., Deutsch, E.W., Gotthardt, M., Mudge, J.M., Prensner, J.R., Willnow, T.E., Mertins, P., van Heesch, S. and Hubner, N.
Molecular Cell 83 (6): 994-1011.e18. 16 March 2023

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., Papafotiou, G., Popp, O., Mertins, P., Blankenstein, T. and Willimsky, G.
Journal for ImmunoTherapy of Cancer 11 (3): e006784. 14 March 2023

Neurofibromatosis type 1-dependent alterations in mouse microglia function are not cell-intrinsic.
Logiacco, F., Grzegorzek, L.C., Cordell, E.C., Popp, O., Mertins, P., Gutmann, D.H., 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., Kraus, M., Ziehm, M., Kirchner, M., Schafstedde, M., Kelm, M., Niquet, S., Stephen, M.M., Baczko, I., Knosalla, C., Schapranow, M.P., Dittmar, G., Gotthardt, M., Falcke, M., Regitz-Zagrosek, V., 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., von Kügelgen, N., Dantsuji, S., Ron, M., Breimann, L., Baranovskii, A., Lödige, I., Kirchner, M., Fischer, M., Zerna, N., Bujanic, L., Mertins, P., 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., Baumgartner, F., Heider, M., Patra, U., Holz, M., Braune, J., Kaiser, M., Schäffer, I., Bamopoulos, S.A., Ramberger, E., Murgai, A., Ng, Y.L.D., Demel, U.M., Laue, D., Liebig, S., Krüger, J., Janz, M., Nogai, A., Schick, M., Mertins, P., Müller, S., Bassermann, F., Krönke, J., 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., Costa, A., Specker, E., Popp, O., Volkamer, A., Piske, R., Obrusnik, T., Kleissle, S., Stuke, K., Rex, A., Neuenschwander, M., von Kries, J.P., Nazare, M., Mertins, P., Kettenmann, H. and Wolf, S.A.
PLoS ONE 18 (2): e0278325. 6 February 2023

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

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

2022

Protective alpha1-antitrypsin effects in autoimmune vasculitis are compromised by methionine oxidation.
Ebert, M.J., Jerke, U., Eulenberg-Gustavus, C., Kling, L., Jenne, D.E., Kirchner, M., Mertins, P., Bieringer, M., Elitok, S., Eckardt, K.U., Schreiber, A., 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., Glöß, S., Roller, R., Leitheiser, M., Schmid, S., Mochmann, L.H., Payá Capilla, E., Fritz, R., Dittmayer, C., Friedrich, C., Thieme, A., Keyl, P., Jarosch, A., Schallenberg, S., Bläker, H., Hoffmann, I., Vollbrecht, C., Lehmann, A., Hummel, M., Heim, D., Haji, M., Harter, P., Englert, B., Frank, S., Hench, J., Paulus, W., Hasselblatt, M., Hartmann, W., Dohmen, H., Keber, U., Jank, P., Denkert, C., Stadelmann, C., Bremmer, F., Richter, A., Wefers, A., Ribbat-Idel, J., Perner, S., Idel, C., Chiariotti, L., Della Monica, R., Marinelli, A., Schüller, U., Bockmayr, M., Liu, J., Lund, V.J., Forster, M., Lechner, M., Lorenzo-Guerra, S.L., Hermsen, M., Johann, P.D., Agaimy, A., Seegerer, P., Koch, A., Heppner, F., Pfister, S.M., Jones, D.T.W., Sill, M., von Deimling, A., Snuderl, M., Müller, K.R., Forgó, E., Howitt, B.E., Mertins, P., 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., Breiderhoff, T., Girardello, R., Gonschior, H., Rodius, S., Lesur, A., Reimer, U., Ramberger, E., Perez-Hernandez, D., Müller, D., 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., Lammoglia Cobo, M.F., Stein, C.A., Hsu, M.T., Ben Hamza, A., Penter, L., Chen, X., Buccitelli, C., Popp, O., Mertins, P., Dietze, K., Bullinger, L., Moosmann, A., Blanc, E., Beule, D., Gerbitz, A., Strobel, J., Hackstein, H., Rahn, H.P., Dornmair, K., 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., Nordmeyer, J., Berger, F., Knosalla, C., Mertins, P., Regitz-Zagrosek, V., Kuehne, T., 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., Kirchner, M., Mertins, P., 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., Bagley, D.C., Hernandez, V.L., Roberts, L.B., Maguire, T.J.A., Voss, F., Mertins, P., Kirchner, M., Peset-Martin, I., Woszczek, G., Rosenblatt, J., Gotthardt, M., 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., Papafotiou, G., Popp, O., Mertins, P., 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., Grützke, J., Kirscht, F., Popp, O., Matz, J.M., Dittmar, G., Rug, M. and Ingmundson, A.
PLoS Pathogens 18 (9): e1010846. 20 September 2022

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

Therapeutic targeting of ATR in alveolar rhabdomyosarcoma.
Dorado Garcia, H., Pusch, F., Bei, Y., von Stebut, J., Ibáñez, G., Guillan, K., Imami, K., Gürgen, D., Rolff, J., Helmsauer, K., Meyer-Liesener, S., Timme, N., Bardinet, V., Chamorro González, R., MacArthur, I.C., Chen, C.Y., Schulz, J., Wengner, A.M., Furth, C., Lala, B., Eggert, A., Seifert, G., Hundsoerfer, P., Kirchner, M., Mertins, P., Selbach, M., Lissat, A., Dubois, F., Horst, D., Schulte, J.H., Spuler, S., You, D., Dela Cruz, F., Kung, A.L., Haase, K., Di Virgilio, M., Scheer, M., 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., Kirchner, M., Pfeiffenberger, M., Ehlers, L., Do Nguyen, D.H., Mertins, P., Bartek, B., Maleitzke, T., Palmowski, Y., Hardt, S., Winkler, T., 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., Blume, A., Demirel, F.G., Bulut, S., Popp, O., 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., Kirchner, M., Mertins, P., Strehl, C., 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., Popp, O., Mertins, P. and Tursun, B.
Biotechniques 72 (5): 175-184. May 2022

MYCN mediates cysteine addiction and sensitizes neuroblastoma to ferroptosis.
Alborzinia, H., Flórez, A.F., Kreth, S., Brückner, L.M., Yildiz, U., Gartlgruber, M., Odoni, D.I., Poschet, G., Garbowicz, K., Shao, C., Klein, C., Meier, J., Zeisberger, P., Nadler-Holly, M., Ziehm, M., Paul, F., Burhenne, J., Bell, E., Shaikhkarami, M., Würth, R., Stainczyk, S.A., Wecht, E.M., Kreth, J., Büttner, M., Ishaque, N., Schlesner, M., Nicke, B., Stresemann, C., Llamazares-Prada, M., Reiling, J.H., Fischer, M., Amit, I., Selbach, M., Herrmann, C., Wölfl, S., Henrich, K.O., Höfer, T., 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., Andreani, M., Goncalves Andrade, J., Saha, T., Sundaravinayagam, D., Garzón, J., Zhang, W., Popp, O., Hiraga, S., Rahjouei, A., Rosen, D.B., Mertins, P., Chait, B.T., 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., Conlon, T.M., Jeridi, A., Kim, R., Ertüz, Z., Lang, N.J., Ansari, M., Novikova, M., Jiang, D., Strunz, M., Gaianova, M., Hollauer, C., Gabriel, C., Angelidis, I., Doll, S., Pestoni, J.C., Edelmann, S.L., Kohlhepp, M.S., Guillot, A., Bassler, K., Van Eeckhoutte, H.P., Kayalar, Ö., Konyalilar, N., Kanashova, T., Rodius, S., Ballester-López, C., Genes Robles, C.M., Smirnova, N., Rehberg, M., Agarwal, C., Krikki, I., Piavaux, B., Verleden, S.E., Vanaudenaerde, B., Königshoff, M., Dittmar, G., Bracke, K.R., Schultze, J.L., Watz, H., Eickelberg, O., Stoeger, T., Burgstaller, G., Tacke, F., Heissmeyer, V., Rinkevich, Y., Bayram, H., Schiller, H.B., Conrad, M., 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., Leunig, A., Kaiser, R., Joppich, M., Brambs, S., Janjic, A., Popp, O., Nixdorf, D., Fumagalli, V., Schmidt, N., Polewka, V., Anjum, A., Knottenberg, V., Eivers, L., Wange, L.E., Gold, C., Kirchner, M., Muenchhoff, M., Hellmuth, J.C., Scherer, C., Rubio-Acero, R., Eser, T., Deák, F., Puchinger, K., Kuhl, N., Linder, A., Saar, K., Tomas, L., Schulz, C., Wieser, A., Enard, W., Kroidl, I., Geldmacher, C., von Bergwelt-Baildon, M., Keppler, O.T., Munschauer, M., Iannacone, M., Zimmer, R., Mertins, P., Hubner, N., Hoelscher, M., Massberg, S., 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., Ramberger, E., Bohl, S.R., Dolnik, A., Steinebach, C., Conrad, T., Müller, S., Popp, O., Kull, M., Haji, M., Gütschow, M., Döhner, H., Walther, W., Keller, U., Bullinger, L., 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., Hartner, E., Di Bucchianico, S., Bisig, C., Bauer, S., Pantzke, J., Zimmermann, E.J., Cao, X., Binder, S., Kuhn, E., Huber, A., Jeong, S., Käfer, U., Martens, P., Mesceriakovas, A., Bendl, J., Brejcha, R., Buchholz, A., Gat, D., Hohaus, T., Rastak, N., Jakobi, G., Kalberer, M., Kanashova, T., Hu, Y., Ogris, C., Marsico, A., Theis, F., Pardo, M., Gröger, T., Oeder, S., Orasche, J., Paul, A., Ziehm, T., Zhang, Z.H., Adam, T., Sippula, O., Sklorz, M., Schnelle-Kreis, J., Czech, H., Kiendler-Scharr, A., 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., Dvorzhak, A., Rasooli-Nejad, S.M.A., Angelov, S., Kirchner, M., Mertins, P., Lättig-Tünnemann, G., Harms, C., 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., Koch, S.P, Kirchner, M., Mueller, S., Lips, J., An, J., Mertins, P., Dirnagl, U., Endres, M., Boehm-Sturm, P., Harms, C. and Hoffmann, C.J.
Frontiers in Cardiovascular Medicine 8 : 805095. 27 January 2022

2021

CARDIOKIN1: computational assessment of myocardial metabolic capability in healthy controls and patients with valve diseases.
Berndt, N., Eckstein, J., Wallach, I., Nordmeyer, S., Kelm, M., Kirchner, M., Goubergrits, L., Schafstedde, M., Hennemuth, A., Kraus, M., Grune, T., Mertins, P., 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., Holmes, K., Kamlapurkar, S., Mundt, F., Moorthi, S., Fung, I., Fereshetian, S., Watson, J., Carr, S.A., 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., Sunaga, D., Popp, O., Althaus, I.W., Sauer, S., Mertins, P., Christ, A., Allen, B.L. and Willnow, T.E.
Development 148 (21): dev200080. 11 November 2021

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

Self-sustaining interleukin-8 loops drive a prothrombotic neutrophil phenotype in severe COVID-19.
Kaiser, R., Leunig, A., Pekayvaz, K., Popp, O., Joppich, M., Polewka, V., Escaig, R., Anjum, A., Hoffknecht, M.L., Gold, C., Brambs, S., Engel, A., Stockhausen, S., Knottenberg, V., Titova, A., Haji, M., Scherer, C., Muenchhoff, M., Hellmuth, J.C., Saar, K., Schubert, B., Hilgendorff, A., Schulz, C., Kääb, S., Zimmer, R., Hübner, N., Massberg, S., Mertins, P., 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., Perez-Hernandez, D., Fleuter, C., Dahlmann, M., Zincke, F., Smith, J., Migotti, R., Popp, O., Burock, S., Walther, W., Dittmar, G., 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., Suarez-Artiles, L., Perez-Hernandez, D., Haji, M., Popp, O., Reimer, U., Leutz, A., 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., Kuppe, A., Damerau, A., Wilantri, S., Kirchner, M., Mertins, P., Strehl, C., 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., Sapozhnikova, V., Kowenz-Leutz, E., Zimmermann, K., Nicot, N., Nazarov, P.V., Perez-Hernandez, D., Reimer, U., Mertins, P., 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., Schallenberg, S., Kirchner, M., Ziehm, M., Niquet, S., Haji, M., Beier, C., Neudecker, J., 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., Vogel, R., Popp, O., Mertins, P., Lan, L., Messerschmidt, C., Landshammer, A., Lisek, K., Château-Joubert, S., Marangoni, E., Koren, E., Fuchs, Y. and Birchmeier, W.
Cancer Research 81 (8): 2116-2127. April 2021

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

Alternative lengthening of telomeres in childhood neuroblastoma from genome to proteome.
Hartlieb, S.A., Sieverling, L., Nadler-Holly, M., Ziehm, M., Toprak, U.H., Herrmann, C., Ishaque, N., Okonechnikov, K., Gartlgruber, M., Park, Y.G., Wecht, E.M., Savelyeva, L., Henrich, K.O., Rosswog, C., Fischer, M., Hero, B., Jones, D.T.W., Pfaff, E., Witt, O., Pfister, S.M., Volckmann, Ri., Koster, J., Kiesel, K., Rippe, K., Taschner-Mandl, S., Ambros, P., Brors, B., Selbach, M., 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., Fichtner, I., Wulf-Goldenberg, A., Sers, C., Merk, J., Patone, G., Alp, K.M., Kanashova, T., Mertins, P., Hoffmann, J., Stein, U. and Walther, W.
Neoplasia 23 (1): 21-35. January 2021

2020

USP15 deubiquitinase safeguards hematopoiesis and genome integrity in hematopoietic stem cells and leukemia cells.
van den Berk, P., Lancini, C., Company, C., Serresi, M., Sanchez-Bailon, M.P., Hulsman, D., Pritchard, C., Song, J.Y., Schmitt, M.J., Tanger, E., Popp, O., Mertins, P., Huijbers, I.J., Jacobs, H., van Lohuizen, M., 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., Sack, U., Graf, R., Winkler, W., Popp, O., Mertins, P., Sommermann, T., Kocks, C. and Rajewsky, K.
Frontiers in Immunology 11 : 602868. 1 December 2020

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

Proteogenomic landscape of breast cancer tumorigenesis and targeted therapy.
Krug, K., Jaehnig, E.J., Satpathy, S., Blumenberg, L., Karpova, A., Anurag, M., Miles, G., Mertins, P., Geffen, Y., Tang, L.C., Heiman, D.I., Cao, S., Maruvka, Y.E., Lei, J.T., Huang, C., Kothadia, R.B., Colaprico, A., Birger, C., Wang, J., Dou, Y., Wen, B., Shi, Z., Liao, Y., Wiznerowicz, M., Wyczalkowski, M.A., Chen, X.S., Kennedy, J.J., Paulovich, A.G., Thiagarajan, M., Kinsinger, C.R., Hiltke, T., Boja, E.S., Mesri, M., Robles, A.I., Rodriguez, H., Westbrook, T.F., Ding, L., Getz, G., Clauser, K.R., Fenyö, D., Ruggles, K.V., Zhang, B., Mani, D.R, Carr, S.A., 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., Gruenbaum, A., Kanashova, T., Mertins, P., 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., Pan, J., Shah, P., Ao, M., Thomas, S.N., Liu, Y., Chen, L., Schnaubelt, M., Clark, D.J., Rodriguez, H., Boja, E.S., Hiltke, T., Kinsinger, C.R., Rodland, K.D., Li, Q.K., Qian, J., Zhang, Z., 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., Fink, C., Hüttemeister, J., Kirchner, M., Radke, M.H., Lopez Carballo, J., Wagner, E., Kohl, T., Lehnart, S.E., 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., Di Bucchianico, S., Happo, M., Ihalainen, M., Uski, O., Bauer, S., Kuuspalo, K., Sippula, O., Tissari, J., Oeder, S., Hartikainen, A., Rönkkö, T.J., Martikainen, M.V., Huttunen, K., Vartiainen, P., Suhonen, H., Kortelainen, M., Lamberg, H., Leskinen, A., Sklorz, M., Michalke, B., Dilger, M., Weiss, C., Dittmar, G., Beckers, J., Irmler, M., Buters, J., Candeias, J., Czech, H., Yli-Pirilä, P., Abbaszade, G., Jakobi, G., Orasche, J., Schnelle-Kreis, J., Kanashova, T., Karg, E., Streibel, T., Passig, J., Hakkarainen, H., Jokiniemi, J., Zimmermann, R., Hirvonen, M.R. and Jalava, P.I.
Particle and Fibre Toxicology 17 (1): 27. 15 June 2020

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

Progression-dependent altered metabolism in osteosarcoma resulting in different nutrient source dependencies.
Fritsche-Guenther, R., Gloaguen, Y., Kirchner, M., Mertins, P., 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., de Almeida Sassi, F., Wendt, S., Logiacco, F., Visser, J., Haage, V., Perez Hernandez, D., Mertins, P., Hambardzumyan, D., Wolf, S., Kettenmann, H. and Semtner, M.
Journal of Neuroscience 40 (17): 3320-3331. 22 April 2020

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

Systems analysis of RhoGEF and RhoGAP regulatory proteins reveals spatially organized RAC1 signalling from integrin adhesions.
Müller, P.M., Rademacher, J., Bagshaw, R.D., Wortmann, C., Barth, C., van Unen, J., Alp, K.M., Giudice, G., Eccles, R.L., Heinrich, L.E., Pascual-Vargas, P., Sanchez-Castro, M., Brandenburg, L., Mbamalu, G., Tucholska, M., Spatt, L., Czajkowski, M.T., Welke, R.W., Zhang, S., Nguyen, V., Rrustemi, T., Trnka, P., Freitag, K., Larsen, B., Popp, O., Mertins, P., Gingras, A.C., Roth, F.P., Colwill, K., Bakal, C., Pertz, O., Pawson, T., 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., Faust, D., Lazarow, K., Wippich, M., Neuenschwander, M., Zühlke, K., Geelhaar, A., Pallien, T., Hallscheidt, E., Eichhorst, J., Wiesner, B., Cernecká, H., Popp, O., Mertins, P., Dittmar, G., 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., Mani, D.C., Satpathy, S., Fereshetian, S., Gasser, J.A., Svinkina, T., Olive, M.E., Ebert, B.L., 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., Mahnke, N.A., Hofman, Z.L.M., Maat, S.d., Wu, J., Bonnekoh, H., Pengelly, R.J., Ennis, S., Holloway, J.W., Kirchner, M., Mertins, P., Church, M.K., Maurer, M., 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., Zhu, Z., Thai, T.C., Mahadevan, N.R., Mertins, P., Knelson, E.H., Piel, B.P., Han, S., Jaffe, J.D., Carr, S.A., Barbie, D.A. and Barbie, T.U.
Cancer Research 80 (1): 44-56. January 2020

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

2019

Combined analysis of metabolomes, proteomes, and transcriptomes of hepatitis C virus-infected cells and liver to identify pathways associated with disease development.
Lupberger, J., Croonenborghs, T., Roca Suarez, A.A., Van Renne, N., Jühling, F., Oudot, M.A., Virzì, A., Bandiera, S., Jamey, C., Meszaros, G., Brumaru, D., Mukherji, A., Durand, S.C., Heydmann, L., Verrier, E.R., El Saghire, H., Hamdane, N., Bartenschlager, R., Fereshetian, S., Ramberger, E., Sinha, R., Nabian, M., Everaert, C., Jovanovic, M., Mertins, P., Carr, S.A., Chayama, K., Dali-Youcef, N., Ricci, R., Bardeesy, N.M., Fujiwara, N., Gevaert, O., Zeisel, M.B., Hoshida, Y., 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., Satpathy, S., Kanashova, T., Avanessian, S.C., Kane, M.H., Clauser, K.R., Mertins, P., 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., Witte, F., Schneider-Lunitz, V., Schulz, J.F., Adami, E., Faber, A., Kirchner, M., Maatz, H., Blachut, S., Sandmann, C.L., Kanda, M., Worth, C.L., Schafer, S., Calviello, L., Merriott, R., Patone, G., Hummel, O., Wyler, E., Obermayer, B., Mücke, M., Lindberg, E.L., Trnka, F., Memczak, S., Schilling, M., Felkin, L.E., Barton, P.J.R., Quaife, N.M., Vanezis, K., Diecke, S., Mukai, M., Mah, N., Oh, S.J., Kurtz, A., Schramm, C., Schwinge, D., Sebode, M., Harakalova, M., Asselbergs, F.W., Vink, A., de Weger, R.A., Viswanathan, S., Widjaja, A.A., Gärtner-Rommel, A., Milting, H., Dos Remedios, C., Knosalla, C., Mertins, P., Landthaler, M., Vingron, M., Linke, W.A., Seidman, J.G., Seidman, C.E., Rajewsky, N., Ohler, U., 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., Huang, C., Wang, X., Petyuk, V.A., Savage, S.R., Wen, B., Dou, Y., Zhang, Y., Shi, Z., Arshad, O.A., Gritsenko, M.A., Zimmerman, L.J., McDermott, J.E., Clauss, T.R., Moore, R.J., Zhao, R., Monroe, M.E., Wang, Y.T., Chambers, M.C., Slebos, R.J.C., Lau, K.S., Mo, Q., Ding, L., Ellis, M., Thiagarajan, M., Kinsinger, C.R., Rodriguez, H., Smith, R.D., Rodland, K.D., Liebler, D.C., 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., Perez Hernandez, D., Kowenz-Leutz, E., Kirchner, M., Kahlert, G., Wesolowski, R., Baum, K., Knoblich, M., Hofstätter, M., Muller, A., Wolf, J., 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., Szydlowska, K., Nizinska, K., Asaro, A., van Vliet, E.A., Popp, O., Dittmar, G., Fritsche-Guenther, R., Kirwan, J.A., Nykjaer, A., Lukasiuk, K., 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., Mertins, P., Zhang, B., Hornbeck, P., Raju, R., Ahmad, R., Szucs, M., Mundt, F., Forestier, D., Jane-Valbuena, J., Keshishian, H., Gillette, M.A., Tamayo, P., Mesirov, J.P., Jaffe, J.D., 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., Kirchner, M., Stefanowski, J., Durst, M., Weber, M.C., Pfeiffenberger, M., Damerau, A., Hauser, A.E., Hoff, P., Duda, G.N., Buttgereit, F., 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., An, J., Lättig-Tünnemann, G., Kirchner, M., Dagane, A., Dittmar, G., Dirnagl, U., 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., Semtner, M., Oliveira Vidal, R., Perez Hernandez, D., Pong, W.W., Chen, Z., Hambardzumyan, D., Magrini, V., Ly, A., Walker, J., Mardis, E., Mertins, P., Sauer, S., 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., Mugler, C.F., Keskin, A., Hodapp, S., Chan, L.Y.L., Weis, K., Mertins, P., Regev, A., 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., Baytek, G., Kolundzic, E., Gosdschan, A., Kazmierczak, M., Ofenbauer, A., Beato del Rosal, M.L., Herzog, S., ul Fatima, N., Mertins, P., Seelk-Müthel, S. and Tursun, B.
Genetics 211 (1): 121-139. 1 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

On the relation between filament density, force generation and protrusion rate in mesenchymal cell motility.
Dolati, S., Kage, F., Mueller, J., Müsken, M., Kirchner, M., Dittmar, G., Sixt, M., 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., Miller, P.G., Silver, A.J., Sellar, R.S., Bhatt, S., Gibson, C., McConkey, M., Adams, D., Mar, B., Mertins, P., Fereshetian, S., Krug, K., Zhu, H., Letai, A., Carr, S.A., Doench, J., 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., Ehrenberger, T., Mundt, F., Gold, M.P., Krug, K., Mah, C.K., Mahoney, E.L., Daniel, C.J., LeNail, A., Ramamoorthy, D., Mertins, P., Mani, D.R., Zhang, H., Gillette, M.A., Clauser, K., Noble, M., Tang, L.C., Pierre-François, J., Silterra, J., Jensen, J., Tamayo, P., Korshunov, A., Pfister, S.M., Kool, M., Northcott, P.A., Sears, R.C., Lipton, J.O., Carr, S.A., Mesirov, J.P., 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., Ivanov, A., Perez Hernandez, D., Haage, V., Wojtas, B., Meyer, N., Maricos, M., Jordan, P., Buonfiglioli, A., Gielniewski, B., Ochocka, N., Cömert, C., Friedrich, C., Suarez Artiles, L., Kaminska, B., Mertins, P., Beule, D., 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., Tang, L.C., Krug, K., Clark, D.J., Gritsenko, M.A., Chen, L., Clauser, K.R., Clauss, T.R., Shah, P., Gillette, M.A., Petyuk, V.A., Thomas, S.N., Mani, D.R., Mundt, F., Moore, R.J., Hu, Y., Zhao, R., Schnaubelt, M., Keshishian, H., Monroe, M.E., Zhang, Z., Udeshi, N.D., Mani, D., Davies, S.R., Townsend, R.R., Chan, D.W., Smith, R.D., Zhang, H., 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., Zhou, J., Liu, J.B., Wu, Z., Xu, X., Li, T., Xu, D., Schumacher, S.E., Puschhof, J., McFarland, J., Zou, C., Dulak, A., Henderson, L., Xu, P., O'Day, E., Rendak, R., Liao, W.L., Cecchi, F., Hembrough, T., Schwartz, S., Szeto, C., Rustgi, A.K., Wong, K.K., Diehl, J.A., Jensen, K., Graziano, F., Ruzzo, A., Fereshetian, S., Mertins, P., Carr, S.A., Beroukhim, R., Nakamura, K., Oki, E., Watanabe, M., Baba, H., Imamura, Y., 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., Rajput, S., Li, S., Ruggles, K.V., Mooradian, A.D., Mertins, P., Gillette, M.A., Krug, K., Guo, Z., Hoog, J., Erdmann-Gilmore, P., Primeau, T., Huang, S., Edwards, D.P., Wang, X., Wang, X., Kawaler, E., Mani, D.R., Clauser, K.R., Gao, F., Luo, J., Davies, S.R., Johnson, G.L., Huang, K.L., Yoon, C.J., Ding, L., Fenyö, D., Ellis, M.J., Townsend, R.R., Held, J.M., 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., Stölting, G., Schewe, J., Thiel, A., Tan, H., Nelson-Williams, C., Vichot, A.A., Jin, S.C., Loring, E., Untiet, V., Yoo, T., Choi, J., Xu, S., Wu, A., Kirchner, M., Mertins, P., Rump, L.C., Onder, A.M., Gamble, C., McKenney, D., Lash, R.W., Jones, D.P., Chune, G., Gagliardi, P., Choi, M., Gordon, R., Stowasser, M., Fahlke, C. and Lifton, R.P.
Nature Genetics 50 (3): 349-354. March 2018

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

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

Pervasive, coordinated protein-level changes driven by transcript isoform switching during meiosis.
Cheng, Z., Otto, G.M., Powers, E.N., Keskin, A., Mertins, P., Carr, S.A., 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., Muzumdar, M.D., Dorans, K.J., Robbins, R.A., Bhutkar, A., Del Rosario, A.M., Mertins, P., Qiao, J., Schaefer, C., Gertler, F.B., Carr, S.A. and Jacks, T.
Cancer Research 78 (4): 985-1002. 15 February 2018

2017

Receptor tyrosine kinase activation of RhoA is mediated by AKT phosphorylation of DLC1.
Tripathi, B.K., Grant, T., Qian, X., Zhou, M., Mertins, P., Wang, D., Papageorge, A.G., Tarasov, S.G., Hunter, K.W., 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., Przybylski, D., Yosef, N., Qiao, J., Clauser, K., Raychowdhury, R., Eisenhaure, T.M., Maritzen, T., Haucke, V., Satoh, T., Akira, S., Carr, S.A., Regev, A., 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., Crain, A.M., Winquist, A.M., Calabrese, B., Makihara, H., Zhao, W.N., Lalonde, J., Nakamura, H., Konopaske, G., Sidor, M., Pernia, C.D., Yamashita, N., Wada, M., Inoue, Y., Nakamura, F., Sheridan, S.D., Logan, R.W., Brandel, M., Wu, D., Hunsberger, J., Dorsett, L., Duerr, C., Basa, R.C.B., McCarthy, M.J., Udeshi, N.D., Mertins, P., Carr, S.A., Rouleau, G.A., Mastrangelo, L., Li, J., Gutierrez, G.J., Brill, L.M., Venizelos, N., Chen, G., Nye, J.S., Manji, H., Price, J.H., McClung, C.A., Akiskal, H.S., Alda, M., Chuang, D.M.M., Coyle, J.T., Liu, Y., Teng, Y.D., Ohshima, T., Mikoshiba, K., Sidman, R.L., Halpain, S., Haggarty, S.J., 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., Li, S., Mertins, P., Cao, S., Gunawardena, H.P., Ruggles, K.V., Mani, D.R., Clauser, K.R., Tanioka, M., Usary, J., Kavuri, S.M., Xie, L., Yoon, C., Qiao, J.W., Wrobel, J., Wyczalkowski, M.A., Erdmann-Gilmore, P., Snider, J.E., Hoog, J., Singh, P., Niu, B., Guo, Z., Sun, S.Q., Sanati, S., Kawaler, E., Wang, X., Scott, A., Ye, K., McLellan, M.D., Wendl, M.C., Malovannaya, A., Held, J.M., Gillette, M.A., Fenyö, D., Kinsinger, C.R., Mesri, M., Rodriguez, H., Davies, S.R., Perou, C.M., Ma, C., Townsend, R.R., Chen, X., Carr, S.A., 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., Ma, Z., Carr, S.A., Mertins, P., Zhang, H., Zhang, Z., Chan, D.W., Ellis, M.J.C., Townsend, R.R., Smith, R.D., McDermott, J.E., Chen, X., Paulovich, A.G., Boja, E.S., Mesri, M., Kinsinger, C.R., Rodriguez, H., Rodland, K.D., Liebler, D.C. and Zhang, B.
Molecular & Cellular Proteomics 16 (1): 121-134. 1 January 2017

2016

Integrated proteogenomic characterization of human high-grade serous ovarian cancer.
Zhang, H., Liu, T., Zhang, Z., Payne, S.H., Zhang, B., McDermott, J.E., Zhou, J.Y., Petyuk, V.A., Chen, L., Ray, D., Sun, S., Yang, F., Chen, L., Wang, J., Shah, P., Cha, S.W., Aiyetan, P., Woo, S., Tian, Y., Gritsenko, M.A., Clauss, T.R., Choi, C., Monroe, M.E., Thomas, S., Nie, S., Wu, C., Moore, R.J., Yu, K.H., Tabb, D.L., Fenyö, D., Bafna, V., Wang, Y., Rodriguez, H., Boja, E.S., Hiltke, T., Rivers, R.C., Sokoll, L., Zhu, H., Shih, I.M., Cope, L., Pandey, A., Zhang, B., Snyder, M.P., Levine, D.A., Smith, R.D., 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., Mani, D.R., Ruggles, K.V., Gillette, M.A., Clauser, K.R., Wang, P., Wang, X., Qiao, J.W., Cao, S., Petralia, F., Kawaler, E., Mundt, F., Krug, K., Tu, Z., Lei, J.T., Gatza, M.L., Wilkerson, M., Perou, C.M., Yellapantula, V., Huang, K.L., Lin, C., McLellan, M.D., Yan, P., Davies, S.R., Townsend, R.R., Skates, S.J., Wang, J., Zhang, B., Kinsinger, C.R., Mesri, M., Rodriguez, H., Ding, L., Paulovich, A.G., Fenyoe, D., 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., Wang, X., Carr, S.A., Clauser, K.R., Mertins, P., Chambers, M.C., Holman, J.D., Wang, J., Zhang, B., Zimmerman, L.J., Chen, X., Gunawardena, H.P., Davies, S.R., Ellis, M.J.C., Li, S., Townsend, R.R., Boja, E.S., Ketchum, K.A., Kinsinger, C.R., Mesri, M., Rodriguez, H., Liu, T., Kim, S., McDermott, J.E., Payne, S.H., Petyuk, V.A., Rodland, K.D., Smith, R.D., Yang, F., Chan, D.W., Zhang, B., Zhang, H., Zhang, Z., 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., Tang, Z., Wang, X., Grover, H., Askenazi, M., Teubl, J., Cao, S., McLellan, M.D., Clauser, K.R., Tabb, D.L., Mertins, P., Slebos, R., Erdmann-Gilmore, P., Li, S., Gunawardena, H.P., Xie, L., Liu, T., Zhou, J.Y., Sun, S., Hoadley, K.A., Perou, C.M., Chen, X., Davies, S.R., Maher, C.A., Kinsinger, C.R., Rodland, K.D., Zhang, H., Zhang, Z., Ding, L., Townsend, R.R., Rodriguez, H., Chan, D., Smith, R.D., Liebler, D.C., Carr, S.A., Payne, S., Ellis, M.J. and Fenyö, D.
Molecular & Cellular Proteomics 15 (3): 1060-1071. 1 March 2016

2015

A regression-based analysis of ribosome-profiling data reveals a conserved complexity to mammalian translation.
Fields, A.P., Rodriguez, E.H., Jovanovic, M., Stern-Ginossar, N., Haas, B.J., Mertins, P., Raychowdhury, R., Hacohen, N., Carr, S.A., Ingolia, N.T., 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., Gu, H., Silva, J.C., Mertins, P., Qiao, J., Fereshetian, S., Jaffe, J.D., Kuhn, E., 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., Burgess, M.W., Gillette, M.A., Mertins, P., Clauser, K.R., Mani, D.R., Kuhn, E.W., Farrell, L.A., 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., Jovanovic, M., Eisenhaure, T.M., Herbst, R.H., Dixit, A., Ye, C.J., Przybylski, D., Platt, R.J., Tirosh, I., Sanjana, N.E., Shalem, O., Satija, R., Raychowdhury, R., Mertins, P., Carr, S.A., Zhang, F., 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., Feeney, C.M., Taylor, J.E., Creech, A.L., Qiao, J.W., Szanto, A., Das, P.P., Chevrier, N., Cifuentes-Rojas, C., Orkin, S.H., Carr, S.A., Jaffe, J.D., 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., Rooney, M.S., Mertins, P., Przybylski, D., Chevrier, N., Satija, R., Rodriguez, E.H., Fields, A.P., Schwartz, S., Raychowdhury, R., Mumbach, M.R., Eisenhaure, T., Rabani, M., Gennert, D., Lu, D., Delorey, T., Weissman, J.S., Carr, S.A., Hacohen, N. and Regev, A.
Science 347 (6226): 1259038. 6 March 2015

2014

CDK5 is a major regulator of the tumor suppressor DLC1.
Tripathi, B.K., Qian, X., Mertins, P., Wang, D., Papageorge, A.G., 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., Wang, J., Wang, X., Zhu, J., Liu, Q., Shi, Z., Chambers, M.C., Zimmerman, L.J., Shaddox, K.F., Kim, S., Davies, S.R., Wang, S., Wang, P., Kinsinger, C.R., Rivers, R.C., Rodriguez, H., Townsend, R.R., Ellis, M.J.C., Carr, S.A., Tabb, D.L., Coffey, R.J., 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., Mumbach, M.R., Jovanovic, M., Wang, T., Maciag, K., Bushkin, G.G., Mertins, P., Ter-Ovanesyan, D., Habib, N., Cacchiarelli, D., Sanjana, N.E., Freinkman, E., Pacold, M.E., Satija, R., Mikkelsen, T.S., Hacohen, N., Zhang, F., Carr, S.A., 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., Yang, F., Liu, T., Mani, D.R., Petyuk, V.A., Gillette, M.A., Clauser, K.R., Qiao, J.W., Gritsenko, M.A., Moore, R.J., Levine, D.A., Townsend, R., Erdmann-Gilmore, P., Snider, J.E., Davies, S.R., Ruggles, K.V., Fenyo, D., Kitchens, R.T., Li, S., Olvera, N., Dao, F., Rodriguez, H., Chan, D.W., Liebler, D., White, F., Rodland, K.D., Mills, G.B., Smith, R.D., Paulovich, A.G., 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., He, K.H., Mertins, P., Udeshi, N.D., Dančík, V., Fomina-Yadlin, D., Kubicek, S., Clemons, P.A., Schreiber, S.L., Carr, S.A. and Wagner, B.K.
PLoS ONE 9 (4): e95194. 23 April 2014

2013

High-resolution mapping reveals a conserved, widespread, dynamic mRNA methylation program in yeast meiosis.
Schwartz, S., Agarwala, S.D., Mumbach, M.R., Jovanovic, M., Mertins, P., Shishkin, A., Tabach, Y., Mikkelsen, T.S., Satija, R., Ruvkun, G., Carr, S.A., Lander, E.S., 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., Mertins, P., 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., Qiao, J.W., Patel, J., Udeshi, N.D., Clauser, K.R., Mani, D.R., Burgess, M.W., Gillette, M.A., 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., Mertins, P., Mayr, T., Widschwendter, P., Ataseven, B., Högel, B., Eiermann, W., 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., Svinkina, T., Mertins, P., Kuhn, E., Mani, D.R., 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., Roy, M., Ong, S.E., Mertins, P., Villani, A.C., Li, W., Dotiwala, F., Sen, J., Doench, J.G., Orzalli, M.H., Kramnik, I., Knipe, D.M., Lieberman, J., Carr, S.A. and Hacohen, N.
Nature Immunology 14 (2): 179-185. February 2013

2012

Functional analysis of receptor tyrosine kinase mutations in lung cancer identifies oncogenic extracellular domain mutations of ERBB2.
Greulich, H., Kaplan, B., Mertins, P., Chen, T.H., Tanaka, K.E., Yun, C.H., Zhang, X., Lee, S.H., Cho, J., Ambrogio, L., Liao, R., Imielinski, M., Banerji, S., Berger, A.H., Lawrence, M.S., Zhang, J., Pho, N.H., Walker, S.R., Winckler, W., Getz, G., Frank, D., Hahn, W.C., Eck, M.J., Mani, D.R., Jaffe, J.D., Carr, S.A., 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., Udeshi, N.D., Clauser, K.R., Mani, D.R., Patel, J., Ong, S.E., 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., Mani, D.R., Eisenhaure, T., Mertins, P., Jaffe, J.D., Clauser, K.R., Hacohen, N. and Carr, S.A.
Molecular & Cellular Proteomics 11 (5): 148-159. 1 May 2012

2011

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

2008

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

2006

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