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Article

Senescent syncytiotrophoblast secretion during early onset preeclampsia.
Nonn, O., Debnath, O., Valdes, D.S., Sallinger, K., Secener, A.K., Fischer, C., Tiesmeyer, S., Nimo, J., Kuenzer, T., Ulrich, J., Maxian, T., Knöfler, M., Karau, P., Bartolomaeus, H., Kroneis, T., Frolova, A., Neuper, L., Haase, N., Malt, A., Müller-Bötticher, N., Kräker, K., Kedziora, S., Forstner, D., Eils, R., Schmidt-Ullrich, R., Haider, S., Verlohren, S., Stern, C., Sugulle, M., Jones, S., Thilaganathan, B., Kaitu'u-Lino, T.J., Tong, S., Huppertz, B., El-Heliebi, A., Staff, A.C., Coscia, F., Müller, D.N., Dechend, R., Gauster, M., Ishaque, N. and Herse, F.
Hypertension 23 October 2024 (In Press)

AHRR and SFRP2 in primary versus recurrent high-grade serous ovarian carcinoma and their prognostic implication.
Monjé, N., Dragomir, M.P., Sinn, B.V., Hoffmann, I., Makhmut, A., Simon, T., Kunze, C.A., Ihlow, J., Schmitt, W.D., Pohl, J., Piwonski, I., Marchenko, S., Keunecke, C., Calina, T.G., Tiso, F., Kulbe, H., Kreuzinger, C., Cacsire Castillo-Tong, D., Sehouli, J., Braicu, E.I., Denkert, C., Darb-Esfahani, S., Kübler, K., Capper, D., Coscia, F., Morkel, M., Horst, D., Sers, C. and Taube, E.T.
British Journal of Cancer 13 (8): 1249-1260. 3 May 2024

An automated and fast sample preparation workflow for laser microdissection guided ultrasensitive proteomics.
Makhmut, A., Qin, D., Hartlmayr, D., Seth, A. and Coscia, F.
Molecular & Cellular Proteomics 23 (5): 100750. May 2024

The NSP3 protein of SARS-CoV-2 binds fragile X mental retardation proteins to disrupt UBAP2L interactions.
Garvanska, D.H., Alvarado, R.E., Mundt, F.O., Lindqvist, R., Duel, J.K., Coscia, F., Nilsson, E., Lokugamage, K., Johnson, B.A., Plante, J.A., Morris, D.R., Vu, M.N., Estes, L.K., McLeland, A.M., Walker, J., Crocquet-Valdes, P.A., Mendez, B.L., Plante, K.S., Walker, D.H., Weisser, M.B., Överby, A.K., Mann, M., Menachery, V.D. and Nilsson, J.
EMBO Reports 25 (2): 902-926. 13 February 2024

A framework for ultra-low-input spatial tissue proteomics.
Makhmut, A., Qin, D., Fritzsche, S., Nimo, J., König, J. and Coscia, F.
Cell Systems 14 (11): 1002-1014. 15 November 2023

Proteomic profiling of colorectal adenomas identifies a predictive risk signature for development of metachronous advanced colorectal neoplasia.
Bech, J.M., Terkelsen, T., Bartels, A.S., Coscia, F., Doll, S., Zhao, S., Zhang, Z., Brünner, N., Lindebjerg, J., Madsen, G.I., Fang, X., Mann, M. and Moreira, J.M.A.
Gastroenterology 165 (1): 121-132.e5. July 2023

The TRESLIN-MTBP complex couples completion of DNA replication with S/G2 transition.
Zonderland, G., Vanzo, R., Amitash, S., Martín-Doncel, E., Coscia, F., Mund, A., Lerdrup, M., Benada, J., Boos, D. and Toledo, L.
Molecular Cell 82 (18): 3350-3365. 15 September 2022

Deep Visual Proteomics defines single-cell identity and heterogeneity.
Mund, A., Coscia, F., Kriston, A., Hollandi, R., Kovács, F., Brunner, A.D., Migh, E., Schweizer, L., Santos, A., Bzorek, M., Naimy, S., Rahbek-Gjerdrum, L.M., Dyring-Andersen, B., Bulkescher, J., Lukas, C., Eckert, M.A., Lengyel, E., Gnann, C., Lundberg, E., Horvath, P. and Mann, M.
Nature Biotechnology 40 (8): 1231-1240. August 2022

Identification of early neurodegenerative pathways in progressive multiple sclerosis.
Kaufmann, M., Schaupp, A.L., Sun, R., Coscia, F., Dendrou, C.A., Cortes, A., Kaur, G., Evans, H.G., Mollbrink, A., Navarro, J.F., Sonner, J.K., Mayer, C., DeLuca, G.C., Lundeberg, J., Matthews, P.M., Attfield, K.E., Friese, M.A., Mann, M. and Fugger, L.
Nature Neuroscience 25 (7): 944-955. July 2022

A knowledge graph to interpret clinical proteomics data.
Santos, A., Colaço, A.R., Nielsen, A.B., Niu, L., Strauss, M., Geyer, P.E., Coscia, F., Albrechtsen, N.J.W., Mundt, F., Jensen, L.J. and Mann, M.
Nature Biotechnology 40 (5): 692-702. 22 May 2022

K27-linked ubiquitylation promotes p97 substrate processing and is essential for cell proliferation.
Shearer, R.F., Typas, D., Coscia, F., Schovsbo, S., Kruse, T., Mund, A. and Mailand, N.
EMBO Journal 41 (9): e110145. 2 May 2022

Ultra-high sensitivity mass spectrometry quantifies single-cell proteome changes upon perturbation.
Brunner, A.D., Thielert, M., Vasilopoulou, C., Ammar, C., Coscia, F., Mund, A., Hoerning, O.B., Bache, N., Apalategui, A., Lubeck, M., Richter, S., Fischer, D.S., Raether, O., Park, M.A., Meier, F., Theis, F.J. and Mann, M.
Molecular Systems Biology 18 (3): e10798. 1 March 2022

Large scale discovery of coronavirus-host factor protein interaction motifs reveals SARS-CoV-2 specific mechanisms and vulnerabilities.
Kruse, T., Benz, C., Garvanska, D.H., Lindqvist, R., Mihalic, F., Coscia, F., Inturi, R., Sayadi, A., Simonetti, L., Nilsson, E., Ali, M., Kliche, J., Moliner Morro, A., Mund, A., Andersson, E., McInerney, G., Mann, M., Jemth, P., Davey, N.E., Överby, A.K., Nilsson, J. and Ivarsson, Y.
Nature Communications 12 (1): 6761. 19 November 2021

Molecular response to PARP1 inhibition in ovarian cancer cells as determined by mass spectrometry based proteomics.
Franz, A., Coscia, F., Shen, C., Charaoui, L., Mann, M. and Sander, C.
Journal of Ovarian Research 14 (1): 140. 22 October 2021

Homology-directed repair protects the replicating genome from metabolic assaults.
Somyajit, K., Spies, J., Coscia, F., Kirik, U., Rask, M.B., Lee, J.H., Neelsen, K.J., Mund, A., Jensen, L.J., Paull, T.T., Mann, M. and Lukas, J.
Developmental Cell 56 (4): 461-477. 22 February 2021

Spatially and cell-type resolved quantitative proteomic atlas of healthy human skin.
Dyring-Andersen, B., Løvendorf, M.B., Coscia, F., Santos, A., Møller, L.B.P., Colaço, A.R., Niu, L., Bzorek, M., Doll, S., Andersen, J.L., Clark, R.A., Skov, L., Teunissen, M.B.M. and Mann, M.
Nature Communications 11 (1): 5587. 5 November 2020

FAM111 protease activity undermines cellular fitness and is amplified by gain-of-function mutations in human disease.
Hoffmann, S., Pentakota, S., Mund, A., Haahr, P., Coscia, F., Gallo, M., Mann, M., Taylor, N.M. and Mailand, N.
EMBO Reports 21 (10): e50662. 5 October 2020

A streamlined mass spectrometry-based proteomics workflow for large-scale FFPE tissue analysis.
Coscia, F., Doll, S., Bech, J.M., Schweizer, L., Mund, A., Lengyel, E., Lindebjerg, J., Madsen, G.I., Moreira, J.M. and Mann, M.
Journal of Pathology 251 (1): 100-112. May 2020

Mesothelial cell HIF1α expression is metabolically downregulated by metformin to prevent oncogenic tumor-stromal crosstalk.
Hart, P.C., Kenny, H.A., Grassl, N., Watters, K.M., Litchfield, L.M., Coscia, F., Blaženović, I., Ploetzky, L., Fiehn, O., Mann, M., Lengyel, E. and Romero, I.L.
Cell Reports 29 (12): 4086-4098. 17 December 2019

Proteomics reveals NNMT as a master metabolic regulator of cancer-associated fibroblasts.
Eckert, M.A., Coscia, F., Chryplewicz, A., Chang, J.W., Hernandez, K.M., Pan, S., Tienda, S.M., Nahotko, D.A., Li, G., Blaženović, I., Lastra, R.R., Curtis, M., Yamada, S.D., Perets, R., McGregor, S.M., Andrade, J., Fiehn, O., Moellering, R.E., Mann, M. and Lengyel, E.
Nature 569 (7758): 723-728. 30 May 2019

Efficient mitotic checkpoint signaling depends on integrated activities of Bub1 and the RZZ complex.
Zhang, G., Kruse, T., Guasch Boldú, C., Garvanska, D.H., Coscia, F., Mann, M., Barisic, M. and Nilsson, J.
EMBO Journal 38 (7): e100977. 1 April 2019

Multi-level proteomics identifies CT45 as a chemosensitivity mediator and immunotherapy target in ovarian cancer.
Coscia, F., Lengyel, E., Duraiswamy, J., Ashcroft, B., Bassani-Sternberg, M., Wierer, M., Johnson, A., Wroblewski, K., Montag, A., Yamada, S.D., López-Méndez, B., Nilsson, J., Mund, A., Mann, M. and Curtis, M.
Cell 175 (1): 159-170. 20 September 2018

Rapid proteomic analysis for solid tumors reveals LSD1 as a drug target in an end-stage cancer patient.
Doll, S., Kriegmair, M.C., Santos, A., Wierer, M., Coscia, F., Neil, H.M., Porubsky, S., Geyer, P.E., Mund, A., Nuhn, P. and Mann, M.
Molecular Oncology 12 (8): 1296-1307. August 2018

Integrative proteomic profiling of ovarian cancer cell lines reveals precursor cell associated proteins and functional status.
Coscia, F., Watters, K.M., Curtis, M., Eckert, M.A., Chiang, C.Y., Tyanova, S., Montag, A., Lastra, R.R., Lengyel, E. and Mann, M.
Nature Communications 7 : 12645. 26 August 2016

Regulated intramembrane proteolysis and degradation of murine epithelial cell adhesion molecule mEpCAM.
Hachmeister, M., Bobowski, K.D., Hogl, S., Dislich, B., Fukumori, A., Eggert, C., Mack, B., Kremling, H., Sarrach, S., Coscia, F., Zimmermann, W., Steiner, H., Lichtenthaler, S.F. and Gires, O.
PLoS ONE 8 (8): e71836. 29 August 2013

A novel inhibitory domain of Helicobacter pylori protein CagA reduces CagA effects on host cell biology.
Pelz, C., Steininger, S., Weiss, C., Coscia, F. and Vogelmann, R.
Journal of Biological Chemistry 286 (11): 8999-9008. 18 March 2011

Editorial

What do you most hope spatial molecular profiling will help us understand? Part 2.
Yanai, I., Fertig, E.J., Li, M., Coscia, F., Klughammer, J., Nie, Q., Chen, J. and Coskun, A.F.
Cell Systems 14 (7): 543-546. 19 July 2023

Preprint

Targeted disruption of linkage-specific ubiquitylation reveals a key role of K29-linked ubiquitylation in epigenome integrity.
Arroyo-Gomez, J., Wang, J., Guérillon, C., Isaakova, E., Reverón-Gómez, N., Koutrouli, M., Rahmanto, A.S., Mitrofanov, K., Ingham, A., Schovsbo, S., Weischenfeldt, K., Coscia, F., Typas, D., Völker-Albert, M., Solis, V., Jensen, L.J., Groth, A., Mund, A., Beli, P., Shearer, R.F. and Mailand, N.
bioRxiv : 2024.10.29.620783. 2 November 2024

The IBEX Knowledge-Base: Achieving more together with open science.
Radtke, A.J., Anidi, I., Arakkal, L., Arroyo-Mejias, A., Beuschel, R.T., Börner, K., Chu, C.J., Clark, B., Clatworthy, M.R., Colautti, J., Croteau, J., Denha, S., Dever, R., Dutra, W.O., Fritzsche, S., Fullam, S., Gerner, M.Y., Gola, A., Gollob, K.J., Hernandez, J.M., Hor, J.L., Ichise, H., Jing, Z., Jonigk, D., Kandov, E., Kastenmüller, W., Koenig, J.F.E., Kothurkar, A., Kreins, A.Y., Lamborn, I., Lin, Y., Luciano Pereira Morais, K., Lunich, A., Luz, J.C.S., MacDonald, R.B., Makranz, C., Maltez, V.I., Moriaty, R.V., Ocampo-Godinez, J.M., Olyntho, V.M., Padhan, K., Remmert, K., Richoz, N., Schrom, E.C., Shang, W., Shi, L., Shih, R.M., Speranza, E., Stierli, S., Teichmann, S.A., Veres, T.Z., Vierhout, M., Wachter, B.T., Wade-Vallance, A.K., Williams, M., Zangger, N., Germain, R.N. and Yaniv, Z.
arXiv : 2407.19059v1. 26 July 2024

AI-driven Deep Visual Proteomics defines cell identity and heterogeneity.
Mund, A., Coscia, F., Hollandi, R., Kovács, F., Kriston, A., Brunner, A.D., Bzorek, M., Naimy, S., Rahbek Gjerdrum, L.M., Dyring-Andersen, B., Bulkescher, J., Lukas, C., Gnann, C., Lundberg, E., Horvath, P. and Mann, M.
bioRxiv : 2021.01.25.427969. 27 January 2021