Matthias Mann

Matthias Mann

Professor, head of research, Professor

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    ORCID: 0000-0003-1292-4799

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    1. 1D and 2D annotation enrichment: a statistical method integrating quantitative proteomics with complementary high-throughput data

      Cox, J. & Mann, Matthias, 2012, In: B M C Bioinformatics. 13 Suppl 16, p. S12

      Research output: Contribution to journal › Journal article › Research › peer-review

    2. Published

      A Cell-Autonomous Signature of Dysregulated Protein Phosphorylation Underlies Muscle Insulin Resistance in Type 2 Diabetes

      Batista, T. M., Jayavelu, A. K., Albrechtsen, Nicolai Jacob Wewer, Iovino, S., Lebastchi, J., Pan, H., Dreyfuss, J. M., Krook, A., Zierath, Juleen R, Mann, Matthias & Kahn, C. R., 2020, In: Cell Metabolism. 32, 5, p. 844-859.e5

      Research output: Contribution to journal › Journal article › Research › peer-review

    3. A DNA-Centric Protein Interaction Map of Ultraconserved Elements Reveals Contribution of Transcription Factor Binding Hubs to Conservation

      Viturawong, T., Meissner, F., Butter, F. & Mann, Matthias, 31 Oct 2013, In: Plant Cell Reports. 5, 2, p. 531-45 15 p.

      Research output: Contribution to journal › Journal article › Research

    4. Published

      A Multi-Omics Approach to Liver Diseases: Integration of Single Nuclei Transcriptomics with Proteomics and HiCap Bulk Data in Human Liver

      Cavalli, M., Diamanti, K., Pan, G., Spalinskas, R., Kumar, C., Deshmukh, Atul Shahaji, Mann, Matthias, Sahlén, P., Komorowski, J. & Wadelius, C., 2020, In: O M I C S: A Journal of Integrative Biology. 24, 4, 15 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    5. Published

      A Primer on Concepts and Applications of Proteomics in Neuroscience

      Hosp, F. & Mann, Matthias, 1 Nov 2017, In: Neuron. 96, 3, p. 558-571 14 p.

      Research output: Contribution to journal › Review › Research › peer-review

    6. Published

      A Proteome-wide, Quantitative Survey of In Vivo Ubiquitylation Sites Reveals Widespread Regulatory Roles

      Wagner, S. A., Beli, P., Weinert, B. T., Nielsen, Michael Lund, Cox, J., Mann, Matthias & Choudhary, Chunaram, 1 Oct 2011, In: Molecular and Cellular Proteomics. 10, 10, p. M111.013284

      Research output: Contribution to journal › Journal article › Research › peer-review

    7. A Proteomics Approach to the Protein Normalization Problem: Selection of Unvarying Proteins for MS-Based Proteomics and Western Blotting

      Wiśniewski, J. R. & Mann, Matthias, 1 Jul 2016, In: Journal of Proteome Research. 15, 7, p. 2321-6 6 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    8. A SILAC-based approach identifies substrates of caspase-dependent cleavage upon TRAIL-induced apoptosis

      Stoehr, G., Schaab, C., Graumann, J. & Mann, Matthias, May 2013, In: Molecular & Cellular Proteomics. 12, 5, p. 1436-50 15 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    9. Published

      A Standardized and Reproducible Workflow for Membrane Glass Slides in Routine Histology and Spatial Proteomics

      Nordmann, T. M., Schweizer, L., Metousis, A., Thielert, Marvin Christoffer, Rodriguez, E., Gjerdrum, Lise Mette Rahbek, Stadler, P., Bzorek, M., Mund, Andreas, Rosenberger, F. A. & Mann, Matthias, 2023, In: Molecular & cellular proteomics : MCP. 22, 10, 9 p., 100643.

      Research output: Contribution to journal › Journal article › Research › peer-review

    10. A Stat6/Pten Axis Links Regulatory T Cells with Adipose Tissue Function

      Kälin, S., Becker, M., Ott, V. B., Serr, I., Hosp, F., Mollah, M. M. H., Keipert, S., Lamp, D., Rohner-Jeanrenaud, F., Flynn, V. K., Scherm, M. G., Nascimento, L. F. R., Gerlach, K., Popp, V., Dietzen, S., Bopp, T., Krishnamurthy, P., Kaplan, M. H., Serrano, M., Woods, S. C. & 10 others, Tripal, P., Palmisano, R., Jastroch, M., Blüher, M., Wolfrum, C., Weigmann, B., Ziegler, A., Mann, Matthias, Tschöp, M. H. & Daniel, C., 5 Sep 2017, In: Cell Metabolism. 26, 3, p. 475-492.e7

      Research output: Contribution to journal › Journal article › Research › peer-review

    11. A double-barrel LC-MS/MS system to quantify 96 interactomes per day

      Hosp, F., Scheltema, R. A., Eberl, C., Kulak, N. A., Keilhauer, E. C., Mayr, K. & Mann, Matthias, 17 Apr 2015, In: Molecular and Cellular Proteomics. 14, 7, p. 2030-41 12 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    12. A dual pressure linear ion trap orbitrap instrument with very high sequencing speed

      Olsen, Jesper Velgaard, Schwartz, J. C., Griep-Raming, J., Nielsen, Michael Lund, Damoc, E., Denisov, E., Lange, O., Remes, P., Taylor, D., Splendore, M., Wouters, E. R., Senko, M., Makarov, A., Mann, Matthias & Horning, S., 2009, In: Molecular and Cellular Proteomics. 8, 12, p. 2759-69 10 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    13. A genome-wide resource for the analysis of protein localisation in Drosophila

      Sarov, M., Barz, C., Jambor, H., Hein, M. Y., Schmied, C., Suchold, D., Stender, B., Janosch, S., K J, V. V., Krishnan, R. T., Krishnamoorthy, A., Ferreira, I. R. S., Ejsmont, R. K., Finkl, K., Hasse, S., Kämpfer, P., Plewka, N., Vinis, E., Schloissnig, S., Knust, E. & 6 others, Hartenstein, V., Mann, Matthias, Ramaswami, M., VijayRaghavan, K., Tomancak, P. & Schnorrer, F., 20 Feb 2016, In: eLife. 5, p. e12068

      Research output: Contribution to journal › Journal article › Research › peer-review

    14. Published

      A knowledge graph to interpret clinical proteomics data

      Santos, A., Colaço, A. R., Nielsen, A. B., Niu, Lili, Strauss, Maximilian, Geyer, P. E., Coscia, F., Albrechtsen, Nicolai Jacob Wewer, Mundt, F., Jensen, Lars Juhl & Mann, Matthias, 2022, In: Nature Biotechnology. 40, p. 692–702

      Research output: Contribution to journal › Journal article › Research › peer-review

    15. A large synthetic peptide and phosphopeptide reference library for mass spectrometry-based proteomics

      Marx, H., Lemeer, S., Schliep, J. E., Matheron, L., Mohammed, S., Cox, J., Mann, Matthias, Heck, A. J. R. & Kuster, B., Jun 2013, In: Nature Biotechnology. 31, 6, p. 557-64 8 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    16. A mass spectrometry guided approach for the identification of novel vaccine candidates in gram-negative pathogens

      Hornburg, D., Kruse, T., Anderl, F., Daschkin, C., Semper, R. P., Klar, K., Guenther, A., Mejías-Luque, R., Schneiderhan-Marra, N., Mann, Matthias, Meissner, F. & Gerhard, M., 22 Nov 2019, In: Scientific Reports. 9, 1, p. 17401

      Research output: Contribution to journal › Journal article › Research › peer-review

    17. A mass spectrometry-friendly database for cSNP identification

      Schandorff, S., Olsen, Jesper Velgaard, Bunkenborg, J., Blagoev, B., Zhang, Y., Andersen, J. S. & Mann, Matthias, 2007, In: Nature Methods. 4, 6, p. 465-6 1 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    18. Published

      A new parallel high-pressure packing system enables rapid multiplexed production of capillary columns

      Müller-Reif, J. B., Hansen, F. M., Schweizer, L., Treit, P. V., Geyer, P. E. & Mann, Matthias, 2021, In: Molecular and Cellular Proteomics. 20, 10 p., 100082.

      Research output: Contribution to journal › Journal article › Research › peer-review

    19. Published

      A novel LC system embeds analytes in pre-formed gradients for rapid, ultra-robust proteomics

      Bache, N., Geyer, P. E., Bekker-Jensen, D. B., Hørning, O., Falkenby, L., Treit, P. V., Doll, S., Paron, I., Müller, J. B., Meier, F., Olsen, Jesper Velgaard, Vorm, O. & Mann, Matthias, 2018, In: Molecular and Cellular Proteomics. 17, 11, p. 2284-2296 13 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    20. A protein-interaction network of interferon-stimulated genes extends the innate immune system landscape

      Hubel, P., Urban, C., Bergant, V., Schneider, W. M., Knauer, B., Stukalov, A., Scaturro, P., Mann, A., Brunotte, L., Hoffmann, H. H., Schoggins, J. W., Schwemmle, M., Mann, Matthias, Rice, C. M. & Pichlmair, A., 4 Mar 2019, (E-pub ahead of print) In: Nature Immunology.

      Research output: Contribution to journal › Journal article › Research › peer-review

    21. A proteomic atlas of insulin signalling reveals tissue-specific mechanisms of longevity assurance

      Tain, L. S., Sehlke, R., Jain, C., Chokkalingam, M., Nagaraj, N., Essers, P., Rassner, M., Grönke, S., Froelich, J., Dieterich, C., Mann, Matthias, Alic, N., Beyer, A. & Partridge, L., 15 Sep 2017, In: Molecular Systems Biology. 13, 9, p. 939

      Research output: Contribution to journal › Journal article › Research › peer-review

    22. A proteomic atlas of the neointima identifies novel druggable targets for preventive therapy

      Wierer, M., Werner, J., Wobst, J., Kastrati, A., Cepele, G., Aherrahrou, R., Sager, H. B., Erdmann, J., Dichgans, M., Flockerzi, V., Civelek, M., Dietrich, A., Mann, Matthias, Schunkert, H. & Kessler, T., 8 Apr 2021, (E-pub ahead of print) In: European Heart Journal.

      Research output: Contribution to journal › Journal article › Research › peer-review

    23. Published

      A reversible state of hypometabolism in a human cellular model of sporadic Parkinson’s disease

      Schmidt, S., Stautner, C., Vu, D. T., Heinz, A., Regensburger, M., Karayel, O., Trümbach, D., Artati, A., Kaltenhäuser, S., Nassef, M. Z., Hembach, S., Steinert, L., Winner, B., Jürgen, W., Jastroch, M., Luecken, M. D., Theis, F. J., Westmeyer, G. G., Adamski, J., Mann, M. & 4 others, Hiller, K., Giesert, F., Vogt Weisenhorn, D. M. & Wurst, W., 2023, In: Nature Communications. 14, 1, 24 p., 7674.

      Research output: Contribution to journal › Journal article › Research › peer-review

    24. Published

      A spatially resolved proteomic atlas of human skin and its associated immune system

      Dyring-Andersen, Beatrice, Coscia, F., Santos, A., Løvendorf, M. B., Sørensen, L. B. P., Niu, Lili, Andersen, J. L., Clark, R., Skov, L., Teunissen, M. B. & Mann, Matthias, 2019, In: Journal of Investigative Dermatology. 139, 9, suppl., p. S259 1 p.

      Research output: Contribution to journal › Conference abstract in journal › Research

    25. Published

      A spatially resolved proteomic atlas of psoriatic skin

      Dyring-Andersen, Beatrice, Lovendorf, M. B., Santos, A., Coscia, F., Sørensen, L. B. P., Niu, Lili, Andersen, J. L., Teunissen, M. B., Skov, L. & Mann, Matthias, 2019, In: Journal of Investigative Dermatology. 139, 9, suppl., p. S260 1 p.

      Research output: Contribution to journal › Conference abstract in journal › Research

    26. Published

      A streamlined mass spectrometry-based proteomics workflow for large scale FFPE tissue analysis

      Coscia, F., Doll, S., Bech, J. M., Schweizer, L., Mund, Andreas, Lengyel, E., Lindebjerg, J., Madsen, G. I., Moreira, José & Mann, Matthias, 2020, In: Journal of Pathology. 251, p. 110-112

      Research output: Contribution to journal › Journal article › Research › peer-review

    27. A systematic mammalian genetic interaction map reveals pathways underlying ricin susceptibility

      Bassik, M. C., Kampmann, M., Lebbink, R. J., Wang, S., Hein, M. Y., Poser, I., Weibezahn, J., Horlbeck, M. A., Chen, S., Mann, Matthias, Hyman, A. A., Leproust, E. M., McManus, M. T. & Weissman, J. S., 14 Feb 2013, In: Cell. 152, 4, p. 909-22 14 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    28. Published

      A unified classification approach rating clinical utility of protein biomarkers across neurologic diseases

      Bernhardt, A. M., Tiedt, S., Teupser, D., Dichgans, M., Meyer, B., Gempt, J., Kuhn, P. H., Simons, M., Palleis, C., Weidinger, E., Nübling, G., Holdt, L., Hönikl, L., Gasperi, C., Giesbertz, P., Müller, S. A., Breimann, S., Lichtenthaler, S. F., Kuster, B., Mann, M. & 8 others, Imhof, A., Barth, T., Hauck, S. M., Zetterberg, H., Otto, M., Weichert, W., Hemmer, B. & Levin, J., 2023, In: EBioMedicine. 89, 13 p., 104456.

      Research output: Contribution to journal › Review › Research › peer-review

    29. A urokinase receptor-associated protein with specific collagen binding properties

      Behrendt, Niels, Jensen, O. N., Engelholm, Lars Henning, Mørtz, E., Mann, Matthias & Danø, K., 2000, In: The Journal of Biological Chemistry. 275, 3, p. 1993-2002 10 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    30. A20 and ABIN-1 cooperate in balancing CBM complex-triggered NF-κB signaling in activated T cells

      Yin, H., Karayel, O., Chao, Y., Seeholzer, T., Hamp, I., Plettenburg, O., Gehring, T., Zielinski, C., Mann, Matthias & Krappmann, D., 31 Jan 2022, In: Cellular and Molecular Life Sciences. 79, 2, p. 112

      Research output: Contribution to journal › Journal article › Research › peer-review

    31. Accurate MS-based Rab10 Phosphorylation Stoichiometry Determination as Readout for LRRK2 Activity in Parkinson’s Disease

      Karayel, O., Tonelli, F., Virreira Winter, S., Geyer, P. E., Fan, Y., Sammler, E. M., Alessi, D., Steger, M. & Mann, Matthias, 2020, In: Molecular and Cellular Proteomics. p. 1546-1560

      Research output: Contribution to journal › Journal article › Research › peer-review

    32. Published

      Actin homolog MreB and RNA polymerase interact and are both required for chromosome segregation in Escherichia coli

      Kruse, Thomas, Blagoev, B., Løbner-Olesen, Anders, Wachi, M., Sasaki, K., Iwai, N., Mann, Matthias & Gerdes, K., 1 Jan 2006, In: Genes & Development. 20, 1, p. 113-124 12 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    33. Published

      Activation of the ATR kinase by the RPA-binding protein ETAA1

      Haahr, Peter Thorlund, Hoffmann, Saskia, Tollenaere, M. A. X., Ho, T., Toledo Lazaro, L. I., Mann, Matthias, Bekker-Jensen, Simon Holst, Räschle, M. & Mailand, Niels, Nov 2016, In: Nature Cell Biology. 18, 11, p. 1196–1207

      Research output: Contribution to journal › Journal article › Research › peer-review

    34. Published

      Activity-based profiling of cullin–RING E3 networks by conformation-specific probes

      Henneberg, L. T., Singh, J., Duda, D. M., Baek, K., Yanishevski, D., Murray, P. J., Mann, Matthias, Sidhu, S. S. & Schulman, B. A., 2023, In: Nature Chemical Biology. 19, p. 1513-1523

      Research output: Contribution to journal › Journal article › Research › peer-review

    35. Published

      Advancing cell biology through proteomics in space and time (PROSPECTS)

      Lamond, A. I., Uhlen, M., Horning, S., Makarov, A., Robinson, C. V., Serrano, L., Hartl, F. U., Baumeister, W., Werenskiold, A. K., Mann, Matthias, Andersen, J. S., Vorm, O., Linial, M. & Aebersold, R., 1 Mar 2012, In: Molecular & Cellular Proteomics. 11, 3, 12 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    36. Adverse stem cell clones within a single patient's tumor predict clinical outcome in AML patients

      Zeller, C., Richter, D., Jurinovic, V., Valtierra-Gutiérrez, I. A., Jayavelu, A. K., Mann, Matthias, Bagnoli, J. W., Hellmann, I., Herold, T., Enard, W., Vick, B. & Jeremias, I., 12 Mar 2022, In: Journal of Hematology & Oncology. 15, 1, p. 25

      Research output: Contribution to journal › Journal article › Research › peer-review

    37. Alleles of a polymorphic ETV6 binding site in DCDC2 confer risk of reading and language impairment

      Powers, N. R., Eicher, J. D., Butter, F., Kong, Y., Miller, L. L., Ring, S. M., Mann, Matthias & Gruen, J. R., 11 Jul 2013, In: American Journal of Human Genetics. 93, 1, p. 19-28 10 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    38. Published

      AlphaMap: an open-source Python package for the visual annotation of proteomics data with sequence-specific knowledge

      Voytik, E., Bludau, I., Willems, S., Hansen, F. M., Brunner, A., Strauss, Maximilian & Mann, Matthias, 2022, In: Bioinformatics. 38, 3, p. 849-852

      Research output: Contribution to journal › Journal article › Research › peer-review

    39. Published

      AlphaPeptDeep: a modular deep learning framework to predict peptide properties for proteomics

      Zeng, W. F., Zhou, X. X., Willems, S., Ammar, C., Wahle, M., Bludau, I., Voytik, E., Strauss, Maximilian & Mann, Matthias, 2022, In: Nature Communications. 13, 14 p., 7238.

      Research output: Contribution to journal › Journal article › Research › peer-review

    40. Published

      AlphaPeptStats: an open-source Python package for automated and scalable statistical analysis of mass spectrometry-based proteomics

      Krismer, Elena, Bludau, I., Strauss, Maximilian & Mann, Matthias, 2023, In: Bioinformatics. 39, 8, 4 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    41. AlphaTims: Indexing Trapped Ion Mobility Spectrometry-TOF Data for Fast and Easy Accession and Visualization

      Willems, S., Voytik, E., Skowronek, P., Strauss, Maximilian & Mann, Matthias, 2021, In: Molecular and Cellular Proteomics. 20, p. 100149

      Research output: Contribution to journal › Journal article › Research › peer-review

    42. Amyloid-like aggregating proteins cause lysosomal defects in neurons via gain-of-function toxicity

      Riera-Tur, I., Schäfer, T., Hornburg, D., Mishra, A., da Silva Padilha, M., Fernández-Mosquera, L., Feigenbutz, D., Auer, P., Mann, Matthias, Baumeister, W., Klein, R., Meissner, F., Raimundo, N., Fernández-Busnadiego, R. & Dudanova, I., Mar 2022, In: Life Science Alliance. 5, 3

      Research output: Contribution to journal › Journal article › Research › peer-review

    43. An atlas of the aging lung mapped by single cell transcriptomics and deep tissue proteomics

      Angelidis, I., Simon, L. M., Fernandez, I. E., Strunz, M., Mayr, C. H., Greiffo, F. R., Tsitsiridis, G., Ansari, M., Graf, E., Strom, T., Nagendran, M., Desai, T., Eickelberg, O., Mann, Matthias, Theis, F. J. & Schiller, H. B., 27 Feb 2019, In: Nature Communications. 10, 1, p. 963

      Research output: Contribution to journal › Journal article › Research › peer-review

    44. Analysis of RANK-c interaction partners identifies TRAF3 as a critical regulator of breast cancer aggressiveness

      Sirinian, C., Papanastasiou, A. D., Karayel, O., Degn, S. E., Peroukidis, S., Chaniotis, D., Nonni, A., Repanti, M., Kriegsmann, M., Makatsoris, T., Koutras, A., Mann, Matthias & Kalofonos, H. P., Nov 2022, In: Neoplasia (New York, N.Y.). 33, p. 100836

      Research output: Contribution to journal › Journal article › Research › peer-review

    45. Published

      Andromeda - a peptide search engine integrated into the MaxQuant environment

      Cox, J., Neuhauser, N., Michalski, A., Scheltema, R. A., Olsen, Jesper Velgaard & Mann, Matthias, 1 Apr 2011, In: Journal of Proteome Research. 10, 4, p. 1794-805 9 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    46. Antisense-mediated exon skipping: a therapeutic strategy for titin-based dilated cardiomyopathy

      Gramlich, M., Pane, L. S., Zhou, Q., Chen, Z., Murgia, M., Schötterl, S., Goedel, A., Metzger, K., Brade, T., Parrotta, E., Schaller, M., Gerull, B., Thierfelder, L., Aartsma-Rus, A., Labeit, S., Atherton, J. J., McGaughran, J., Harvey, R. P., Sinnecker, D., Mann, M. & 3 others, Laugwitz, K., Gawaz, M. P. & Moretti, A., 9 Mar 2015, In: EMBO Molecular Medicine. 7, 5, p. 562-576 15 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    47. Artificial intelligence for proteomics and biomarker discovery

      Mann, Matthias, Kumar, C., Zeng, W. & Strauss, M. T., 18 Aug 2021, In: Cell Systems. 12, 8, p. 759-770 12 p.

      Research output: Contribution to journal › Review › Research › peer-review

    48. Published

      Artificial intelligence in mass spectrometry-based proteomics

      Zeng, W. F., Mann, Matthias & Strauss, Maximilian, 2024, Artificial Intelligence in Clinical Practice: How AI Technologies Impact Medical Research and Clinics. Elsevier, p. 389-394 6 p.

      Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review

    49. Published

      Association of Complement and MAPK Activation With SARS-CoV-2-Associated Myocardial Inflammation

      Weckbach, L. T., Schweizer, L., Kraechan, A., Bieber, S., Ishikawa-Ankerhold, H., Hausleiter, J., Massberg, S., Straub, T., Klingel, K., Grabmaier, U., Zwiebel, M., Mann, Matthias & Schulz, C., 2022, In: JAMA Cardiology. 7, 3, p. 286-297 12 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    50. Atomic-resolution mapping of transcription factor-DNA interactions by femtosecond laser crosslinking and mass spectrometry

      Reim, A., Ackermann, R., Font-Mateu, J., Kammel, R., Beato, M., Nolte, S., Mann, Matthias, Russmann, C. & Wierer, M., 15 Jun 2020, In: Nature Communications. 11, 1, p. 3019

      Research output: Contribution to journal › Journal article › Research › peer-review

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