Matthias Mann

Matthias Mann

Professor, head of research, Professor

Member of:

    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

    51. Published

      Atorvastatin for prevention of disease progression and hospitalisation in liver cirrhosis: protocol for a randomised, double-blind, placebo-controlled trial

      Kimer, N., Grønbæk, H., Fred, Rikard Göran, Hansen, Torben, Deshmukh, Atul Shahaji, Mann, Matthias & Bendtsen, Flemming, 2020, In: BMJ Open. 10, 1, 7 p., e035284.

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

    52. Published

      BoxCar acquisition method enables single-shot proteomics at a depth of 10,000 proteins in 100 minutes

      Meier, F., Geyer, P. E., Virreira Winter, S., Cox, J. & Mann, Matthias, 2018, In: Nature Methods. 15, 6, p. 440-448 9 p.

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

    53. Published

      C/EBPα creates elite cells for iPSC reprogramming by upregulating Klf4 and increasing the levels of Lsd1 and Brd4

      Di Stefano, B., Collombet, S., Jakobsen, J. S., Wierer, M., Sardina, J. L., Lackner, A., Stadhouders, R., Segura-Morales, C., Francesconi, M., Limone, F., Mann, Matthias, Porse, Bo Torben, Thieffry, D. & Graf, T., Apr 2016, In: Nature Cell Biology. 18, 4, p. 371-81 11 p.

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

    54. C9ORF72 interaction with cofilin modulates actin dynamics in motor neurons

      Sivadasan, R., Hornburg, D., Drepper, C., Frank, N., Jablonka, S., Hansel, A., Lojewski, X., Sterneckert, J., Hermann, A., Shaw, P. J., Ince, P. G., Mann, Matthias, Meissner, F. & Sendtner, M., Dec 2016, In: Nature Neuroscience. 19, 12, p. 1610-1618 9 p.

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

    55. CRL2(Lrr1) promotes unloading of the vertebrate replisome from chromatin during replication termination

      Dewar, J. M., Low, E., Mann, Matthias, Räschle, M. & Walter, J. C., 1 Feb 2017, In: Genes & Development. 31, 3, p. 275-290 16 p.

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

    56. Published

      Catching Lipid Droplet Contacts by Proteomics

      Krahmer, N. & Mann, Matthias, 2019, In: Contact. 2, p. 1-8 8 p.

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

    57. Published

      Cell-Type- and Brain-Region-Resolved Mouse Brain Lipidome

      Fitzner, D., Bader, J. M., Penkert, H., Bergner, C. G., Su, M., Weil, M., Surma, M. A., Mann, Matthias, Klose, C. & Simons, M., 2020, In: Cell Reports. 32, 21 p., 108132.

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

    58. Circadian control of oscillations in mitochondrial rate-limiting enzymes and nutrient utilization by PERIOD proteins

      Neufeld-Cohen, A., Robles, M. S., Aviram, R., Manella, G., Adamovich, Y., Ladeuix, B., Nir, D., Rousso-Noori, L., Kuperman, Y., Golik, M., Mann, Matthias & Asher, G., 22 Mar 2016, In: Proceedings of the National Academy of Sciences of the United States of America. 113, 12, p. E1673-82

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

    59. Circular non-coding RNA ANRIL modulates ribosomal RNA maturation and atherosclerosis in humans

      Holdt, L. M., Stahringer, A., Sass, K., Pichler, G., Kulak, N. A., Wilfert, W., Kohlmaier, A., Herbst, A., Northoff, B. H., Nicolaou, A., Gäbel, G., Beutner, F., Scholz, M., Thiery, J., Musunuru, K., Krohn, K., Mann, Matthias & Teupser, D., 19 Aug 2016, In: Nature Communications. 7, p. 12429

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

    60. Published

      Circulating Glucagon 1-61 Regulates Blood Glucose by Increasing Insulin Secretion and Hepatic Glucose Production

      Albrechtsen, N. J. W., Kuhre, R. E., Hornburg, D., Jensen, C. Z., Hornum, M., Dirksen, C., Svane, M., Gasbjerg, L. S., Jorgensen, N. B., Gabe, M. N., Balk-Moller, E., Albrechtsen, R., Winther-Sorensen, M., Galsgaard, K. D., Meissner, F., Jorsal, T., Lund, A., Vilsboll, T., Eliasen, R., Bojsen-Moller, K. N. & 9 others, Idorn, T., Deacon, Carolyn F., Knop, Filip Krag, Rosenkilde, Mette, Hartmann, Bolette, Feldt-Rasmussen, Bo, Mann, Matthias, Madsbad, Sten & Holst, Jens Juul, Nov 2017, In: Cell Reports. 21, 6, p. 1452-1460

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

    61. Published

      Cohort profile: the MUNICH Preterm and Term Clinical study (MUNICH-PreTCl), a neonatal birth cohort with focus on prenatal and postnatal determinants of infant and childhood morbidity

      Pangratz-Fuehrer, S., Genzel-Boroviczény, O., Bodensohn, W. E., Eisenburger, R., Scharpenack, J., Geyer, P. E., Müller-Reif, J. B., van Hagen, N., Müller, A. M., Jensen, Majken Karoline, Klein, C., Mann, Matthias & Nussbaum, C., 2021, In: BMJ Open. 11, 6, 13 p., e050652.

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

    62. E-pub ahead of print

      Comparative quantitative proteomic analysis of melanoma subtypes, nevus-associated melanoma, and corresponding nevi

      Naimy, S., Sølberg, J. B. K., Kuczek, D. E., Løvendorf, Marianne Bengtson, Bzorek, M., Litman, Thomas, Mund, Andreas, Gjerdrum, Lise Mette Rahbek, Clark, R. A., Mann, Matthias & Dyring-Andersen, Beatrice, 5 Jan 2024, (E-pub ahead of print) In: The Journal of Investigative Dermatology.

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

    63. Compartment-resolved Proteomic Analysis of Mouse Aorta during Atherosclerotic Plaque Formation Reveals Osteoclast-specific Protein Expression

      Wierer, M., Prestel, M., Schiller, H., Yan, G., Schaab, C., Azghandi, S., Werner, J., Kessler, T., Malik, R., Murgia, M., Aherrahrou, Z., Schunkert, H., Dichgans, M. & Mann, Matthias, Feb 2018, In: Molecular and Cellular Proteomics.

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

    64. Published

      Comprehensive chromatin proteomics resolves functional phases of pluripotency and identifies changes in regulatory components

      Ugur, E., de la Porte, A., Qin, W., Bultmann, S., Ivanova, A., Drukker, M., Mann, Matthias, Wierer, M. & Leonhardt, H., 2023, In: Nucleic Acids Research. 51, 6, p. 2671-2690 20 p.

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

    65. Published

      Consistency across multi-omics layers in a drug-perturbed gut microbial community

      Wuyts, S., Alves, R., Zimmermann-Kogadeeva, M., Nishijima, S., Blasche, S., Driessen, M., Geyer, P. E., Hercog, R., Kartal, E., Maier, L., Müller, J. B., Garcia Santamarina, S., Schmidt, T. S. B., Sevin, D. C., Telzerow, A., Treit, P. V., Wenzel, T., Typas, A., Patil, K. R., Mann, M. & 2 others, Kuhn, M. & Bork, P., 2023, In: Molecular Systems Biology. 19, 9, 17 p., e11525.

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

    66. Published

      Constructing a cell-type resolved human liver proteome atlas: THU-034

      Niu, Lili, Geyer, P. & Mann, Matthias, 2018, In: Journal of Hepatology. 68, p. S138-S139

      Research output: Contribution to journal › Conference abstract in journal › Research › peer-review

    67. Published

      Correction to Feasibility of Large-Scale Phosphoproteomics with Higher Energy Collisional Dissociation Fragmentation

      Nagaraj, N., D'Souza, R. C. J., Cox, J., Olsen, Jesper Velgaard & Mann, Matthias, 2012, In: Journal of Proteome Research.

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

    68. Cortical circuit alterations precede motor impairments in Huntington's disease mice

      Burgold, J., Schulz-Trieglaff, E. K., Voelkl, K., Gutiérrez-Ángel, S., Bader, J. M., Hosp, F., Mann, Matthias, Arzberger, T., Klein, R., Liebscher, S. & Dudanova, I., 29 Apr 2019, In: Scientific Reports. 9, 1, p. 6634

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

    69. Cotranslational N-degron masking by acetylation promotes proteome stability in plants

      Linster, E., Forero Ruiz, F. L., Miklankova, P., Ruppert, T., Mueller, J., Armbruster, L., Gong, X., Serino, G., Mann, Matthias, Hell, R. & Wirtz, M., 2022, In: Nature Communications. 13, 1, p. 810

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

    70. Cryo-EM structures of Gid12-bound GID E3 reveal steric blockade as a mechanism inhibiting substrate ubiquitylation

      Qiao, S., Lee, C., Sherpa, D., Chrustowicz, J., Cheng, J., Duennebacke, M., Steigenberger, B., Karayel, O., Vu, D. T., von Gronau, S., Mann, Matthias, Wilfling, F. & Schulman, B. A., 2022, In: Nature Communications. 13, 3041.

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

    71. Cytoplasmic protein aggregates interfere with nucleocytoplasmic transport of protein and RNA

      Woerner, A. C., Frottin, F., Hornburg, D., Feng, L. R., Meissner, F., Patra, M., Tatzelt, J., Mann, Matthias, Winklhofer, K. F., Hartl, F. U. & Hipp, M. S., 8 Jan 2016, In: Science (New York, N.Y.). 351, 6269, p. 173-6 4 p.

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

    72. Published

      Cytosolic Ptbp2 modulates axon growth in motoneurons through axonal localization and translation of Hnrnpr

      Salehi, S., Zare, A., Prezza, G., Bader, J., Schneider, C., Fischer, U., Meissner, F., Mann, Matthias, Briese, M. & Sendtner, M., 2023, In: Nature Communications. 14, 19 p., 4158.

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

    73. Published

      D13 Saliva biomarker discovery in Huntington’s disease

      Qvist, Filippa Liliendahl, Hellem, M. N., Nielsen, Jørgen Erik, Mann, Matthias & Skotte, Niels Henning, 2022, In: Journal of Neurology, Neurosurgery and Psychiatry. 93, Suppl. 1, p. A24-A25

      Research output: Contribution to journal › Conference abstract in journal › Research › peer-review

    74. DEAD box protein DDX1 regulates cytoplasmic localization of KSRP

      Chou, C., Lin, W., Lin, C., Luber, C. A., Godbout, R., Mann, Matthias & Chen, C., 4 Sep 2013, In: P L o S One. 8, 9, e73752.

      Research output: Contribution to journal › Journal article › Research

    75. DIA-based systems biology approach unveils E3 ubiquitin ligase-dependent responses to a metabolic shift

      Karayel, O., Michaelis, A. C., Mann, Matthias, Schulman, B. A. & Langlois, C. R., 22 Dec 2020, In: Proceedings of the National Academy of Sciences of the United States of America. 117, 51, p. 32806-32815 10 p.

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

    76. Data-independent acquisition method for ubiquitinome analysis reveals regulation of circadian biology

      Hansen, F. M., Tanzer, M. C., Brüning, F., Bludau, I., Stafford, C., Schulman, B. A., Robles, M. S., Karayel, O. & Mann, Matthias, 11 Jan 2021, In: Nature Communications. 12, 1, p. 254

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

    77. Published

      Decoding signalling networks by mass spectrometry-based proteomics

      Choudhary, Chunaram & Mann, Matthias, 1 Jun 2010, In: Nature Reviews. Molecular Cell Biology. 11, 6, p. 427-39 13 p.

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

    78. Deep Proteome Profiling Reveals Common Prevalence of MZB1-positive Plasma B Cells in Human Lung and Skin Fibrosis

      Schiller, H. B., Mayr, C. H., Leuschner, G., Strunz, M., Staab-Weijnitz, C., Preisendörfer, S., Eckes, B., Moinzadeh, P., Krieg, T., Schwartz, D. A., Hatz, R. A., Behr, J., Mann, Matthias & Eickelberg, O., 2017, In: American Journal of Respiratory and Critical Care Medicine. 196, 10, p. 1298–1310

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

    79. Deep Proteomics of Breast Cancer Cells Reveals that Metformin Rewires Signaling Networks Away from a Pro-growth State

      Sacco, F., Silvestri, A., Posca, D., Pirrò, S., Gherardini, P. F., Castagnoli, L., Mann, Matthias & Cesareni, G., 23 Mar 2016, In: Cell Systems. 2, 3, p. 159-71 13 p.

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

    80. Published

      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. & 1 others, Mann, Matthias, 2022, In: Nature Biotechnology. 40, p. 1231-1240

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

    81. Deep learning the collisional cross sections of the peptide universe from a million experimental values

      Meier, F., Köhler, N. D., Brunner, A. D., Wanka, J. M. H., Voytik, E., Strauss, M. T., Theis, F. J. & Mann, Matthias, 2021, In: Nature Communications. 12, 12 p., 1185.

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

    82. Published

      Deep muscle-proteomic analysis of freeze-dried human muscle biopsies reveals fiber type-specific adaptations to exercise training

      Deshmukh, Atul Shahaji, Steenberg, D. E., Hostrup, Morten, Birk, Jesper Bratz, Larsen, Jeppe Kjærgaard, Santos, A., Kjøbsted, Rasmus, Hingst, J. R., Schéele, Camilla Charlotte Nielsen, Murgia, M., Kiens, Bente, Richter, Erik A., Mann, Matthias & Wojtaszewski, Jørgen F P, 2021, In: Nature Communications. 12, 15 p., 304.

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

    83. Published

      Deep proteomics of mouse skeletal muscle enables quantitation of protein isoforms, metabolic pathways and transcription factors

      Deshmukh, Atul Shahaji, Murgia, M., Nagaraja, N., Treebak, Jonas Thue, Cox, J. & Mann, Matthias, Apr 2015, In: Molecular and Cellular Proteomics. 14, 4, p. 841-853

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

    84. Defective glycosylation and multisystem abnormalities characterize the primary immunodeficiency XMEN disease

      Ravell, J. C., Matsuda-Lennikov, M., Chauvin, S. D., Zou, J., Biancalana, M., Deeb, S. J., Price, S., Su, H. C., Notarangelo, G., Jiang, P., Morawski, A., Kanellopoulou, C., Binder, K. W., Mukherjee, R., Anibal, J. T., Sellers, B., Zheng, L., He, T., George, A. B., Pittaluga, S. & 34 others, Powers, A., Kleiner, D. E., Kapuria, D., Ghany, M., Hunsberger, S., Cohen, J. I., Uzel, G., Bergerson, J., Wolfe, L., Toro, C., Gahl, W., Folio, L. R., Matthews, H., Angelus, P., Chinn, I. K., Orange, J. S., Trujillo-Vargas, C. M., Franco, J. L., Orrego-Arango, J., Gutiérrez-Hincapié, S., Patel, N. C., Raymond, K., Patiroglu, T., Unal, E., Karakukcu, M., Day, A. G., Mehta, P., Masutani, E., De Ravin, S. S., Malech, H. L., Altan-Bonnet, G., Rao, V. K., Mann, Matthias & Lenardo, M. J., 5 Nov 2019, (E-pub ahead of print) In: The Journal of Clinical Investigation.

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

    85. Published

      Defining NASH from a multi-omics systems biology perspective

      Niu, Lili, Sulek, K., Vasilopoulou, C. G., Santos, A., Albrechtsen, Nicolai Jacob Wewer, Rasmussen, Simon, Meier, F. & Mann, Matthias, 2021, In: Journal of Clinical Medicine. 10, 20, 22 p., 4673.

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

    86. Defining the RBPome of primary T helper cells to elucidate higher-order Roquin-mediated mRNA regulation

      Hoefig, K. P., Reim, A., Gallus, C., Wong, E. H., Behrens, G., Conrad, C., Xu, M., Kifinger, L., Ito-Kureha, T., Defourny, K. A. Y., Geerlof, A., Mautner, J., Hauck, S. M., Baumjohann, D., Feederle, R., Mann, Matthias, Wierer, M., Glasmacher, E. & Heissmeyer, V., 1 Sep 2021, In: Nature Communications. 12, 1, p. 5208

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

    87. Published

      Democratizing knowledge representation with BioCypher

      Lobentanzer, S., Aloy, P., Baumbach, J., Bohar, B., Carey, V. J., Charoentong, P., Danhauser, K., Doğan, T., Dreo, J., Dunham, I., Farr, E., Fernandez-Torras, A., Gyori, B. M., Hartung, M., Hoyt, C. T., Klein, C., Korcsmaros, T., Maier, A., Mann, M., Ochoa, D. & 12 others, Pareja-Lorente, E., Popp, F., Preusse, M., Probul, N., Schwikowski, B., Sen, B., Strauss, Maximilian, Turei, D., Ulusoy, E., Waltemath, D., Wodke, J. A. H. & Saez-Rodriguez, J., 2023, In: Nature Biotechnology. 41, p. 1056-1059

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

    88. Development of phospho-specific Rab protein antibodies to monitor in vivo activity of the LRRK2 Parkinson's disease kinase

      Lis, P., Burel, S., Steger, M., Mann, Matthias, Brown, F., Diez, F., Tonelli, F., Holton, J. L., Ho, P. W., Ho, S., Chou, M., Polinski, N. K., Martinez, T. N., Davies, P. & Alessi, D. R., Jan 2018, In: Biochemical Journal. 475, 1, 22 p.

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

    89. Published

      Development, use, application of novel TIMS-Tof system

      Mann, Matthias, 2019, In: Molecular & Cellular Proteomics. 18, 8, p. S20 1 p.

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

    90. Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry

      Bassani-Sternberg, M., Bräunlein, E., Klar, R., Engleitner, T., Sinitcyn, P., Audehm, S., Straub, M., Weber, J., Slotta-Huspenina, J., Specht, K., Martignoni, M. E., Werner, A., Hein, R., H Busch, D., Peschel, C., Rad, R., Cox, J., Mann, Matthias & Krackhardt, A. M., 21 Nov 2016, In: Nature Communications. 7, p. 13404

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

    91. Direct proteomic quantification of the secretome of activated immune cells

      Meissner, F., Scheltema, R. A., Mollenkopf, H. & Mann, Matthias, 26 Apr 2013, In: Science (New York, N.Y.). 340, 6131, p. 475-8 4 p.

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

    92. Published

      Distinct signaling by insulin and IGF-1 receptors and their extra- and intracellular domains

      Nagao, H., Cai, W., Albrechtsen, Nicolai Jacob Wewer, Steger, M., Batista, T. M., Pan, H., Dreyfuss, J. M., Mann, Matthias & Kahn, C. R., 2021, In: Proceedings of the National Academy of Sciences of the United States of America. 118, 17, e2019474118.

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

    93. Published

      Dynamic human liver proteome atlas reveals functional insights into disease pathways

      Niu, Lili, Geyer, P. E., Gupta, R., Santos, A., Meier, F., Doll, S., Albrechtsen, Nicolai Jacob Wewer, Klein, S., Ortiz, C., Uschner, F. E., Schierwagen, R., Trebicka, J. & Mann, Matthias, 2022, In: Molecular Systems Biology. 18, 5, 24 p., e10947.

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

    94. Dynamics in protein translation sustaining T cell preparedness

      Wolf, T., Jin, W., Zoppi, G., Vogel, I. A., Akhmedov, M., Bleck, C. K. E., Beltraminelli, T., Rieckmann, J. C., Ramirez, N. J., Benevento, M., Notarbartolo, S., Bumann, D., Meissner, F., Grimbacher, B., Mann, Matthias, Lanzavecchia, A., Sallusto, F., Kwee, I. & Geiger, R., 6 Jul 2020, (E-pub ahead of print) In: Nature Immunology.

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

    95. Published

      EASI-tag enables accurate multiplexed and interference-free MS2-based proteome quantification

      Virreira Winter, S., Meier, F., Wichmann, C., Cox, J., Mann, Matthias & Meissner, F., 2018, In: Nature Methods. 15, 7, p. 527-530 4 p.

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

    96. Published

      Effective representation and storage of mass spectrometry-based proteomic data sets for the scientific community

      Olsen, Jesper Velgaard & Mann, Matthias, 1 Jan 2011, In: Science Signaling. 4, 160, p. pe7

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

    97. Published

      Efficient mitotic checkpoint signaling depends on integrated activities of Bub1 and the RZZ complex

      Zhang, G., Kruse, Thomas, Guasch Boldú, C., Garvanska, Dimitriya Hristoforova, Coscia, F., Mann, Matthias, Barisic, Marin & Nilsson, Jakob, 2019, In: E M B O Journal. 38, 7, e100977.

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

    98. Published

      Erratum: Evidence of extrapancreatic glucagon secretion in man. Diabetes 2016;65:585-597

      Lund, Asger Bach, Bagger, J. I., Albrechtsen, Nicolai Jacob Wewer, Christensen, M., Grøndahl, M., Hartmann, Bolette, Mathiesen, Elisabeth, Hansen, C. P., Storkholm, J. H., van Hall, Gerrit, Rehfeld, Jens Frederik, Hornburg, D., Meissner, F., Mann, Matthias, Larsen, S., Holst, Jens Juul, Vilsbøll, Tina & Knop, Filip Krag, 1 Jun 2016, In: Diabetes. 65, 6, p. 1752 1 p.

      Research output: Contribution to journal › Comment/debate › Research › peer-review

    99. Published

      Error-tolerant identification of peptides in sequence databases by peptide sequence tags

      Mann, Matthias & Wilm, M., 15 Dec 1994, In: Analytical Chemistry. 66, 24, p. 4390-9 10 p.

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

    100. Published

      Ethical Principles, Constraints and Opportunities in Clinical Proteomics

      Porsdam Mann, Sebastian, Treit, P. V., Geyer, P. E., Omenn, G. S. & Mann, Matthias, 2021, In: Molecular and Cellular Proteomics. 20, 14 p., 100046.

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

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