Johan Malmström

Professor, PhD
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  1. 1998
  2. 2001
  3. 2002
  4. On-chip microextraction for proteomic sample preparation of in-gel digests

    Simon Ekström, Johan Malmström, Lars Wallman, Löfgren, M., Johan Nilsson, Thomas Laurell & György Marko-Varga, 2002 Apr, In : Proteomics. 2, 4, p. 413-421 9 p.

    Research output: Contribution to journalArticle

  5. ESI and MALDI LC/MS-MS approaches for large scale protein, identification and quantification: Are they equivalent?

    Juhasz, P., Falick, A., Graber, A., Hattan, S., Khainovski, N., Marchese, J., Martin, S., Patterson, D., Williamson, B., J. Malmstrom, G. Westergren-Thorsson & G. Marko-Varga, 2002 Dec 1, p. 55-56. 2 p.

    Research output: Contribution to conferencePaper, not in proceeding

  6. 2003
  7. Functional Proteome analysis of the molecular mechanism of (myo)fibroblast differentiation

    Johan Malmström, 2003, Johan Malmström, BMC C13, 221 84 Lund,. 209 p.

    Research output: ThesisDoctoral Thesis (compilation)

  8. Targeting hepatocytes from liver tissue by laser capture microdissection and proteomics expression profiling.

    György Marko-Varga, Berglund, M., Johan Malmström, Lindberg, H. & Fehniger, T. E., 2003, In : Electrophoresis. 24, 21, p. 3800-3805

    Research output: Contribution to journalArticle

  9. 2004
  10. Exploring the context of the lung proteome within the airway mucosa following allergen challenge.

    Fehniger, T. E., Sato-Folatre, J-G., Johan Malmström, Berglund, M., Lindberg, C., Brange, C., Lindberg, H. & Marko-Varga, G., 2004, In : Journal of Proteome Research. 3, 2, p. 307-320

    Research output: Contribution to journalReview article

  11. Proteome annotations and identifications of the human pulmonary fibroblast.

    Johan Malmström, Larsen, K., Lars Malmström, Ellen Tufvesson, Parker, K., Marchese, J., Williamson, B., Hattan, S., Patterson, D., Martin, S., Graber, A., Juhasz, H. P., Gunilla Westergren-Thorsson & György Marko-Varga, 2004, In : Journal of Proteome Research. 3, 3, p. 525-537

    Research output: Contribution to journalArticle

  12. Transforming growth factor-beta 1 specifically induce proteins involved in the myofibroblast contractile apparatus

    Johan Malmström, Henrik Lindberg, Lindberg, C., Charlotte Bratt, Elisabet Wieslander, Delander, E-L., Särnstrand, B., Burns, J. S., Mose-Larsen, P., Fey, S. & György Marko-Varga, 2004 May, In : Molecular & Cellular Proteomics. 3, 5, p. 466-477 12 p.

    Research output: Contribution to journalArticle

  13. 2005
  14. Proteomics: A new research area for the biomedical field

    Johan Malmström, Lars Malmström & György Marko-Varga, 2005 Jan 1, In : Journal of Organ Dysfunction. 1, 1, p. 83-94 12 p.

    Research output: Contribution to journalArticle

  15. Chapter 14 Proteomics and remodeling of extracellular matrix in lung diseases

    Johan Malmström, 2005 Dec 1, Proteomics and Peptidomics: New Technology Platforms Elucidating Biology. Marko-Varga, V. (ed.). p. 535-556 22 p. (Comprehensive Analytical Chemistry; vol. 46).

    Research output: Chapter in Book/Report/Conference proceedingBook chapter

  16. 2006
  17. Biosynthesis of dermatan sulfate: Chondroitin glucuronate C5-epimerase is identical to SART2.

    Maccarana, M., Olander, B., Johan Malmström, Tiedemann, K., Aebersold, R., Lindahl, U., Li, J-P. & Anders Malmström, 2006, In : Journal of Biological Chemistry. 281, 17, p. 11560-11568

    Research output: Contribution to journalArticle

  18. Optimized peptide separation and identification for mass spectrometry based proteomics via free-flow electrophoresis

    Johan Malmström, Lee, H., Nesvizhskii, A. I., Shteynberg, D., Mohanty, S., Brunner, E., Ye, M., Weber, G., Eckerskorn, C. & Aebersold, R., 2006 Sep, In : Journal of Proteome Research. 5, 9, p. 2241-9 9 p.

    Research output: Contribution to journalArticle

  19. 2007
  20. PhosphoPep--a phosphoproteome resource for systems biology research in Drosophila Kc167 cells

    Bodenmiller, B., Johan Malmström, Gerrits, B., Campbell, D., Lam, H., Schmidt, A., Rinner, O., Mueller, L. N., Shannon, P. T., Pedrioli, P. G. A., Panse, C., Lee, H-K., Schlapbach, R. & Aebersold, R., 2007, In : Molecular Systems Biology. 3, 139.

    Research output: Contribution to journalArticle

  21. A high-quality catalog of the Drosophila melanogaster proteome

    Brunner, E., Ahrens, C. H., Mohanty, S., Baetschmann, H., Loevenich, S., Potthast, F., Deutsch, E. W., Panse, C., de Lichtenberg, U., Rinner, O., Lee, H., Pedrioli, P. G. A., Malmstrom, J., Koehler, K., Schrimpf, S., Krijgsveld, J., Kregenow, F., Heck, A. J. R., Hafen, E., Schlapbach, R. & 1 othersAebersold, R., 2007 May, In : Nature Biotechnology. 25, 5, p. 576-83 8 p.

    Research output: Contribution to journalArticle

  22. Advances in proteomic workflows for systems biology

    Johan Malmström, Lee, H. & Aebersold, R., 2007 Aug, In : Current Opinion in Biotechnology. 18, 4, p. 378-84 7 p.

    Research output: Contribution to journalArticle

  23. Simian Virus 40 depends on ER protein folding and quality control factors for entry into host cells

    Schelhaas, M., Johan Malmström, Pelkmans, L., Haugstetter, J., Ellgaard, L., Grünewald, K. & Helenius, A., 2007 Nov 2, In : Cell. 131, 3, p. 516-29 14 p.

    Research output: Contribution to journalArticle

  24. Two-dimensional separation of human plasma proteins using iterative free-flow electrophoresis

    Nissum, M., Kuhfuss, S., Hauptmann, M., Obermaier, C., Sukop, U., Wildgruber, R., Weber, G., Eckerskorn, C. & Johan Malmström, 2007 Dec, In : Proteomics. 7, 23, p. 4218-27 10 p.

    Research output: Contribution to journalArticle

  25. 2008
  26. Targeted quantitative analysis of Streptococcus pyogenes virulence factors by multiple reaction monitoring

    Lange, V., Johan A. Malmstroem, Didion, J., King, N. L., Johansson, B., Schaefer, J., Rameseder, J., Wong, C-H., Deutsch, E. W., Brusniak, M-Y., Buehlmann, P., Lars Björck, Domon, B. & Aebersold, R., 2008, In : Molecular & Cellular Proteomics. 7, 8, p. 1489-1500

    Research output: Contribution to journalArticle

  27. Rtt101 and Mms1 in budding yeast form a CUL4(DDB1)-like ubiquitin ligase that promotes replication through damaged DNA

    Zaidi, I. W., Rabut, G., Poveda, A., Scheel, H., Johan Malmström, Ulrich, H., Hofmann, K., Pasero, P., Peter, M. & Luke, B., 2008 Oct, In : EMBO Reports. 9, 10, p. 1034-40 7 p.

    Research output: Contribution to journalArticle

  28. 2009
  29. Comparative functional analysis of the Caenorhabditis elegans and Drosophila melanogaster proteomes

    Schrimpf, S. P., Weiss, M., Reiter, L., Ahrens, C. H., Jovanovic, M., Johan Malmström, Brunner, E., Mohanty, S., Lercher, M. J., Hunziker, P. E., Aebersold, R., von Mering, C. & Hengartner, M. O., 2009 Mar 3, In : PLoS Biology. 7, 3, e48.

    Research output: Contribution to journalArticle

  30. Proteome-wide cellular protein concentrations of the human pathogen Leptospira interrogans

    Johan Malmström, Beck, M., Schmidt, A., Lange, V., Deutsch, E. W. & Aebersold, R., 2009 Aug 6, In : Nature. 460, 7256, p. 762-5 4 p.

    Research output: Contribution to journalLetter

  31. Visual proteomics of the human pathogen Leptospira interrogans

    Beck, M., Johan A Malmström, Lange, V., Schmidt, A., Deutsch, E. W. & Aebersold, R., 2009 Nov, In : Nature Methods. 6, 11, p. 817-23 7 p.

    Research output: Contribution to journalArticle

  32. Perspectives of targeted mass spectrometry for protein biomarker verification

    Hüttenhain, R., Johan Malmström, Picotti, P. & Aebersold, R., 2009 Dec, In : Current Opinion in Chemical Biology. 13, 5-6, p. 518-25 8 p.

    Research output: Contribution to journalArticle

  33. 2011
  34. Quantitative proteomics of microbes: Principles and applications to virulence

    Malmstroem, L., Johan Malmström & Aebersold, R., 2011, In : Proteomics. 11, 15, p. 2947-2956

    Research output: Contribution to journalReview article

  35. The quantitative proteome of a human cell line

    Beck, M., Schmidt, A., Johan Malmström, Claassen, M., Ori, A., Szymborska, A., Herzog, F., Rinner, O., Ellenberg, J. & Aebersold, R., 2011, In : Molecular Systems Biology. 7

    Research output: Contribution to journalArticle

  36. Absolute quantification of microbial proteomes at different states by directed mass spectrometry

    Schmidt, A., Beck, M., Johan Malmström, Lam, H., Claassen, M., Campbell, D. & Aebersold, R., 2011 Jul 19, In : Molecular Systems Biology. 7, p. 510

    Research output: Contribution to journalArticle

  37. A high-confidence human plasma proteome reference set with estimated concentrations in PeptideAtlas

    Farrah, T., Deutsch, E. W., Omenn, G. S., Campbell, D. S., Sun, Z., Bletz, J. A., Mallick, P., Katz, J. E., Johan Malmström, Ossola, R., Watts, J. D., Lin, B., Zhang, H., Moritz, R. L. & Aebersold, R., 2011 Sep, In : Molecular & Cellular Proteomics. 10, 9, p. M110.006353

    Research output: Contribution to journalArticle

  38. 2012
  39. Antibody orientation at bacterial surfaces is related to invasive infection.

    Pontus Nordenfelt, Waldemarson, S., Adam Linder, Mörgelin, M., Christofer Karlsson, Johan Malmström & Lars Björck, 2012, In : Journal of Experimental Medicine. 209, 13, p. 2367-2381

    Research output: Contribution to journalArticle

  40. Automated Selected Reaction Monitoring Software for Accurate Label-Free Protein Quantification.

    Teleman, J., Christofer Karlsson, Waldemarson, S., Hansson, K. M., Peter James, Johan Malmström & Fredrik Levander, 2012, In : Journal of Proteome Research. 11, 7, p. 3766-3773

    Research output: Contribution to journalArticle

  41. Automated Workflow for Large-Scale Selected Reaction Monitoring Experiments

    Malmstrom, L., Johan Malmström, Selevsek, N., Rosenberger, G. & Aebersold, R., 2012, In : Journal of Proteome Research. 11, 3, p. 1644-1653

    Research output: Contribution to journalArticle

  42. Protein Expression Changes in Ovarian Cancer during the Transition from Benign to Malignant.

    Waldemarson, S., Krogh, M., Alaiya, A., Kirik, U., Schedvins, K., Auer, G., Hansson, K. M., Ossola, R., Aebersold, R., Lee, H., Johan Malmström & Peter James, 2012, In : Journal of Proteome Research. 11, 5, p. 2876-2889

    Research output: Contribution to journalArticle

  43. Streptococcus pyogenes in human plasma: adaptive mechanisms analyzed by mass spectrometry based proteomics.

    Johan Malmström, Christofer Karlsson, Pontus Nordenfelt, Ossola, R., Weisser, H., Quandt, A., Hansson, K., Aebersold, R., Malmstrom, L. & Lars Björck, 2012, In : Journal of Biological Chemistry. 287, 2, p. 1415-1425

    Research output: Contribution to journalArticle

  44. 2013
  45. A Novel Role for Pro-Coagulant Microvesicles in the Early Host Defense against Streptococcus pyogenes

    Oehmcke, S., Westman, J., Johan Malmström, Mörgelin, M., Olin, A., Kreikemeyer, B. & Heiko Herwald, 2013, In : PLoS Pathogens. 9, 8, e1003529.

    Research output: Contribution to journalArticle

  46. Automated quality control system for LC-SRM setups.

    Teleman, J., Waldemarson, S., Johan Malmström & Fredrik Levander, 2013, In : Journal of Proteomics. 95, Online 11 April 2013, p. 77-83

    Research output: Contribution to journalArticle

  47. 2014
  48. Data processing methods and quality control strategies for label-free LC-MS protein quantification.

    Sandin, M., Teleman, J., Johan Malmström & Fredrik Levander, 2014, In : Biochimica et biophysica acta. 1844, 1, p. 29-41

    Research output: Contribution to journalReview article

  49. Functional and Structural Properties of a Novel Protein and Virulence Factor (sHIP) in Streptococcus pyogenes.

    Wisniewska, M., Lotta Happonen, Fredrik Kahn, Varjosalo, M., Malmström, L., Rosenberger, G., Christofer Karlsson, Cazzamali, G., Pozdnyakova, I., Inga-Maria Frick, Lars Björck, Streicher, W., Johan Malmström & Wikström, M., 2014, In : Journal of Biological Chemistry. 289, 26, p. 18175-18188

    Research output: Contribution to journalArticle

  50. Numerical compression schemes for proteomics mass spectrometry data.

    Teleman, J., Dowsey, A. W., Gonzalez-Galarza, F. F., Perkins, S., Pratt, B., Rost, H., Malmstrom, L., Johan Malmström, Jones, A. R., Deutsch, E. W. & Levander, F., 2014, In : Molecular & Cellular Proteomics. 13, 6, p. 1537-1542

    Research output: Contribution to journalArticle

  51. OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data.

    Röst, H. L., Rosenberger, G., Navarro, P., Gillet, L., Miladinović, S. M., Schubert, O. T., Wolski, W., Collins, B. C., Johan Malmström, Malmström, L. & Aebersold, R., 2014, In : Nature Biotechnology. 32, 3, p. 219-223

    Research output: Contribution to journalArticle

  52. Targeted mass spectrometry analysis of neutrophil-derived proteins released during sepsis progression.

    Erik Malmström, Davidova, A., Mörgelin, M., Adam Linder, Larsen, M., Qvortrup, K., Pontus Nordenfelt, Oonagh Shannon, Dzupova, O., Holub, M., Johan Malmström & Heiko Herwald, 2014, In : Thrombosis and Haemostasis. 112, 6, p. 1230-1243

    Research output: Contribution to journalArticle

  53. 2015
  54. A Combined Shotgun and Targeted Mass Spectrometry Strategy for Breast Cancer Biomarker Discovery

    Martin Sjöström, Ossola, R., Breslin, T., Rinner, O., Malmstroem, L., Schmidt, A., Aebersold, R., Johan Malmström & Emma Niméus, 2015, In : Journal of Proteome Research. 14, 7, p. 2807-2818

    Research output: Contribution to journalArticle

  55. Complete Removal of Extracellular IgG Antibodies in a Randomized Dose-Escalation Phase I Study with the Bacterial Enzyme IdeS - A Novel Therapeutic Opportunity.

    Winstedt, L., Järnum, S., Nordahl, E. A., Olsson, A., Runström, A., Bockermann, R., Christofer Karlsson, Johan Malmström, Samuelsson Palmgren, G., Malmqvist, U., Lars Björck & Kjellman, C., 2015, In : PLoS ONE. 10, 7, e0132011.

    Research output: Contribution to journalArticle

  56. Data Processing Has Major Impact on the Outcome of Quantitative Label-Free LC-MS Analysis

    Chawade, A., Sandin, M., Teleman, J., Johan Malmström & Fredrik Levander, 2015, In : Journal of Proteome Research. 14, 2, p. 676-687

    Research output: Contribution to journalArticle

  57. Development of Phage-Based Antibody Fragment Reagents for Affinity Enrichment of Bacterial Immunoglobulin G Binding Proteins.

    Säll, A., Sjöholm, K., Waldemarson, S., Lotta Happonen, Christofer Karlsson, Persson, H. & Johan Malmström, 2015, In : Journal of Proteome Research. 14, 11, p. 4704-4713

    Research output: Contribution to journalArticle

  58. DIANA - algorithmic improvements for analysis of data-independent acquisition MS data.

    Teleman, J., Röst, H., Rosenberger, G., Schmitt, U., Malmström, L., Johan Malmström & Fredrik Levander, 2015, In : Bioinformatics. 31, 4, p. 555-562

    Research output: Contribution to journalArticle

  59. Quantitative proteogenomics of human pathogens using DIA-MS.

    Malmström, L., Anahita Bakochi, Svensson Birkedal, G., Kilsgård, O., Lantz, H., Petersson, A. C., Hauri, S., Christofer Karlsson & Johan Malmström, 2015, In : Journal of Proteomics. 129, p. 98-107

    Research output: Contribution to journalArticle

  60. 2016
  61. Cancer associated proteins in blood plasma: Determining normal variation

    Stenemo, M., Teleman, J., Martin Sjöström, Grubb, G., Erik Malmström, Johan Malmström & Emma Niméus, 2016, In : Proteomics. 16, 13, p. 1928-1937 10 p.

    Research output: Contribution to journalArticle

  62. Structure and Interactions of a Dimeric Variant of sHIP, a Novel Virulence Determinant of Streptococcus pyogenes.

    Diehl, C., Wisniewska, M., Inga-Maria Frick, Streicher, W., Lars Björck, Johan Malmström & Wikström, M., 2016, In : Frontiers in Microbiology. 7, 95.

    Research output: Contribution to journalArticle

  63. Dinosaur: A Refined Open-Source Peptide MS Feature Detector

    Teleman, J., Chawade, A., Sandin, M., Fredrik Levander & Johan Malmström, 2016 Jul 1, In : Journal of Proteome Research. 15, 7, p. 2143-2151 9 p.

    Research output: Contribution to journalArticle

  64. Quantitative mass spectrometry to study inflammatory cartilage degradation and resulting interactions with the complement system

    Furst, C. M., Emma Åhrman, Bratteby, K., Waldemarson, S., Johan Malmström & Anna M. Blom, 2016 Oct 15, In : Journal of Immunology. 197, 8, p. 3415-3424 10 p.

    Research output: Contribution to journalArticle

  65. 2017
  66. Analysis of bacterial surface interactions with mass spectrometry-based proteomics

    Christofer Karlsson, Teleman, J. & Johan Malmström, 2017, Methods in Molecular Biology. Humana Press, Vol. 1535. p. 17-24 8 p. (Methods in Molecular Biology; vol. 1535).

    Research output: Chapter in Book/Report/Conference proceedingBook chapter

  67. The TLR2 Antagonist Staphylococcal Superantigen-Like Protein 3 Acts as a Virulence Factor to Promote Bacterial Pathogenicity in vivo

    Koymans, K. J., Goldmann, O., Christofer A Q Karlsson, Sital, W., Thänert, R., Bisschop, A., Vrieling, M., Johan Malmström, Kessel, K. P. M., de Haas, C. J. C., van Strijp, J. A. G. & Medina, E., 2017, In : Journal of Innate Immunity. 9, p. 561-573

    Research output: Contribution to journalArticle

  68. Improvements in Mass Spectrometry Assay Library Generation for Targeted Proteomics

    Teleman, J., Hauri, S. & Johan Malmström, 2017 Jul 7, In : Journal of Proteome Research. 16, 7, p. 2384-2392 9 p.

    Research output: Contribution to journalArticle

  69. Comprehensive Proteomic Characterization of Ontogenic Changes in Hematopoietic Stem and Progenitor Cells

    Maria Jassinskaja, Johansson, E., Trine Ahn Kristiansen, Hugo Åkerstrand, Sjöholm, K., Hauri, S., Johan Malmström, Joan Yuan & Jenny Hansson, 2017 Dec 12, In : Cell Reports. 21, 11, p. 3285-3297 13 p.

    Research output: Contribution to journalArticle

  70. 2018
  71. Development of large-scale cross-linking mass spectrometry

    Barysz, H. M. & Johan Malmstroem, 2018, In : Molecular and Cellular Proteomics. 17, 6, p. 1055-1066

    Research output: Contribution to journalReview article

  72. 2019
  73. The Human Salivary Antimicrobial Peptide Profile according to the Oral Microbiota in Health, Periodontitis and Smoking

    Grant, M., Kilsgård, O., Åkerman, S., Klinge, B., Demmer, R. T., Johan Malmström & Jönsson, D., 2019, In : Journal of Innate Immunity. 11, 5, p. 432-444

    Research output: Contribution to journalArticle

  74. Rapid determination of quaternary protein structures in complex biological samples

    Hauri, S., Khakzad, H., Lotta Happonen, Teleman, J., Johan Malmström & Lars Malmström, 2019 Jan 14, In : Nature Communications. 10, 192.

    Research output: Contribution to journalArticle

  75. Greedy de novo motif discovery to construct motif repositories for bacterial proteomes

    Khakzad, H., Johan Malmström & Lars Malmström, 2019 Apr 18, In : BMC Bioinformatics. 20, Suppl 4, 141.

    Research output: Contribution to journalArticle

  76. A quantitative Streptococcus pyogenes-human protein-protein interaction map reveals localization of opsonizing antibodies

    Lotta Happonen, Hauri, S., Svensson Birkedal, G., Christofer Karlsson, Therese de Neergaard, Khakzad, H., Pontus Nordenfelt, Wikström, M., Wisniewska, M., Lars Björck, Lars Malmström & Johan Malmström, 2019 Jun 21, In : Nature Communications. 10, 1, p. 2727

    Research output: Contribution to journalArticle