Schwenk Lab

The Schwenk Lab focusses on the development methods using multiplexed immunoassay systems for the primary purpose of exploring the plasma proteome.

The Schwenk Lab focusses on the development methods using multiplexed immunoassay systems for the primary purpose of exploring the plasma proteome. We are interested in analyzing proteins circulating in blood plasma because these allow to gain systemic insights into human physiology. Our ambition is to contribute to a better understanding of how proteins present in body fluids relate to health and changes due to disease.

To study the differences and variations of proteins between individuals, health and disease states, the Schwenk Lab is working in several interdisciplinary research projects. We contribute with our knowledge and expertise to develop and apply affinity-based assays across different disease areas such as cancer (e.g. prostate, breast, pancreas), thrombosis, diabetes, and wellness. Most of our assays are homemade and empowered the reagents generated by the Human Protein Atlas ( www.proteinatlas.org ). Our proteomics approach includes a careful study design that considers patient and sample related information, appropriate data processing methods, as well as downstream data analysis strategies using linear models, network analysis, and machine learning. For validating our findings, we build and apply additional assays and technologies, ranging from novel dual capture assays, immuno-capture mass spectrometry, to automated sandwich assays.

Contact

Jochen Schwenk is also Director of Plasma Profiling Facility at SciLifeLab.

Publication List

ORCID 0000-0001-8141-8449
scholar.google.se/citations?user=gL3i6scAAAAJ
publicationslist.org/jochen.schwenk

Current group members:

MSc Annika Bendes (Research engineer), Dr. Cecilia Engel Thomas (Postdoc), MSc Cecilia Mattsson (Research engineer), Dr. Jochen M Schwenk (Group leader), Lic Kimi Drobin (Lic student), MSc Matilda Dahle (Research engineer), Dr. Mun-Gwan Hong (Data Analyst), Philip Andersson (Master Student), Dr. Philippa Pettingill (Researcher), Dr. Ragna Häussler (Postdoc), Dr. Sanna Byström (Researcher, on leave), MSc Tea Dodig-Crnkovic, PhD student

Previous and affiliated group members:

Dr. Claudia Fredolini (Postdoc), Dr. Arash Zandian (PhD student), Dr. Anna Häggmark-Månberg (PhD student), Dr. Mahya Dezfouli (PhD student), MSc Elin Birgersson (Research Engineer), Dr. Burcu Ayoglu (PhD student), Dr. Frauke Henjes (Postdoc), Dr. Ulrika Qundos (PhD student), Dr. Maja Neiman (PhD student), Dr. Spyros Darmanis (Postdoc), Dr. Björn Winckler (Postdoc)

Selected recent publications:

Schwenk JM, Omenn GS, Sun Z, Campbell DS, Baker MS, Overall CM, Aebersold R, Moritz RL, Deutsch EW. The Human Plasma Proteome Draft of 2017: Building on the Human Plasma PeptideAtlas from Mass Spectrometry and Complementary Assays. J Proteome Res. 2017 Dec 1;16(12):4299-4310. doi: 10.1021/acs.jproteome.7b00467. PMID: 28938075

Byström S, Eklund M, Hong MG, Fredolini C, Eriksson M, Czene K, Hall P, Schwenk JM, Gabrielson M. Affinity proteomic profiling of plasma for proteins associated to area-based mammographic breast density. Breast Cancer Res. 2018 Feb 14;20(1):14. doi: 10.1186/s13058-018-0940-z. PMID: 29444691

Pin E, Henjes F, Hong MG, Wiklund F, Magnusson P, Bjartell A, Uhlén M, Nilsson P, Schwenk JM. Identification of a Novel Autoimmune Peptide Epitope of Prostein in Prostate Cancer. J Proteome Res. 2017 Jan 6;16(1):204-216. doi: 10.1021/acs.jproteome.6b00620. Epub 2016 Oct 24. PubMed PMID: 27700103.

Bruzelius M, Iglesias MJ, Hong MG, Sanchez-Rivera L, Gyorgy B, Souto JC, Frånberg M, Fredolini C, Strawbridge RJ, Holmström M, Hamsten A, Uhlén M, Silveira A, Soria JM, Smadja DM, Butler LM, Schwenk JM, Morange PE, Trégouët DA, Odeberg J. PDGFB, a new candidate plasma biomarker for venous thromboembolism: results from the VEREMA affinity proteomics study. Blood. 2016 Dec 8;128(23):e59-e66. Epub 2016 Oct 14. PMID: 27742707

Ayoglu B, Birgersson E, Mezger A, Nilsson M, Uhlén M, Nilsson P, Schwenk JM. Multiplexed protein profiling by sequential affinity capture. Proteomics. 2016 Apr;16(8):1251-6. doi: 10.1002/pmic.201500398. Epub 2016 Mar 31. PubMed PMID: 26935855; PubMed Central PMCID: PMC5071697.

Uhlén M, Fagerberg L, Hallström BM, Lindskog C, Oksvold P, Mardinoglu A, Sivertsson Å, Kampf C, Sjöstedt E, Asplund A, Olsson I, Edlund K, Lundberg E, Navani S, Szigyarto CA, Odeberg J, Djureinovic D, Takanen JO, Hober S, Alm T, Edqvist PH, Berling H, Tegel H, Mulder J, Rockberg J, Nilsson P, Schwenk JM, Hamsten M, von Feilitzen K, Forsberg M, Persson L, Johansson F, Zwahlen M, von Heijne G, Nielsen J, Pontén F. Proteomics. Tissue-based map of the human proteome. Science. 2015 Jan 23;347(6220):1260419. doi: 10.1126/science.1260419. PubMed PMID: 25613900.

Byström S, Ayoglu B, Häggmark A, Mitsios N, Hong MG, Drobin K, Forsström B, Fredolini C, Khademi M, Amor S, Uhlén M, Olsson T, Mulder J, Nilsson P, Schwenk JM. Affinity proteomic profiling of plasma, cerebrospinal fluid, and brain tissue within multiple sclerosis. J Proteome Res. 2014 Nov 7;13(11):4607-19. doi: 10.1021/pr500609e. Epub 2014 Oct 1. PubMed PMID: 25231264.

Keywords

Affinity-based plasma proteomics, Immunoassay development, Biomarker Discovery, Antibody Validation, Study Design, Data Analysis.