Jan Krumsiek, Ph.D.

Assistant Professor of Physiology and Biophysics

  • Assistant Professor of Computational Genomics in Computational Biomedicine in the Institute for Computational Biomedicine

646-962-4152

1305 York Avenue, Room Y-13.15A
New York, NY 10021


Techniques

Research Areas


Research Summary:

Dr. Krumsiek develops and applies novel methods for the analysis of metabolomics and multi-omics data. This includes pathway-based methods, computational simulations, and machine learning techniques. As special focus of his work is the inference of metabolic networks from data, providing a condition-specific, unbiased in vivo view on metabolism. He has mainly published on etiology and risk prediction in the field of diabetes and obesity research, and is now transitioning to novel projects in the cancer research. The lab elucidates metabolic associations of drug treatment and clinical parameters in different types of cancer.

https://pubs.acs.org/doi/abs/10.1021/pr501130a

Recent Publications:

  1. Aliluev, A, Tritschler, S, Sterr, M, Oppenländer, L, Hinterdobler, J, Greisle, T et al.. Diet-induced alteration of intestinal stem cell function underlies obesity and prediabetes in mice. Nat Metab. 2021;3 (9):1202-1216. doi: 10.1038/s42255-021-00458-9. PubMed PMID:34552271 PubMed Central PMC8458097.
  2. Buyukozkan, M, Suhre, K, Krumsiek, J. SGI: Automatic clinical subgroup identification in omics datasets. Bioinformatics. 2021; :. doi: 10.1093/bioinformatics/btab656. PubMed PMID:34529048 .
  3. Whalen, W, Buyukozkan, M, Moore, B, Moon, JS, Dela Cruz, CS, Martinez, FJ et al.. Association of circulating cell-free double-stranded DNA and metabolic derangements in idiopathic pulmonary fibrosis. Thorax. 2021; :. doi: 10.1136/thoraxjnl-2021-217315. PubMed PMID:34521729 .
  4. Calvo-Vidal, MN, Zamponi, N, Krumsiek, J, Stockslager, MA, Revuelta, MV, Phillip, JM et al.. Oncogenic HSP90 Facilitates Metabolic Alterations in Aggressive B-cell Lymphomas. Cancer Res. 2021;81 (20):5202-5216. doi: 10.1158/0008-5472.CAN-21-2734. PubMed PMID:34479963 .
  5. Zacharias, HU, Hertel, J, Johar, H, Pietzner, M, Lukaschek, K, Atasoy, S et al.. A metabolome-wide association study in the general population reveals decreased levels of serum laurylcarnitine in people with depression. Mol Psychiatry. 2021; :. doi: 10.1038/s41380-021-01176-0. PubMed PMID:34088979 .
  6. Bauer, A, Zierer, A, Gieger, C, Büyüközkan, M, Müller-Nurasyid, M, Grallert, H et al.. Comparison of genetic risk prediction models to improve prediction of coronary heart disease in two large cohorts of the MONICA/KORA study. Genet Epidemiol. 2021;45 (6):633-650. doi: 10.1002/gepi.22389. PubMed PMID:34082474 .
  7. Niiranen, L, Mäkelä, KA, Dona, A, Krumsiek, J, Karhu, T, Mäkinen, MJ et al.. Seasonal Regulation of Metabolism: The Effect of Wintertime Fasting and Autumnal Fattening on Key Central Regulators of Metabolism and the Metabolic Profile of the Raccoon Dog (Nyctereutes Procyonoides). Int J Mol Sci. 2021;22 (9):. doi: 10.3390/ijms22094965. PubMed PMID:34067001 PubMed Central PMC8125260.
  8. Ecker, J, Benedetti, E, Kindt, ASD, Höring, M, Perl, M, Machmüller, AC et al.. The Colorectal Cancer Lipidome: Identification of a Robust Tumor-Specific Lipid Species Signature. Gastroenterology. 2021;161 (3):910-923.e19. doi: 10.1053/j.gastro.2021.05.009. PubMed PMID:34000281 .
  9. Montrose, DC, Saha, S, Foronda, M, McNally, EM, Chen, J, Zhou, XK et al.. Exogenous and Endogenous Sources of Serine Contribute to Colon Cancer Metabolism, Growth, and Resistance to 5-Fluorouracil. Cancer Res. 2021;81 (9):2275-2288. doi: 10.1158/0008-5472.CAN-20-1541. PubMed PMID:33526512 PubMed Central PMC8137552.
  10. Thorand, B, Zierer, A, Büyüközkan, M, Krumsiek, J, Bauer, A, Schederecker, F et al.. A Panel of 6 Biomarkers Significantly Improves the Prediction of Type 2 Diabetes in the MONICA/KORA Study Population. J Clin Endocrinol Metab. 2021;106 (4):e1647-e1659. doi: 10.1210/clinem/dgaa953. PubMed PMID:33382400 PubMed Central PMC7993565.
  11. Baloni, P, Funk, CC, Yan, J, Yurkovich, JT, Kueider-Paisley, A, Nho, K et al.. Metabolic Network Analysis Reveals Altered Bile Acid Synthesis and Metabolism in Alzheimer's Disease. Cell Rep Med. 2020;1 (8):100138. doi: 10.1016/j.xcrm.2020.100138. PubMed PMID:33294859 PubMed Central PMC7691449.
  12. Faquih, T, van Smeden, M, Luo, J, le Cessie, S, Kastenmüller, G, Krumsiek, J et al.. A Workflow for Missing Values Imputation of Untargeted Metabolomics Data. Metabolites. 2020;10 (12):. doi: 10.3390/metabo10120486. PubMed PMID:33256233 PubMed Central PMC7761057.
  13. Wörheide, MA, Krumsiek, J, Kastenmüller, G, Arnold, M. Multi-omics integration in biomedical research - A metabolomics-centric review. Anal Chim Acta. 2021;1141 :144-162. doi: 10.1016/j.aca.2020.10.038. PubMed PMID:33248648 PubMed Central PMC7701361.
  14. Benedetti, E, Pučić-Baković, M, Keser, T, Gerstner, N, Büyüközkan, M, Štambuk, T et al.. A strategy to incorporate prior knowledge into correlation network cutoff selection. Nat Commun. 2020;11 (1):5153. doi: 10.1038/s41467-020-18675-3. PubMed PMID:33056991 PubMed Central PMC7560866.
  15. Benedetti, E, Gerstner, N, Pučić-Baković, M, Keser, T, Reiding, KR, Ruhaak, LR et al.. Systematic Evaluation of Normalization Methods for Glycomics Data Based on Performance of Network Inference. Metabolites. 2020;10 (7):. doi: 10.3390/metabo10070271. PubMed PMID:32630764 PubMed Central PMC7408386.
  16. Noordam, R, van Heemst, D, Suhre, K, Krumsiek, J, Mook-Kanamori, DO. Proteome-wide assessment of diabetes mellitus in Qatari identifies IGFBP-2 as a risk factor already with early glycaemic disturbances. Arch Biochem Biophys. 2020;689 :108476. doi: 10.1016/j.abb.2020.108476. PubMed PMID:32585310 .
  17. Arnold, M, Nho, K, Kueider-Paisley, A, Massaro, T, Huynh, K, Brauner, B et al.. Sex and APOE ε4 genotype modify the Alzheimer's disease serum metabolome. Nat Commun. 2020;11 (1):1148. doi: 10.1038/s41467-020-14959-w. PubMed PMID:32123170 PubMed Central PMC7052223.
  18. Otto, L, Budde, K, Kastenmüller, G, Kaul, A, Völker, U, Völzke, H et al.. Associations between adipose tissue volume and small molecules in plasma and urine among asymptomatic subjects from the general population. Sci Rep. 2020;10 (1):1487. doi: 10.1038/s41598-020-58430-8. PubMed PMID:32001750 PubMed Central PMC6992585.
  19. Altenbuchinger, M, Zacharias, HU, Solbrig, S, Schäfer, A, Büyüközkan, M, Schultheiß, UT et al.. A multi-source data integration approach reveals novel associations between metabolites and renal outcomes in the German Chronic Kidney Disease study. Sci Rep. 2019;9 (1):13954. doi: 10.1038/s41598-019-50346-2. PubMed PMID:31562371 PubMed Central PMC6764972.
  20. Playdon, MC, Joshi, AD, Tabung, FK, Cheng, S, Henglin, M, Kim, A et al.. Metabolomics Analytics Workflow for Epidemiological Research: Perspectives from the Consortium of Metabolomics Studies (COMETS). Metabolites. 2019;9 (7):. doi: 10.3390/metabo9070145. PubMed PMID:31319517 PubMed Central PMC6681081.
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