Steve John Morgridge Institute for Research-Metabolism, University of Wisconsin-Madison
1 protocol

Gretchen Seim Nutritional Sciences, University of Wisconsin - Madison, 2017-
1 protocol

Jing Fan
  • Investigator, Assistant Professor, Metabolism, Morgridge Institute for Research, University of Wisconsin-Madison, 2017-
Research focus
  • Immunology
  • 1 Author merit

Education

PhD, Princeton University, United States, 2014

Publications

· Britt, E. C., John, S. V., Locasale, J. W. and Fan, J. (2020). Metabolic regulation of epigenetic remodeling in immune cells. Curr Opin Biotechnol 63: 111-117.
· Jiang, J., Srivastava, S., Seim, G., Pavlova, N. N., King, B., Zou, L., Zhang, C., Zhong, M., Feng, H., Kapur, R., Wek, R. C., Fan, J. and Zhang, J. (2019). Promoter demethylation of the asparagine synthetase gene is required for ATF4-dependent adaptation to asparagine depletion. J Biol Chem 294(49): 18674-18684.
· Seim, G. L., Britt, E. C., John, S. V., Yeo, F. J., Johnson, A. R., Eisenstein, R. S., Pagliarini, D. J. and Fan, J. (2019). Two-stage metabolic remodelling in macrophages in response to lipopolysaccharide and interferon-γ stimulation. Nature Metabolism 1(7): 731-742.
· Seim G.L., Britt E.C., Fan J. (2019). Analysis of Arginine Metabolism Using LC-MS and Isotopic Labeling. In: D'Alessandro A. (Eds) High-Throughput Metabolomics. Methods in Molecular Biology, vol 1978. Humana, New York, NY.
· Pavlova, N. N., Hui, S., Ghergurovich, J. M., Fan, J., Intlekofer, A. M., White, R. M., Rabinowitz, J. D., Thompson, C. B. and Zhang, J. (2018). As Extracellular Glutamine Levels Decline, Asparagine Becomes an Essential Amino Acid. Cell Metab 27(2): 428-438 e425.
· Morris, B. A., Burkel, B., Ponik, S. M., Fan, J., Condeelis, J. S., Aguirre-Ghiso, J. A., Castracane, J., Denu, J. M. and Keely, P. J. (2016). Collagen Matrix Density Drives the Metabolic Shift in Breast Cancer Cells. EBioMedicine 13: 146-156.
· Fan, J., Baeza, J. and Denu, J. M. (2016). Investigating Histone Acetylation Stoichiometry and Turnover Rate. Methods Enzymol 574: 125-148.
· Liu, L., Shah, S., Fan, J., Park, J. O., Wellen, K. E. and Rabinowitz, J. D. (2016). Malic enzyme tracers reveal hypoxia-induced switch in adipocyte NADPH pathway usage. Nat Chem Biol 12(5): 345-352.
· Wang, X., Yuan, Z. F., Fan, J., Karch, K. R., Ball, L. E., Denu, J. M. and Garcia, B. A. (2016). A Novel Quantitative Mass Spectrometry Platform for Determining Protein O-GlcNAcylation Dynamics. Mol Cell Proteomics 15(7): 2462-2475.
· Park, J. O., Rubin, S. A., Xu, Y.-F., Amador-Noguez, D., Fan, J., Shlomi, T. and Rabinowitz, J. D. (2016). Metabolite concentrations, fluxes and free energies imply efficient enzyme usage. Nature Chemical Biology 12(7): 482-489.
· Fan, J., Krautkramer, K. A., Feldman, J. L. and Denu, J. M. (2015). Metabolic regulation of histone post-translational modifications. ACS Chem Biol 10(1): 95-108.
· Fan, J., Teng, X., Liu, L., Mattaini, K. R., Looper, R. E., Vander Heiden, M. G. and Rabinowitz, J. D. (2015). Human phosphoglycerate dehydrogenase produces the oncometabolite D-2-hydroxyglutarate. ACS Chem Biol 10(2): 510-516.
· Dittenhafer-Reed, K. E., Richards, A. L., Fan, J., Smallegan, M. J., Fotuhi Siahpirani, A., Kemmerer, Z. A., Prolla, T. A., Roy, S., Coon, J. J. and Denu, J. M. (2015). SIRT3 mediates multi-tissue coupling for metabolic fuel switching. Cell Metab 21(4): 637-646.
· Zhang, J., Fan, J., Venneti, S., Cross, J. R., Takagi, T., Bhinder, B., Djaballah, H., Kanai, M., Cheng, E. H., Judkins, A. R., Pawel, B., Baggs, J., Cherry, S., Rabinowitz, J. D. and Thompson, C. B. (2014). Asparagine plays a critical role in regulating cellular adaptation to glutamine depletion. Mol Cell 56(2): 205-218.
· Baeza, J., Dowell, J. A., Smallegan, M. J., Fan, J., Amador-Noguez, D., Khan, Z. and Denu, J. M. (2014). Stoichiometry of site-specific lysine acetylation in an entire proteome. J Biol Chem 289(31): 21326-21338.
· Fan, J., Ye, J., Kamphorst, J. J., Shlomi, T., Thompson, C. B. and Rabinowitz, J. D. (2014). Quantitative flux analysis reveals folate-dependent NADPH production. Nature 510(7504): 298-302.
· Kamphorst, J. J., Chung, M. K., Fan, J. and Rabinowitz, J. D. (2014). Quantitative analysis of acetyl-CoA production in hypoxic cancer cells reveals substantial contribution from acetate. Cancer & Metabolism 2(1): 23.
· Ye, J., Fan, J., Venneti, S., Wan, Y. W., Pawel, B. R., Zhang, J., Finley, L. W., Lu, C., Lindsten, T., Cross, J. R., Qing, G., Liu, Z., Simon, M. C., Rabinowitz, J. D. and Thompson, C. B. (2014). Serine catabolism regulates mitochondrial redox control during hypoxia. Cancer Discov 4(12): 1406-1417.
· Shlomi, T., Fan, J., Tang, B., Kruger, W. D. and Rabinowitz, J. D. (2014). Quantitation of cellular metabolic fluxes of methionine. Anal Chem 86(3): 1583-1591.
· Fan, J., Kamphorst, J. J., Mathew, R., Chung, M. K., White, E., Shlomi, T. and Rabinowitz, J. D. (2013). Glutamine-driven oxidative phosphorylation is a major ATP source in transformed mammalian cells in both normoxia and hypoxia. Mol Syst Biol 9: 712.
· Fan, J., Kamphorst, J. J., Rabinowitz, J. D. and Shlomi, T. (2013). Fatty acid labeling from glutamine in hypoxia can be explained by isotope exchange without net reductive isocitrate dehydrogenase (IDH) flux. J Biol Chem 288(43): 31363-31369.
· Kamphorst, J. J., Cross, J. R., Fan, J., de Stanchina, E., Mathew, R., White, E. P., Thompson, C. B. and Rabinowitz, J. D. (2013). Hypoxic and Ras-transformed cells support growth by scavenging unsaturated fatty acids from lysophospholipids. Proc Natl Acad Sci U S A 110(22): 8882-8887.
· Bray, K., Mathew, R., Lau, A., Kamphorst, J. J., Fan, J., Chen, J., Chen, H. Y., Ghavami, A., Stein, M., DiPaola, R. S., Zhang, D., Rabinowitz, J. D. and White, E. (2012). Autophagy suppresses RIP kinase-dependent necrosis enabling survival to mTOR inhibition. PLoS One 7(7): e41831.
· Ye, J., Mancuso, A., Tong, X., Ward, P. S., Fan, J., Rabinowitz, J. D. and Thompson, C. B. (2012). Pyruvate kinase M2 promotes de novo serine synthesis to sustain mTORC1 activity and cell proliferation. Proc Natl Acad Sci U S A 109(18): 6904-6909.
· Guo, J. Y., Chen, H. Y., Mathew, R., Fan, J., Strohecker, A. M., Karsli-Uzunbas, G., Kamphorst, J. J., Chen, G., Lemons, J. M., Karantza, V., Coller, H. A., Dipaola, R. S., Gelinas, C., Rabinowitz, J. D. and White, E. (2011). Activated Ras requires autophagy to maintain oxidative metabolism and tumorigenesis. Genes Dev 25(5): 460-470.
· Kamphorst, J. J., Fan, J., Lu, W., White, E. and Rabinowitz, J. D. (2011). Liquid chromatography-high resolution mass spectrometry analysis of fatty acid metabolism. Anal Chem 83(23): 9114-9122.
· Amador-Noguez, D., Feng, X. J., Fan, J., Roquet, N., Rabitz, H. and Rabinowitz, J. D. (2010). Systems-level metabolic flux profiling elucidates a complete, bifurcated tricarboxylic acid cycle in Clostridium acetobutylicum. J Bacteriol 192(17): 4452-4461.
1 Protocol published
Metabolomic and Lipidomic Analysis of Bone Marrow Derived Macrophages
Authors:  Gretchen L. Seim, Steven V. John and Jing Fan, date: 07/20/2020, view: 293, Q&A: 0
Macrophages are highly plastic immune cells that are capable of adopting a wide array of functional phenotypes in response to environmental stimuli. The changes in macrophage function are often supported and regulated by changes in cellular ...
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