Welcome to Ge Research Group!

The Ge lab at UW-Madison aims to understand the molecular and cellular mechanisms underlying cardiovascular diseases via systems biology approaches featuring cutting-edge high-resolution mass spectrometry (MS)-based comparative proteomics and metabolomics in conjunction with biochemical/biological/physiological functional studies.


Ying Ge, PhD

Associate Professor, Department of Cell and Regenerative Biology
Associate Professor, Department of Chemistry
Director of Mass Spectrometry
Human Proteomics Program
School of Medicine and Public Health
University of Wisconsin-Madison
Biographical Sketch

Faculty trainer, Translational Cardiovascular Science Training Program
Faculty trainer, Chemistry-Biology Interface Training Program
Faculty trainer, UW Graduate Program in Cellular and Molecular Biology
Faculty trainer, UW Graduate Program in Molecular and Cellular Pharmacology
Faculty trainer, UW Graduate Program in Cellular and Molecular Pathology
Faculty trainer, UW Molecular and Environmental Toxicology Training Program
Faculty trainer, UW Physiology Training Program

    News and Updates

  • Apr. 2016, congratulations to Cyrus Colah on winning the Hilldale Undergraduate Fellowship! Thanks to Tania Guardado for being an excellent mentor!
  • Apr. 2016, Zach Gregorich is awarded with the 2016 ASMS (American Society for Mass Spectrometry) Graduate Student Award. Congratulations!
  • Mar. 2016, congratulations to our undergraduate student Rachel Heuer on receiving the Theodore Herfurth Sophomore Scholarship from the College of Letters and Science!
  • Nov. 2015, Dr. Ying (Lynn) Peng has found a position in industry! Congratulations!
  • Nov. 2015, Kyle Brown (Analytical), Yumin Lian (Analytical), Trisha Tucholski (Anlyatical) and Zhijie Wu (Chemical Biology) from the Chemistry program have joined the Ge group. Welcome!
  • Oct. 2015, the Ge group enjoyed the fall's outing at the Pinic Point. [ Photos]
  • Aug. 2015, the Ge Group attended the Wisconsin Human Proteomics Symposium, 2015.
  • Jul. 2015, Serife has found an assistant professor position in Turkey. Congratulations!
  • Jul. 2015, joint group summer party with the Jin Group in Ying and Song's house. [ Photos]
  • Jul. 2015, Liming Wei, a visiting scholar, has joined the Ge Group. Welcome!
  • Jul. 2015, Ziqing Lin, a post-doctoral fellow, has joined the Ge Group. Welcome!
  • Jun. 2015, the Ge Group attended the 63rd ASMS conference in St. Louis. [ Photos]
  • Apr. 2015, Dr. Ying Ge has been promoted to Associate Professor.

Most Recent Publications

  1. Jin, Y.; Peng, Y.; Lin, Z.; Chen, Y. C.; Wei, L.; Hacker, T. A.; Larsson, L.; Ge, Y. Comprehensive analysis of tropomyosin isoforms in skeletal muscles by top-down proteomics. J Muscle Res Cell Motil., 2016, 37(1-2):41-52. doi: 10.1007/s10974-016-9443-7. Epub 2016 Apr 18. (Ge, Y. Corresponding author)
  2. Hwang, L.; Guardado-Alvarez†, T.; Ayaz-Gunner, S.; Ge, Y.; Jin S. A Family of Photolabile Nitroveratryl-Based Surfactants That Self-Assemble into Photodegradable Supramolecular Structures. Langmuir, 2016, 32 (16): pp 3963–3969. (Ge, Y. Corresponding author) Article
  3. Chen, B.; Peng, Y.; Valeja, S. G.; Xiu, L.; Alpert, A. J.; Ge, Y. Online Hydrophobic Interaction Chromatography-Mass spectrometry for Top-down Proteomics. Anal. Chem. 2016, 88(3):1885-91. (Ge, Y. Corresponding author)
  4. Cai, W.; Guner, H.; Gregorich, Z. R.; Chen, A. J.; Ayaz-Guner, S.; Peng, Y.; Valeja, S. G.; Liu, X.; Ge, Y. MASH Suite Pro: A Comprehensive Software Tool for Top-down Proteomics. Mol. Cell. Proteomics. 2016, 15(2):703-14. (Ge, Y. Corresponding author)
  5. Yu, D.; Peng, Y.; Ayaz-Guner, S.; Gregorich Z. R.; Ge, Y. Comprehensive characterization of AMP-activated protein kinase catalytic domain by top-down mass spectrometry. J. Am. Soc. Mass Spectrom. 2016, 27(2): 220-232 (Ge, Y. Corresponding author)
  6. Gregorich Z. R.; Peng, Y.; Wolff, J. J.; Guo, W.; Guner, H.; Doop, J.; Hacker, T. A.; Ge, Y. Comprehensive assessment of regional and transmural heterogeneity in myofilament protein phosphorylation by top-down mass spectrometry. J. Mol. Cell. Cardiol. 2015, 87, 103-112. (Ge, Y. Corresponding author)
  7. Chen, Y.-C.; Ayaz-Guner, S.; Peng, Y.; Lane, M. L.; Locher, M.; Larsson, L.; Kohmoto, T.; Moss, R. L.; Ge, Y. A top-down LC/MS+ method for assessing actin isoforms as a potential cardiac disease marker. Anal Chem. 2015, 87(16): 8399-406. (Ge, Y. Corresponding author)
  8. Chang, Y. H.; Ye, L.; Cai, W.; Lee, Y.; Guner, H.; Lee, Y.; Kamp, T. J.; Zhang, J.; Ge, Y. Quantitative Proteomics Reveals Differential Regulation of Protein Expression in Recipient Myocardium after Trilineage Cardiovascular Cell Transplantation. Proteomics. 2015, 15, 2560-2567 doi: 10.1002/pmic.201500131. (Ge, Y. Corresponding author)
  9. Valeja, S. G.; Xiu, L.; Gregorich, Z. R.; Guner, H.; Jin, S.; Ge, Y. Three dimensional liquid chromatography coupling ion exchange chromatography/hydrophobic interaction chromatography/reverse phase chromatography for effective protein separation in top-down proteomics. Anal Chem. 2015, 87(10), 5363-71. (Ge, Y. Corresponding author)
  10. Hwang, L.; Ayaz-Guner, S.; Cai, W.; Gregorich Z. R.; Jin, S.; Ge, Y. Specific enrichment of phosphoproteins using functionalized multivalent nanoparticles. J. Am. Chem. Soc., 2015, 87, 5363-5371. (Ge, Y. Corresponding author)
  11. Chang, Y.; Gregorich Z. R.; Chen, A. J.; Hwang L.; Guner, H.; Yu, D.; Zhang, J.; Ge, Y. New mass spectrometry-compatible degradable surfactant for tissue proteomics. J. Proteome Res., 2015, 14, 1587-1599. (Ge, Y. Corresponding author)
  12. Chen, Y.; Sumandea, M. P.; Larsson, L.; Moss, R. L.; Ge, Y. Dissecting human skeletal muscle troponin proteoforms by top-down mass spectrometry. J. Muscle Res. Cell Motil., 2015, 36, 168-181. (Ge, Y. Corresponding author)
  13. Ye, L.; Chang, Y. H.; Xiong Q.; Zhang P.; Somasundaram, P.; Lepley M.; Swingen C.; Su, L.; Wendel, J. S.; Guo, J.; Jang, A.; Rosenbush, D.; Zhang, L.; Greder, L.; Dutton, J. R.; Zhang, J.; Kamp, T. J.; Kaufman, D.S.; Ge, Y.; Zhang, J. Cardiac repair in a porcine model of acute myocardial infarction with human induced pluripotent stem cell-derived cardiovascular cells. Cell Stem Cell, 2014, 15, 750-761.
  14. Peng, Y.; Gregorich Z. R.; Valeja, S. G.; Zhang, H.; Cai, W.; Chen, Y.; Guner, H.; Chen, A. J.; Schwahn, D. J.; Hacker, T. A.; Liu, X.; Ge, Y. Top-down proteomics reveals concerted reductions in myofilament and Z-disc protein phosphorylation after acute myocardial infarction. Mol. Cell. Proteomics, 2014, 13, 2752-2764. (Ge, Y. Corresponding author)
  15. Ge, Y.; Van Eyk, J. Cardiovascular disease: the leap towards translational and clinical proteomics. Proteomics Clin. Appl., 2014, 8, 473-475.
  16. Xiu, L.; Valeja, S. G.; Alpert, A. J.; Jin, S.; Ge, Y. Effective protein separation by coupling hydrophobic interaction and reverse phase chromatography for top-down proteomics. Anal. Chem. 2014, 86, 7899-7906. (Ge, Y. Corresponding author)
  17. Valkevich, E. M.; Sanchez, N.; Ge, Y.; Strieter, E. R. Middle-down mass spectrometry enables characterization of branched ubiquitin chains. Biochemistry, 2014, 53, 4979−4989.

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