Shichen Shen


I received my B.S. degree in Pharmaceutical Sciences from Fudan University, in 2012. My research focus during undergraduate was pharmacological characterization of skeletal TRPV1 receptor. Now I'm pursuing a Ph.D. degree in biochemistry under the mentorship of Dr. Qu. My current research interests encompass: I) Optimization and application of ion-current-based MS1 proteomics for large-scale quantitative analysis of clinical and pharmaceutical samples; II) Discovery and validation of potential biomarker candidates for cardiovascular diseases using both global and targeted proteomics approaches; III) Method development for investigation of protein PTMs (e.g. serine/threonine phosphorylation and arginine methylation).


1. Shen X, Nair B, Mahajan SD, Jiang X, Li J, Shen S, Tu C, Hsiao CB, Schwartz SA, Qu J*. New insights into the disease progression control mechanisms by comparing Long-term-non-progressors vs. Normal-progressors among HIV-1 positive patients using an ion current-based MS1 proteomics profiling. J Proteome Res. 14(12):5225-39 (2015)

2. Shen S, Li J, Hilchey S, Shen X, Tu C, Qiu X, Ng A, Ghaemmaghami S, Wu H, Zand M, Qu J*. An Ion-Current-Based Temporal Proteomic Profiling of Influenza A Virus Infected Mouse Lungs Revealed Underlying Mechanisms of Altered Integrity of the Lung Microvascular Barrier. J Proteome Res. 15(2):540-53. (2016)

3. Zhang T, Shen S, Qu J, Ghaemmaghami S*. Global Analysis of Cellular Protein Flux Quantifies the Selectivity of Basal Autophagy. Cell Rep. 14(10):2426:39. (2016)

4. Shen S, Jiang X, Li J, Straubinger RM, Suarez M, Tu C, Duan X, Thompson AC, Qu J*. Large-Scale, Ion-Current-Based Proteomic Investigation of the Rat Striatal Proteome in a Model of Short- and Long-Term Cocaine Withdrawal. J Proteome Res. 15(5):1702-16. (2016)

5. Qu M, An B, Shen S, Zhang M, Shen X, Duan X, Balthasar JP, Qu J*. Qualitative and quantitative characterization of protein therapeutics with liquid chromatography and mass spectrometry. Mass Spectrom Rev. [Epub ahead of print]. (2016)

6. Tu C, Li J, Shen S, Sheng Q, Shyr Y, Qu J*. Performance Investigation of Protoemic Identification by HCD/CID Fragmentations in Combination with High/Low-Resolution Detectors on a Tribrid, High-Field Orbitrap Instrument. PLoS One. 11(7):e0160160. (2016)

7. Tu C, Bu Y, Vujcic M, Shen S, Li J, Qu M, Hangauer D, Clements JL*, Qu J*. Ion Current-based Proteomics Profiling in Understanding the Inhibitory Effect of Tumor Necrosis Factor Alpha on Myogenic Differentiation. J Proteome Res. [Epub ahead of print]. (2016)

8. Welle KA, Zhang T, Hyrohorenko JR, Shen S, Qu J, Ghaemmaghami S. Time-resolved analysis of proteome dynamics by TMT-SILAC hyperplexing. Mol Cell Proteomics. 15(12):3551-3563. (2016)

9. Tu C, Shen S, Sheng Q, Shyr Y, Qu J*. A peptide-retrieval strategy enables significant improvement of quantitative performance without compromising confidence of identification. J Proteomics. 152:276-282. (2016)

10. Tu C, Mojica W, Straubinger RM, Li J, Shen S, Qu M, Nie L, Roberts R, An B, Qu J*. Quantitative proteomic profiling of paired cancerous and normal colon epithelial cells isolated freshly from colorectal cancer patients. Proteomics Clin Appl. 11(5-6). (2017)

11. Shen X, Shen S, Li J, Hu Q, Nie L, Tu C, Wang X, Orsburn B, Wang J, Qu J*. An IonStar experimental strategy for MS1 ion current-based quantification using ultra-high-field Orbitrap: reproducible, in-depth and accurate protein measurement in larger cohorts. J Proteome Res. 16(7):2445-2456. (2017)

12. Ma JH, Shen S, Wang JJ, He Z, Poon A, Li J, Qu J, Zhang SX*. Comparative Proteomic Analysis of the Mitochondria-associated ER Membrane (MAM) in a Long-term Type 2 Diabetic Rodent Model. Sci Rep.18;7(1):2062. (2017)

13. Zhang M, An B, Qu Y, Shen S, Fu W, Chen YJ, Wang X, Young R, Canty JM Jr., Balthasar JR, Murphy K, Bhattacharyya D, Josephs J, Ferrari L, Zhou S, Bansal S, Vazvaei F*, Qu J*. Sensitive, High-Throughput, and Robust Trapping-Micro-LC-MS Strategy for the Quantification of Biomarkers and Antibody Biotherapeutics. Anal Chem. 90(3):1870-1880. (2018)

14. Wang X, Niu J, Li J, Shen X, Shen S, Straubinger RM, Qu J*. Temporal Effects of Combined Birinapant and Paclitaxel on Pancreatic Cancer Cells Investigated via Large-Scale, Ion-Current-Based Quantitative Proteomics (IonStar). Mol Cell Proteomics. 17(4):655-671. (2018)

15. Shen X, Shen S, Li J, Hu Q, Nie L, Tu C, Wang X, Poulsen DJ, Orsburn BC*, Wang J*, Qu J*. IonStar enables high-precision, low-missing-data proteomics quantification in large biological cohorts. Proc Natl Acad Sci USA. In Press. (2018)

Update date: May, 2017