Qibin Zhang

Education

Ph.D. Chemistry, University of California at Riverside

Courses Taught

• CHE 632/732 Advanced Analytical Chemistry
• CHE 633/733 Bioanalytical Chemistry
• CHE 431/531 Instrumental Analysis

Research Focus

Analytical Biochemistry, Biological Mass Spectrometry, Proteomics, Lipidomics, Metabolomics, Disease Biomarkers.

Research Overview

The Zhang research group focuses on developing new capabilities for more accurate, more sensitive, and higher throughput measurement of biomolecules, and the clinical application of proteomics, lipidomics, and metabolomics for comprehensive identification of disease biomarkers, and systems biological understanding of the pathogenic mechanism underlying the complex human diseases. Our research could lead to clinical assays for early diagnosis of human diseases, and effective intervention and prevention strategies for better human health. Below is a list of our research directions.

Proteomics

• Temporal plasma proteomics and biomarkers of Type 1 diabetes (T1D) progression
• Cell-specific and spatial tissue proteomics
• Immunopeptidome and novel T1D autoantigens
• Antimicrobial peptides and intact proteomics
• Glycated proteome and diabetic complications

Lipidomics

• Tissue-specific global lipidomics
• High-resolution ozone-induced dissociation mass spectrometry
• Advanced capabilities for intact analysis of glycosphingolipids
• Glycation of lipids and diabetic complications

Metabolomics

• Tryptophan catabolism
• Oxylipins and inflammation
• Fatty acid and energy metabolism
• Chemical isotope labeling-based metabolomics

The Zhang research group has state-of-the-art mass spectrometry instrumentation (including Thermo QExactive HF, TSQ Quantiva, LTQ-Orbitrap with ETD, nano-LC and UPLC, and a Leco GC-TOF) and bioinformatics and statistics tools. Depending on the project, students and postdocs are also exposed to a variety of other experimental techniques including microscopy, biochemistry, molecular biology, immunology, physical chemistry, and synthetic organic chemistry.

Recent Publications

• Suresh PS, Sun X, Zhou Z, Zhang Q. Spatial Proteomics Reveals Alcohol-Induced Damages to the Crypts and Villi of the Mouse Small Intestine. J Proteome Res. 2024;23(5):1801-9. Epub 20240424. doi: 10.1021/acs.jproteome.4c00037. PubMed PMID: 38655769; PMCID: PMC11077582.
• Sakaguchi CA, Nieman DC, Omar AM, Strauch RC, Williams JC, Lila MA, Zhang Q. Influence of 2 Weeks of Mango Ingestion on Inflammation Resolution after Vigorous Exercise. Nutrients. 2024;16(1):36. PubMed PMID: doi:10.3390/nu16010036.
• Woo J, Zhang Q. A Streamlined High-Throughput Plasma Proteomics Platform for Clinical Proteomics with Improved Proteome Coverage, Reproducibility, and Robustness. J Am Soc Mass Spectrom. 2023;34(4):754-62. Epub 20230328. doi: 10.1021/jasms.3c00022. PubMed PMID: 36975161; PMCID: PMC10080683.
• Weldemariam MM, Sudhir PR, Woo J, Zhang Q. Effects of multiple stressors on pancreatic human islets proteome reveal new insights into the pathways involved. Proteomics. 2023;23(19):e2300022. Epub 20230724. doi: 10.1002/pmic.202300022. PubMed PMID: 37489002; PMCID: PMC10591809.
• Smith RA, Zhang Q. Region-specific mouse brain ganglioside distribution revealed by an improved isobaric aminoxyTMT labeling strategy with automated data processing. Anal Bioanal Chem. 2023;415(29-30):7269-79. Epub 20231020. doi: 10.1007/s00216-023-04995-y. PubMed PMID: 37857739; PMCID: PMC10841993.
• Smith RA, Zhang Q. Peak Pair Pruner: a post-processing software to MS-DIAL for peak pair validation and ratio quantification of isotopic labeling LC-MS(/MS) data. Bioinform Adv. 2023;3(1):vbad044. Epub 20230327. doi: 10.1093/bioadv/vbad044. PubMed PMID: 37033468; PMCID: PMC10074028.
• Shiota T, Li Z, Chen GY, McKnight KL, Shirasaki T, Yonish B, Kim H, Fritch EJ, Sheahan TP, Muramatsu M, Kapustina M, Cameron CE, Li Y, Zhang Q, Lemon SM. Hepatoviruses promote very-long-chain fatty acid and sphingolipid synthesis for viral RNA replication and quasi-enveloped virus release. Sci Adv. 2023;9(42):eadj4198. Epub 20231020. doi: 10.1126/sciadv.adj4198. PubMed PMID: 37862421; PMCID: PMC10588952.
• Omar AM, Zhang Q. Evaluation of Lipid Extraction Protocols for Untargeted Analysis of Mouse Tissue Lipidome. Metabolites. 2023;13(9):1002. Epub 20230909. doi: 10.3390/metabo13091002. PubMed PMID: 37755282; PMCID: PMC10535403.
• Nieman DC, Woo J, Sakaguchi CA, Omar AM, Tang Y, Davis K, Pecorelli A, Valacchi G, Zhang Q. Astaxanthin supplementation counters exercise-induced decreases in immune-related plasma proteins. Front Nutr. 2023;10:1143385. Epub 20230321. doi: 10.3389/fnut.2023.1143385. PubMed PMID: 37025615; PMCID: PMC10070989.
• Nieman DC, Sakaguchi CA, Pelleigrini M, Thompson MJ, Sumner S, Zhang Q. Healthy lifestyle linked to innate immunity and lipoprotein metabolism: a cross-sectional comparison using untargeted proteomics. Scientific reports. 2023;13(1):16728. Epub 20231004. doi: 10.1038/s41598-023-44068-9. PubMed PMID: 37794065; PMCID: PMC10550951.
• Nieman DC, Sakaguchi CA, Omar AM, Davis KL, Shaffner CE, Strauch RC, Lila MA, Zhang Q. Blueberry intake elevates post-exercise anti-inflammatory oxylipins: a randomized trial. Scientific reports. 2023;13(1):11976. Epub 20230724. doi: 10.1038/s41598-023-39269-1. PubMed PMID: 37488250; PMCID: PMC10366094.
• Hao L, Zhong W, Woo J, Wei X, Ma H, Dong H, Guo W, Sun X, Yue R, Zhao J, Zhang Q, Zhou Z. Conventional type 1 dendritic cells protect against gut barrier disruption via maintaining Akkermansia muciniphila in alcoholic steatohepatitis. Hepatology. 2023;78(3):896-910. Epub 20230103. doi: 10.1097/HEP.0000000000000019. PubMed PMID: 36626632.
• Asressu KH, Zhang Q. Detection and Semi-quantification of Lipids on High-Performance Thin-Layer Chromatography Plate using Ceric Ammonium Molybdate Staining. European journal of lipid science and technology : EJLST. 2023;125(1):2200096. Epub 20221204. doi: 10.1002/ejlt.202200096. PubMed PMID: 36818638; PMCID: PMC9937734.
• Woo J, Schoenfeld M, Sun X, Iraguha T, Zhou Z, Zhang Q. Mouse Paneth Cell-Enriched Proteome Enabled by Laser Capture Microdissection. J Proteome Res. 2022;21(10):2435-42. Epub 20220925. doi: 10.1021/acs.jproteome.2c00311. PubMed PMID: 36153828; PMCID: PMC9671084.
• Weldemariam MM, Woo J, Zhang Q. Pancreatic INS-1 beta-Cell Response to Thapsigargin and Rotenone: A Comparative Proteomics Analysis Uncovers Key Pathways of beta-Cell Dysfunction. Chem Res Toxicol. 2022;35(6):1080-94. Epub 20220511. doi: 10.1021/acs.chemrestox.2c00058. PubMed PMID: 35544339; PMCID: PMC9671082.
• Sudhir PR, Lin TD, Zhang Q. HLA Allele-Specific Quantitative Profiling of Type 1 Diabetic B Lymphocyte Immunopeptidome. J Proteome Res. 2022;21(1):250-64. Epub 20211221. doi: 10.1021/acs.jproteome.1c00842. PubMed PMID: 34932366; PMCID: PMC8742597.
• Nieman DC, Omar AM, Kay CD, Kasote DM, Sakaguchi CA, Lkhagva A, Weldemariam MM, Zhang Q. Almond intake alters the acute plasma dihydroxy-octadecenoic acid (DiHOME) response to eccentric exercise. Front Nutr. 2022;9:1042719. Epub 20230109. doi: 10.3389/fnut.2022.1042719. PubMed PMID: 36698469; PMCID: PMC9868138.
• Yue R, Chen GY, Xie G, Hao L, Guo W, Sun X, Jia W, Zhang Q, Zhou Z, Zhong W. Activation of PPARalpha-catalase pathway reverses alcoholic liver injury via upregulating NAD synthesis and accelerating alcohol clearance. Free Radic Biol Med. 2021;174:249-63. Epub 20210811. doi: 10.1016/j.freeradbiomed.2021.08.005. PubMed PMID: 34390780; PMCID: PMC8437058.
• Misumi I, Li Z, Sun L, Das A, Shiota T, Cullen J, Zhang Q, Whitmire JK, Lemon SM. Iminosugar glucosidase inhibitors reduce hepatic inflammation in HAV-infected Ifnar1(-/-) mice. J Virol. 2021:JVI.00058-21. Epub 20210310. doi: 10.1128/JVI.00058-21. PubMed PMID: 33692213.
• Li Z, Zhang Q. Ganglioside isomer analysis using ion polarity switching liquid chromatography-tandem mass spectrometry. Anal Bioanal Chem. 2021;413(12):3269-79. Epub 20210308. doi: 10.1007/s00216-021-03262-2. PubMed PMID: 33686479; PMCID: PMC8672327.
• Korwar AM, Zhang Q. Comprehensive Quantification of Carboxymethyllysine-Modified Peptides in Human Plasma. J Am Soc Mass Spectrom. 2021;32(3):744-52. Epub 20210129. doi: 10.1021/jasms.0c00443. PubMed PMID: 33512994; PMCID: PMC8075102.
• He X, Li Z, Zhang Q. A UPLC-MRM-MS method for comprehensive profiling of Amadori compound-modified phosphatidylethanolamines in human plasma. Anal Bioanal Chem. 2021;413(2):431-43. Epub 20201027. doi: 10.1007/s00216-020-03012-w. PubMed PMID: 33111151; PMCID: PMC7856005.
• Chen GY, Zhang Q. Quantification of Plasma Oxylipins Using Solid-Phase Extraction and Reversed-Phase Liquid Chromatography-Triple Quadrupole Mass Spectrometry. Methods Mol Biol. 2021;2306:171-86. Epub 2021/05/07. doi: 10.1007/978-1-0716-1410-5_12. PubMed PMID: 33954947; PMCID: PMC8672328.
• Zhong W, Wei X, Hao L, Lin TD, Yue R, Sun X, Guo W, Dong H, Li T, Ahmadi AR, Sun Z, Zhang Q, Zhao J, Zhou Z. Paneth Cell Dysfunction Mediates Alcohol-related Steatohepatitis Through Promoting Bacterial Translocation in Mice: Role of Zinc Deficiency. Hepatology. 2020;71(5):1575-91. Epub 20200310. doi: 10.1002/hep.30945. PubMed PMID: 31520476; PMCID: PMC7069794.
• Zhang L, Zhang Q. Glycated Plasma Proteins as More Sensitive Markers for Glycemic Control in Type 1 Diabetes. Proteomics Clin Appl. 2020;14(2):e1900104. Epub 2019/12/24. doi: 10.1002/prca.201900104. PubMed PMID: 31868294.
• Woo J, Sudhir PR, Zhang Q. Pancreatic Tissue Proteomics Unveils Key Proteins, Pathways, and Networks Associated with Type 1 Diabetes. Proteomics Clin Appl. 2020;14(6):e2000053. Epub 20201014. doi: 10.1002/prca.202000053. PubMed PMID: 33007151; PMCID: PMC7773157.
• Nieman DC, Gillitt ND, Chen GY, Zhang Q, Sha W, Kay CD, Chandra P, Kay KL, Lila MA. Blueberry and/or Banana Consumption Mitigate Arachidonic, Cytochrome P450 Oxylipin Generation During Recovery From 75-Km Cycling: A Randomized Trial. Front Nutr. 2020;7(121):121. Epub 2020/08/28. doi: 10.3389/fnut.2020.00121. PubMed PMID: 32850939; PMCID: PMC7426440.
• Key CC, Bishop AC, Wang X, Zhao Q, Chen GY, Quinn MA, Zhu X, Zhang Q, Parks JS. Human GDPD3 overexpression promotes liver steatosis by increasing lysophosphatidic acid production and fatty acid uptake. J Lipid Res. 2020;61(7):1075-86. Epub 2020/05/21. doi: 10.1194/jlr.RA120000760. PubMed PMID: 32430316; PMCID: PMC7328041.
• Das A, Barrientos R, Shiota T, Madigan V, Misumi I, McKnight KL, Sun L, Li Z, Meganck RM, Li Y, Kaluzna E, Asokan A, Whitmire JK, Kapustina M, Zhang Q, Lemon SM. Gangliosides are essential endosomal receptors for quasi-enveloped and naked hepatitis A virus. Nat Microbiol. 2020;5(9):1069-78. Epub 2020/05/27. doi: 10.1038/s41564-020-0727-8. PubMed PMID: 32451473; PMCID: PMC7483933.
• Chen GY, Zhang Q. Simultaneous quantification of free fatty acids and acylcarnitines in plasma samples using dansylhydrazine labeling and liquid chromatography-triple quadrupole mass spectrometry. Anal Bioanal Chem. 2020;412(12):2841-9. Epub 2020/02/23. doi: 10.1007/s00216-020-02514-x. PubMed PMID: 32078005; PMCID: PMC7198343.
• Barrientos RC, Zhang Q. Recent advances in the mass spectrometric analysis of glycosphingolipidome – A review. Anal Chim Acta. 2020;1132:134-55. Epub 2020/09/28. doi: 10.1016/j.aca.2020.05.051. PubMed PMID: 32980104; PMCID: PMC7525043.
• Zhang L, Lanzoni G, Battarra M, Inverardi L, Zhang Q. Label-Free LC-MS/MS Strategy for Comprehensive Proteomic Profiling of Human Islets Collected Using Laser Capture Microdissection from Frozen Pancreata. Methods Mol Biol. 2019;1871:253-64. Epub 2018/10/03. doi: 10.1007/978-1-4939-8814-3_16. PubMed PMID: 30276744; PMCID: PMC6317367.
• Vu N, Narvaez-Rivas M, Chen GY, Rewers MJ, Zhang Q. Accurate mass and retention time library of serum lipids for type 1 diabetes research. Anal Bioanal Chem. 2019;411(23):5937-49. Epub 2019/07/08. doi: 10.1007/s00216-019-01997-7. PubMed PMID: 31280478; PMCID: PMC6762021.
• Nieman DC, Gillitt ND, Chen GY, Zhang Q, Sakaguchi CA, Stephan EH. Carbohydrate intake attenuates post-exercise plasma levels of cytochrome P450-generated oxylipins. PLoS One. 2019;14(3):e0213676. Epub 2019/03/19. doi: 10.1371/journal.pone.0213676. PubMed PMID: 30883596; PMCID: PMC6422332 Nicholas Gillitt works as a scientist in the Dole Nutrition Research Laboratory. There are no patents, products in development or marketed products to declare. This does not alter our adherence to all the PLOS ONE policies on sharing data and materials, as detailed online in the guide for authors.
• Knowles SL, Vu N, Todd DA, Raja HA, Rokas A, Zhang Q, Oberlies NH. Orthogonal Method for Double-Bond Placement via Ozone-Induced Dissociation Mass Spectrometry (OzID-MS). Journal of natural products. 2019;82(12):3421-31. Epub 2019/12/12. doi: 10.1021/acs.jnatprod.9b00787. PubMed PMID: 31823607; PMCID: PMC7004233.
• He X, Chen GY, Zhang Q. Comprehensive Identification of Amadori Compound-Modified Phosphatidylethanolamines in Human Plasma. Chem Res Toxicol. 2019;32(7):1449-57. Epub 2019/06/13. doi: 10.1021/acs.chemrestox.9b00158. PubMed PMID: 31188577.
• Chen GY, Zhang Q. Comprehensive analysis of oxylipins in human plasma using reversed-phase liquid chromatography-triple quadrupole mass spectrometry with heatmap-assisted selection of transitions. Anal Bioanal Chem. 2019;411(2):367-85. Epub 2018/11/09. doi: 10.1007/s00216-018-1446-3. PubMed PMID: 30406832; PMCID: PMC6457987.
• Barrientos RC, Zhang Q. Differential Isotope Labeling by Permethylation and Reversed-Phase Liquid Chromatography-Mass Spectrometry for Relative Quantification of Intact Neutral Glycolipids in Mammalian Cells. Anal Chem. 2019;91(15):9673-81. Epub 2019/07/20. doi: 10.1021/acs.analchem.9b01206. PubMed PMID: 31322861.
• Barrientos RC, Zhang Q. Fragmentation Behavior and Gas-Phase Structures of Cationized Glycosphingolipids in Ozone-Induced Dissociation Mass Spectrometry. J Am Soc Mass Spectrom. 2019;30(9):1609-20. Epub 2019/07/10. doi: 10.1007/s13361-019-02267-7. PubMed PMID: 31286447; PMCID: PMC6697594.

For earlier publications, see here.