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Biological Sciences Staff information

Weijun Qian

Integrative Omics
Scientist
Pacific Northwest National Laboratory
PO Box 999
MSIN: K8-98
Richland, WA 99352
509/371-6572

Biography

Dr. Wei-Jun Qian is a scientist in the Biological Separations & Mass Spectrometry Group within the Biological Sciences Division at Pacific Northwest National Laboratory (PNNL). Dr. Qian's research focuses on the development of integrated mass spectrometry-based approaches for enabling quantitative measurements of the dynamics of protein abundances and protein modifications in biological and clinical applications.

Education and Credentials

  • Ph.D. Bioanalytical Chemistry, University of Florida, Gainesville, FL
  • B.S. Chemistry, Nanjing University, Nanjing, China

PNNL Publications

2014

  • Guo J, MJ Gaffrey, D Su, T Liu, DG Camp, II, RD Smith, and W Qian. 2014. "Resin-assisted enrichment of thios as a general strategy for proteomic profiling of cysteine-based reversible modifications." Nature Protocols 9(1):64-75.  doi:10.1038/nprot.2013.161
  • Shi T, Y Gao, SI Quek, TL Fillmore, CD Nicora, D Su, R Zhao, KD Rodland, T Liu, RD Smith, DW Chan, DG Camp, II, AY Liu, and W Qian. 2014. "A highly sensitive targeted mass spectrometric assay for quantification of low-abundance AGR2 in human urine and serum." Journal of Proteome Research 13(2):875-882.  doi:10.1021/pr400912c
  • Sigdel TK, CD Nicora, SC Hsieh, H Dai, W Qian, DG Camp, II, and MM Sarwal. 2014. "Optimization for Peptide Sample Preparation for Urine Peptidomics." Clinical Proteomics 11:Article No. 7.  doi:10.1186/1559-0275-11-7
  • Sigdel TK, N Salomonis, CD Nicora, S Ryu, J He, V Dinh, DJ Orton, RJ Moore, SC Hsieh, H Dai, M Thien-Vu, W Xiao, RD Smith, W Qian, DG Camp, II, and MM Sarwal. 2014. "The Identification of Novel Potential Injury Mechanisms and Candidate Biomarkers in Renal Allograft Rejection by Quantitative Proteomics." Molecular & Cellular Proteomics. MCP 13(2):621-631.  doi:10.1074/mcp.M113.030577
  • Su D, MJ Gaffrey, J Guo, KE Hatchell, RK Chu, TRW Clauss, JT Aldrich, S Wu, SO Purvine, DG Camp, II, RD Smith, BD Thrall, and W Qian. 2014. "Proteomic Identification and Quantification of S-glutathionylation in Mouse Macrophages Using Resin-Assisted Enrichment and Isobaric Labeling." Free Radical Biology & Medicine 67:460-470.  doi:10.1016/j.freeradbiomed.2013.12.004
  • Zhang Q, MM Matzke, AA Schepmoes, RJ Moore, BJM Webb-Robertson, Z Hu, ME Monroe, W Qian, RD Smith, and WF Morgan. 2014. "High and Low Doses of Ionizing Radiation Induce Different Secretome Profiles in a Human Skin Model." PLoS One 9(3):Article No. e92332.  doi:10.1371/journal.pone.0092332

2013

  • Dai Z, UK Aryal, AK Shukla, W Qian, RD Smith, JK Magnuson, WS Adney, GT Beckham, R Brunecky, ME Himmel, SR Decker, X Ju, X Zhang, and SE Baker. 2013. "Impact of alg3 gene deletion on growth, development, pigment production, protein secretion, and functions of recombinant Trichoderma reesei cellobiohydrolases in Aspergillus niger." Fungal Genetics and Biology : FG & B 61:120-132.  doi:10.1016/j.fgb.2013.09.004
  • El Ouaamari A, D Kawamori, E Dirice, CW Liew, JL Shadrach, J Hu, H Katsuta, J Hollister-Lock, W Qian, AJ Wagers, and RN Kulkarni. 2013. "Liver-derived systemic factors drive -cell hyperplasia in insulin resistant states." Cell Reports 3(2):401-410.  doi:10.1016/j.celrep.2013.01.007
  • Finnerty CC, MG Jeschke, W Qian, A Kaushal, W Xiao, T Liu, MA Gritsenko, RJ Moore, DG Camp, II, LL Moldawer, C Elson, D Schoenfeld, R Gamelli, N Gibran, M Klein, B Arnoldo, D Remick, RD Smith, RW Davis, RG Tompkins, and DN Herndon. 2013. "DETERMINATION OF BURN PATIENT OUTCOME BY LARGE-SCALE QUANTITATIVE DISCOVERY PROTEOMICS." Critical Care Medicine 41(6):1421-1434.  doi:10.1097/CCM.0b013e31827c072e
  • Fu N, D Su, JR Cort, B Chen, Y Xiong, W Qian, A Konopka, DJ Bigelow, and TC Squier. 2013. "Synthesis and Application of an Environmentally Insensitive Cy3-Based Arsenical Fluorescent Probe to Identify Adaptive Microbial Responses Involving Proximal Dithiol Oxidation." Journal of the American Chemical Society 135(9):3567-3575.  doi:10.1021/ja3117284
  • Kim JS, ME Monroe, DG Camp, II, RD Smith, and W Qian. 2013. "In-Source Fragmentation and the Sources of Partially Tryptic Peptides in Shotgun Proteomics." Journal of Proteome Research 12(2):910-916.  doi:10.1021/pr300955f
  • Kim JS, Z Dai, UK Aryal, RJ Moore, DG Camp, II, SE Baker, RD Smith, and W Qian. 2013. "Resin-assisted Enrichment of N-terminal Peptides for Characterizing Proteolytic Processing." Analytical Chemistry 85(14):6826-6832.  doi:10.1021/ac401000q
  • Nakayasu ES, C Ansong, JN Brown, F Yang, D Lopez-Ferrer, W Qian, RD Smith, and JN Adkins. 2013. "Evaluation of selected binding domains for the analysis of ubiquitinated proteomes." Journal of the American Society for Mass Spectrometry 24(8):1214-1223.  doi:10.1007/s13361-013-0619-8
  • Shi T, and W Qian. 2013. "Antibody-free PRISM-SRM for multiplexed protein quantification: Is this the new competition for immunoassays in bioanalysis?" Bioanalysis 5(3):267-269.  doi:10.4155/bio.12.336
  • Shi T, TL Fillmore, Y Gao, R Zhao, J He, AA Schepmoes, CD Nicora, C Wu, JL Chambers, RJ Moore, J Kagan, S Srivastava, AY Liu, KD Rodland, T Liu, DG Camp, II, RD Smith, and W Qian. 2013. "Long-Gradient Separations Coupled with Selected Reaction Monitoring for Highly Sensitive, Large Scale Targeted Protein Quantification in a Single Analysis." Analytical Chemistry 85(19):9196-9203.  doi:10.1021/ac402105s
  • Shi T, X Sun, Y Gao, TL Fillmore, AA Schepmoes, R Zhao, J He, RJ Moore, J Kagan, KD Rodland, T Liu, AY Liu, RD Smith, K Tang, DG Camp, II, and W Qian. 2013. "Targeted quantification of low ng/mL level proteins in human serum without immunoaffinity depletion." Journal of Proteome Research 12(7):3353-3361.  doi:10.1021/pr400178v
  • Su D, AK Shukla, B Chen, JS Kim, ES Nakayasu, Y Qu, UK Aryal, KK Weitz, TRW Clauss, ME Monroe, DG Camp, II, DJ Bigelow, RD Smith, RN Kulkarni, and W Qian. 2013. "Quantitative Site-specific Reactivity Profiling of S-Nitrosylation in Mouse Skeletal Muscle Using Cysteinyl Peptide Enrichment Coupled with Mass Spectrometry." Free Radical Biology & Medicine 57:68-78.  doi:10.1016/j.freeradbiomed.2012.12.010
  • Zhou J, RK Krovvidi, Y Gao, H Gao, BO Petritis, A De, C Miller-Graziano, PE Bankey, VA Petyuk, CD Nicora, TRW Clauss, RJ Moore, T Shi, JN Brown, A Kaushal, W Xiao, RW Davis, RV Maier, RG Tompkins, W Qian, DG Camp, II, and RD Smith. 2013. "Trauma-associated Human Neutrophil Alterations Revealed by Comparative Proteomics Profiling." Proteomics - Clinical Applications 7(7-8):571-583.  doi:10.1002/prca.201200109

2012

  • Aryal UK, CT Lin, JS Kim, TH Heibeck, J Wang, W Qian, and Y Lin. 2012. "Identification of phosphorylated butyrylcholinesterase in human plasma using immunoaffinity purification and mass spectrometry." Analytica Chimica Acta 723:68-75. 
  • Liu T, M Hossain, AA Schepmoes, TL Fillmore, LJ Sokoll, SR Kronewitter, G Izmirlian, T Shi, W Qian, R Leach, IM Thompson, DW Chan, RD Smith, J Kagan, S Srinivastava, KD Rodland, and DG Camp, II. 2012. "Analysis of Serum Total and Free PSA Using Immunoaffinity Depletion Coupled to SRM: Correlation with Clinical Immunoassay Tests." Journal of Proteomics 75(15):4747-4757.  doi:10.1016/j.jprot.2012.01.035
  • Shi T, D Su, T Liu, K Tang, DG Camp, II, W Qian, and RD Smith. 2012. "Advancing the sensitivity of selected reaction monitoring-based targeted quantitative proteomics." Proteomics 12(8):1074-1092.  doi:10.1002/pmic.201100436
  • Shi T, J Zhou, MA Gritsenko, M Hossain, DG Camp, II, RD Smith, and W Qian. 2012. "IgY14 and SuperMix immunoaffinity separations coupled with liquid chromatography-mass spectrometry for human plasma proteomic biomarker discovery." Methods 56(2):246-253.  doi:10.1016/j.ymeth.2011.09.001
  • Shi T, TL Fillmore, X Sun, R Zhao, AA Schepmoes, M Hossain, F Xie, S Wu, JS Kim, NJ Jones, RJ Moore, L Pasa-Tolic, J Kagan, KD Rodland, T Liu, K Tang, DG Camp, II, RD Smith, and W Qian. 2012. "Antibody-free, targeted mass-spectrometric approach for quantification of proteins at low picogram per milliliter levels in human plasma/serum." Proceedings of the National Academy of Sciences of the United States of America 109(38):15395-15400.  doi:10.1073/pnas.1204366109
  • Wang L, UK Aryal, Z Dai, AC Mason, ME Monroe, Z Tian, J Zhou, D Su, KK Weitz, T Liu, DG Camp, II, RD Smith, SE Baker, and W Qian. 2012. "Mapping N-linked Glycosylation Sites in the Secretome and Whole Cells of Aspergillus niger Using Hydrazide Chemistry and Mass Spectrometry." Journal of Proteome Research 11(1):143-56.  doi:10.1021/pr200916k
  • Zhou J, GP Dann, T Shi, L Wang, X Gao, D Su, CD Nicora, AK Shukla, RJ Moore, T Liu, DG Camp, II, RD Smith, and W Qian. 2012. "Simple Sodium Dodecyl Sulfate-Assisted Sample Preparation Method for LC-MS-based Proteomic Applications." Analytical Chemistry 84(6):2862-2867.  doi:10.1021/ac203394r

2011

  • Hossain M, DT Kaleta, EW Robinson, T Liu, R Zhao, JS Page, RT Kelly, RJ Moore, K Tang, DG Camp, II, W Qian, and RD Smith. 2011. "Enhanced Sensitivity for Selected Reaction Monitoring-Mass Spectrometry-based Targeted Proteomics using a Dual-Stage Electrodynamic Ion Funnel Interface ." Molecular & Cellular Proteomics. MCP 10(2):, doi:10.1074/mcp.M000062-MCP201
  • Kim JS, TL Fillmore, T Liu, EW Robinson, M Hossain, BL Champion, RJ Moore, DG Camp, II, RD Smith, and W Qian. 2011. "18O-Labeled Proteome Reference as Global Internal Standards for Targeted Quantification by Selected Reaction Monitoring-Mass Spectrometry." Molecular & Cellular Proteomics. MCP 10(12):Article No. M110.007302.  doi:10.1074/mcp.M110.007302
  • Qian W, BO Petritis, CD Nicora, and RD Smith. 2011. "Trypsin-catalyzed oxygen-18 labeling for quantitative proteomics." Chapter 3 in Gel-Free Proteomics, Methods and Protocols: Methods in Molecular Biology, vol. 753, ed. K Gevaert and J Vandekerckhove, pp. 43-54.  Humana Press Inc., Totowa, NJ. 
  • Xie F, T Liu, W Qian, VA Petyuk, and RD Smith. 2011. "Liquid Chromatography-Mass Spectrometry-based Quantitative Proteomics." Journal of Biological Chemistry 286(29):25443-25449. 
  • Zhang H, F Yang, W Qian, RN Brown, Y Wang, ED Merkley, JH Park, ME Monroe, SO Purvine, RJ Moore, L Shi, JK Fredrickson, L Pasa-Tolic, RD Smith, and MS Lipton. 2011. "Identification of c-Type Heme-Containing Peptides Using Non-Activated Immobilized Metal Affinity Cchromatography Resin Enrichment and Higher-Energy Collisional Dissociation." Analytical Chemistry 83(19):7260-7268.  doi:10.1021/ac2000829
  • Zhang H, KE Burnum, ML Luna, BO Petritis, JS Kim, W Qian, RJ Moore, A Heredia-Langner, BJM Webb-Robertson, BD Thrall, DG Camp, II, RD Smith, JG Pounds, and T Liu. 2011. "Quantitative proteomics analysis of adsorbed plasma proteins classifies nanoparticles with different surface properties and size." Proteomics 11(23):4569-4577.  doi:10.1002/pmic.201100037
  • Zhou J, GP Dann, CW Liew, RD Smith, RN Kulkarni, and W Qian. 2011. "Unraveling pancreatic islet biology by quantitative proteomics." Expert Review of Proteomics 8(4):495-504.  doi:10.1586/epr.11.39

2010

  • Kotz KT, W Xiao, C Miller-Graziano, W Qian, A Russom, EA Warner, LL Moldawer, A De, PE Bankey, BO Petritis, DG Camp, II, AE Rosenbach, J Goverman, SP Fagan, BH Brownstein, D Irimia, W Xu, J Wilhelmy, M Mindrinos, RD Smith, RW Davis, RG Tompkins, and M Toner. 2010. "Clinical Microfluidics for Neutrophil Genomics and Proteomics." Nature Medicine 16(9):1042-1048.  doi:10.1038/nm.2205
  • Petyuk VA, W Qian, RD Smith, and DJ Smith. 2010. "Mapping protein abundance patterns in the brain using voxelation combined with liquid chromatography and mass spectrometry." Methods 50(2):77-84. 
  • Qian W, BO Petritis, A Kaushal, CC Finnerty, MG Jescheke, ME Monroe, RJ Moore, AA Schepmoes, W Xiao, LL Moldawer, RW Davis, RG Tompkins, DN Herndon, DG Camp, II, and RD Smith. 2010. "Plasma Proteome Response to Severe Burn Injury Revealed by 18O-Labeled "Universal" Reference-based Quantitative Proteomics." Journal of Proteome Research 9(9):4779-4789. 
  • Sigdel TK, A Kaushal, MA Gritsenko, AD Norbeck, W Qian, W Xiao, DG Camp, II, RD Smith, and MM Sarwal. 2010. "Shotgun Proteomics Identifies Proteins Specific for Acute Renal Transplant Rejection." Proteomics - Clinical Applications 4(1):32-47.  doi:10.1002/prca.200900124
  • Tang Z, H Wu, D Du, J Wang, H Wang, W Qian, DJ Bigelow, JG Pounds, RD Smith, and Y Lin. 2010. "Sensitive Immunoassays of Nitrated Fibrinogen in Human Biofluids." Talanta 81(4-5):1662-1669. 
  • True LD, H Zhang, M Ye, CY Huang, PS Nelson, PD Von Haller, LW Tjoelker, JS Kim, W Qian, RD Smith, WJ Ellis, ES Liebeskind, and AY Liu. 2010. "CD90/THY1 is over-expressed in prostate cancer-associated fibroblasts and could serve as a cancer biomarker." Modern Pathology 23(10):1346-1356. 
  • Zhang H, RN Brown, W Qian, ME Monroe, SO Purvine, RJ Moore, MA Gritsenko, L Shi, MF Romine, JK Fredrickson, L Pasa-Tolic, RD Smith, and MS Lipton. 2010. "Quantitative analysis of cell surface membrane proteins using membrane-impermeable chemical probe coupled with 18O labeling." Journal of Proteome Research 9(5):2160-2169. 
  • Zhang X, J Zhou, MH Chin, AA Schepmoes, VA Petyuk, KK Weitz, BO Petritis, ME Monroe, DG Camp, II, SA Wood, WP Melega, DJ Bigelow, DJ Smith, W Qian, and RD Smith. 2010. " Region-Specific Protein Abundance Changes in the Brain of MPTP-induced Parkinson's Disease Mouse Model ." Journal of Proteome Research 9(3):1496-1509.  doi:10.1021/pr901024z
  • Zhang X, ME Monroe, B Chen, MH Chin, TH Heibeck, AA Schepmoes, F Yang, BO Petritis, DG Camp, II, JG Pounds, JM Jacobs, DJ Smith, DJ Bigelow, RD Smith, and W Qian. 2010. "Endogenous 3, 4- Dihydroxyphenylalanine and Dopaquinone Modifications on Protein Tyrosine: links to mitochondrially derived oxidative stress via hydroxyl radical." Molecular & Cellular Proteomics. MCP 9(6):1199-1208. 
  • Zhou J, AA Schepmoes, X Zhang, RJ Moore, ME Monroe, JH Lee, DG Camp, II, RD Smith, and W Qian. 2010. "Improved LC-MS/MS Spectral Counting Statistics by Recovering Low Scoring Spectra Matched to Confidently Identified Peptide Sequences." Journal of Proteome Research 9(11):5698-5704.  doi:10.1021/pr100508p

2009

  • Petritis BO, W Qian, DG Camp, II, and RD Smith. 2009. "A Simple Procedure for Effective Quenching of Trypsin Activity and Prevention of 18O-Labeling Back-Exchange." Journal of Proteome Research 8(5):2157-2163.  doi:10.1021/pr800971w
  • Heibeck TH, SJ Ding, LK Opresko, R Zhao, AA Schepmoes, F Yang, AV Tolmachev, ME Monroe, DG Camp, II, RD Smith, HS Wiley, and W Qian. 2009. "An Extensive Survey of Tyrosine Phosphorylation Revealing New Sites in Human Mammary Epithelial Cells." Journal of Proteome Research 8(8):3852-3861. 
  • Karpievitch Y, JR Stanley, T Taverner, J Huang, JN Adkins, C Ansong, F Heffron, TO Metz, W Qian, H Yoon, RD Smith, and AR Dabney. 2009. "A statistical framework for protein quantitation in bottom-up MS-based proteomics ." Bioinformatics 25(16):2028-2034.  doi:10.1093/bioinformatics/btp362
  • Karpievitch Y, JR Stanley, T Taverner, J Huang, JN Adkins, C Ansong, F Heffron, TO Metz, W Qian, H Yoon, RD Smith, and AR Dabney. 2009. "A Statistical Framework for Protein Quantitation in Bottom-Up MS-Based Proteomics." Bioinformatics 25(16):2028-2034. 
  • Park CC, VA Petyuk, W Qian, RD Smith, and DJ Smith. 2009. "Dual spatial maps of transcript and protein abundance in the mouse brain." Expert Review of Proteomics 6(3):243-249. 
  • Qian W, T Liu, VA Petyuk, MA Gritsenko, BO Petritis, AD Polpitiya, A Kaushal, W Xiao, CC Finnerty, MG Jescheke, N Jaitly, ME Monroe, RJ Moore, LL Moldawer, RW Davis, RG Tompkins, DN Hemdon, DG Camp, II, and RD Smith. 2009. "Large-Scale Multiplexed Quantitative Discovery Proteomics Enabled by the Use of an O-18-Labeled "Universal" Reference Sample ." Journal of Proteome Research 8(1):290-299. 
  • Schepmoes AA, Q Zhang, BO Petritis, W Qian, and RD Smith. 2009. "N-Terminal Enrichment: Developing a Protocol to Detect Specific Proteolytic Fragments." Journal of Biomolecular Techniques:JBT 20(5):263-265. 
  • Zhou J, BO Petritis, K Petritis, AD Norbeck, KK Weitz, RJ Moore, DG Camp, II, RN Kulkarni, RD Smith, and W Qian. 2009. "Mouse-Specific Tandem IgY7-SuperMix Immunoaffinity Separations for Improved LC-MS/MS Coverage of the Plasma Proteome ." Journal of Proteome Research 8(11):5387-5395. 

2008

  • Bigelow DJ, and W Qian. 2008. "Quantitative Proteome Mapping of Nitrotyrosines." In Methods in Enzymology, Nitric Oxide Part F: Oxidative and Nitrosative Stress in Redox Regulation of Cell Signaling, vol. 440, pp. 191-205.  Elsevier, Amsterdam, Netherlands. 
  • Chin MH, W Qian, H Wang, VA Petyuk, JS Bloom, DM Sforza, G Lacan, D Liu, AH Khan, RM Cantor, DJ Bigelow, WP Melega, DG Camp, II, RD Smith, and DJ Smith. 2008. "Mitochondrial dysfunction, oxidative stress and apoptosis revealed by proteomic and transcriptomic analyses of the striata in two mouse models of Parkinson's disease." Journal of Proteome Research 7(2):666-677.  doi:10.1021/pr070546l
  • Ding SJ, Y Wang, JM Jacobs, W Qian, F Yang, AV Tolmachev, X Du, W Wang, RJ Moore, ME Monroe, SO Purvine, KM Waters, TH Heibeck, JN Adkins, DG Camp, II, RL Klemke, and RD Smith. 2008. "Quantitative Phosphoproteome Analysis of Lysophosphatidic Acid Induced Chemotaxis applying Dual-step 8O Labeling Coupled with Immobilized Metal-ion Affinity Chromatography." Journal of Proteome Research 7(10):4215-24.  doi:10.1021/pr7007785
  • Kelly RT, JS Page, R Zhao, W Qian, HM Mottaz, K Tang, and RD Smith. 2008. "Capillary-Based Multi Nanoelectrospray Emitters: Improvements in Ion Transmission Efficiency and Implementation with Capillary Reversed-Phase LC-ESI-MS." Analytical Chemistry 80(1):143-149.  doi:10.1021/ac701647s
  • Lopez-Ferrer D, TH Heibeck, K Petritis, KK Hixson, W Qian, ME Monroe, AM Mayampurath, RJ Moore, ME Belov, DG Camp, II, and RD Smith. 2008. "Rapid Sample Processing For LC-MS Based Quantitative Proteomics Using High Intensity Focused Ultrasounds." Journal of Proteome Research 7(9):3860-3867.  doi:10.1021/pr800161x
  • Metz TO, W Qian, JM Jacobs, MA Gritsenko, RJ Moore, AD Polpitiya, ME Monroe, DG Camp, II, PW mueller, and RD Smith. 2008. "Application of proteomics in the discovery of candidate protein biomarkers in a Diabetes Autoantibody Standardization Program sample subset ." Journal of Proteome Research 7(2):698-707.  doi:10.1021/pr700606w
  • Pasa-Tolic L, JM Jacobs, W Qian, and RD Smith. 2008. "Quantitative Proteomics using Nano-LC with High Accuracy Mass Spectrometry." Chapter 7 in Clinical Proteomics: From Diagnosis to Therapy, ed. JE Van Eyk and MJ Dunn, pp. 89-100.  Wiley-VCH, Weinheim, Germany. 
  • Petyuk VA, W Qian, C Hinault, MA Gritsenko, M Singhal, ME Monroe, DG Camp, II, RN Kulkarni, and RD Smith. 2008. "Characterization of the mouse pancreatic islet proteome and comparative analysis with other mouse tissues." Journal of Proteome Research 7(8):3114-3126.  doi:10.1021/pr800205b
  • Petyuk VA, N Jaitly, RJ Moore, J Ding, TO Metz, K Tang, ME Monroe, AV Tolmachev, JN Adkins, ME Belov, AR Dabney, W Qian, DG Camp, II, and RD Smith. 2008. "Elimination of Systematic Mass Measurement Errors in Liquid Chromatography-Mass Spectrometry Based Proteomics using Regression Models and a priori Partial Knowledge of the Sample Content ." Analytical Chemistry 80(3):693-706.  doi:10.1021/ac701863d
  • Polpitiya AD, W Qian, N Jaitly, VA Petyuk, JN Adkins, DG Camp, II, GA Anderson, and RD Smith. 2008. " DAnTE: a statistical tool for quantitative analysis of -omics data." Bioinformatics 24(13):1556-1558.  doi:10.1093/bioinformatics/btn217
  • Qian W, DT Kaleta, BA Ogata, H Jiang, T Liu, X Zhang, HM Mottaz, SM Varnum, DG Camp, II, huang, X Fang, W Zhang, and RD Smith. 2008. "Enhanced Detection of Low Abundant Human Plasma Proteins using a Tandem IgY12-SuperMix Immunoaffinity Separation Strategy." Molecular & Cellular Proteomics. MCP 7(10):1963-1973.  doi:10.1074/mcp.M800008-MCP200
  • Shen Y, N Tolic, KK Hixson, SO Purvine, L Pasa-Tolic, W Qian, JN Adkins, RJ Moore, and RD Smith. 2008. "Proteome-wide identification of proteins and their modifications with decreased ambiguities and improved false discovery rates using unique sequence tags." Analytical Chemistry 80(6):1871-82.  doi:10.1021/ac702328x

2007

  • Chan EY, W Qian, DL Diamond, T Liu, MA Gritsenko, ME Monroe, DG Camp, II, RD Smith, and MG Katze. 2007. "Quantitative analysis of human immunodeficiency virus type 1-infected CD4(+) cell proteome: Dysregulated cell cycle progression and nuclear transport coincide with robust virus production." Journal of Virology 81(14):7571-7583. 
  • Chin MH, AB Geng, AH Khan, W Qian, VA Petyuk, J Boline, S Levy, AW Toga, RD Smith, RM Leahy, and DJ Smith. 2007. "A genome-scale map of expression for a mouse brain section obtained using voxelation." Physiological Genomics 30(3):313-321. 
  • Ding SJ, W Qian, and RD Smith. 2007. "Quantitative Proteomic Approaches for Studying Phosphotyrosine Signaling." Expert Review of Proteomics 4(1):13-23.  doi:doi:10.1586/14789450.4.1.13
  • Liu T, W Qian, DG Camp, II, and RD Smith. 2007. "The Use of a Quantitative Cysteinyl-peptide Enrichment Technology for High-Throughput Quantitative Proteomics." In Quantitative Proteomics by Mass Spectrometry, Methods in Molecular Biology, vol. 359, pp. 107-24.  Humana Press, Totowa, NJ. 
  • Liu T, ME Belov, N Jaitly, W Qian, and RD Smith. 2007. "Accurate Mass Measurements in Proteomics." Chemical Reviews 107(8):3621-3653.  doi:10.1021/cr068288j
  • Petyuk VA, W Qian, MH Chin, HH Wang, EA Livesay, ME Monroe, JN Adkins, N Jaitly, DJ Anderson, DG Camp, II, DJ Smith, and RD Smith. 2007. "Spatial Mapping of Protein Abundances in the Mouse Brain by Voxelation Integrated with High-Throughput Liquid Chromatography - Mass Spectrometry." Genome Research 17(3):328-336.  doi:10.1101/gr.5799207
  • Wang Y, SJ Ding, W Wang, JM Jacobs, W Qian, RJ Moore, F Yang, DG Camp, II, RD Smith, and RL Klemke. 2007. "Profiling Signaling Polarity in Chemotactic Cells." Proceedings of the National Academy of Sciences of the United States of America 104(20):8328-8333.  doi:10.1073/pnas.0701103104
  • Zhang Q, W Qian, TV Knyushko, TRW Clauss, SO Purvine, RJ Moore, CA Sacksteder, MH Chin, DJ Smith, DG Camp, II, DJ Bigelow, and RD Smith. 2007. "A Method for Selective Enrichment and Analysis of Nitrotyrosine-Containing Peptides in Complex Proteome Samples." Journal of Proteome Research 6(6):2257-2268.  doi:10.1021/pr0606934

2006

  • Qian W, JM Jacobs, T Liu, DG Camp, II, and RD Smith. 2006. "Advances and Challenges in Liquid Chromatography-Mass Spectrometry-Based Proteomics Profiling for Clinical Applications." Molecular & Cellular Proteomics. MCP 5(10):1727-1744.  doi:10.1074/mcp.M600162-MCP200
  • Callister SJ, RC Barry, JN Adkins, ET Johnson, W Qian, BJM Webb-Robertson, RD Smith, and MS Lipton. 2006. "Normalization Approaches for Removing Systematic Biases Associated with Mass Spectrometry and Label-Free Proteomics." Journal of Proteome Research 5(2):277-286.  doi:10.1021/pr050300l
  • Liu T, W Qian, HM Mottaz, MA Gritsenko, AD Norbeck, RJ Moore, SO Purvine, DG Camp, II, and RD Smith. 2006. "Evaluation of Multi-Protein Immunoaffinity Subtraction for Plasma Proteomics and Candidate Biomarker Discovery Using Mass Spectrometry ." Molecular & Cellular Proteomics. MCP 5(11):2167-2174. 
  • Liu T, W Qian, MA Gritsenko, W Xiao, LL Moldawer, A Kaushal, ME Monroe, SM Varnum, RJ Moore, SO Purvine, RV Maier, RW Davis, RG Tompkins, DG Camp, II, and RD Smith. 2006. "High Dynamic Range Characterization of the Trauma Patient Plasma Proteome ." Molecular & Cellular Proteomics. MCP 5(10):1899-1913.  doi:10.1074/mcp.M600068-MCP200
  • Metz TO, JM Jacobs, MA Gritsenko, G Fontes, W Qian, DG Camp, II, VJ Poitout, and RD Smith. 2006. "Characterization of the Human Pancreatic Islet Proteome by Two-Dimensional LC/MS/MS." Journal of Proteome Research 5(12):3345-3354.  doi: 10.1021/pr060322n
  • Petritis K, LJ Kangas, B Yan, ME Monroe, EF Strittmatter, W Qian, JN Adkins, RJ Moore, Y Xu, MS Lipton, DG Camp, II, and RD Smith. 2006. "Improved peptide elution time prediction for reversed-phase liquid chromatography-MS by incorporating peptide sequence information." Analytical Chemistry 78(14):5026-5039.  doi:10.1021/ac060143p
  • Sacksteder CA, W Qian, TV Knyushko, HH Wang, MH Chin, G Lacan, WP Melega, DG Camp, II, RD Smith, DJ Smith, TC Squier, and DJ Bigelow. 2006. "Endogenously Nitrated Proteins in Mouse Brain: Links To Neurodegenerative Disease ." Biochemistry 45(26):8009-8022.  doi:10.1021/bi060474w
  • Wang HH, W Qian, MH Chin, VA Petyuk, RC Barry, T Liu, MA Gritsenko, HM Mottaz, RJ Moore, DG Camp, II, AH Khan, D Smith, and RD Smith. 2006. "Characterization of the Mouse Brain Proteome Using Global Proteomic Analysis Complemented with Cysteinyl-Peptide Enrichment." Journal of Proteome Research 5(2):361-369. 
  • Zimmer JS, ME Monroe, W Qian, and RD Smith. 2006. "Advances in Proteomics Data Analysis and Display Using an Accurate Mass and Time Tag Approach ." Mass Spectrometry Reviews 25(3):450-482. 

2005

  • Qian W, JM Jacobs, DG Camp, II, ME Monroe, RJ Moore, MA Gritsenko, SE Calvano, SF Lowry, W Xiao, LL Moldawer, RW Davis, RG Tompkins, and RD Smith. 2005. "Comparative proteome analyses of human plasma following in vivo lipopolysaccharide administration using multidimensional separations coupled with tandem mass spectrometry." Proteomics 5(2):572-584.  doi:10.1002/pmic.200400942
  • Qian W, JM Jacobs, DG Camp, II, ME Monroe, RJ Moore, MA Gritsenko, SE Calvano, SF Lowry, W Xiao, LL Moldawer, RW Davis, RG Tompkins, and RD Smith. 2005. "Comparative Proteome Analyses of Human Plasma Following in vivo Lipopolysaccharide Administration Using Multidimensional Separations Coupled with Tandem Mass Spectrometry." Proteomics 5(2):572-584. 
  • Qian W, ME Monroe, T Liu, JM Jacobs, GA Anderson, Y Shen, RJ Moore, DJ Anderson, R Zhang, SE Calvano, SF Lowry, W Xiao, LL Moldawer, RW Davis, RG Tompkins, DG Camp, II, and RD Smith. 2005. "Quantitative Proteome Analysis of Human Plasma Following in vivo Lipopolysaccharide Administration using O-16/O-18 Labeling and the Accurate Mass and Time Tag Approach." Molecular & Cellular Proteomics. MCP 4(5):700-709. 
  • Qian W, T Liu, ME Monroe, EF Strittmatter, JM Jacobs, LJ Kangas, K Petritis, DG Camp, II, and RD Smith. 2005. "Probability-Based Evaluation of Peptide and Protein Identifications from Tandem Mass Spectrometry and SEQUEST Analysis: The Human Proteome." Journal of Proteome Research 4(1):53-62. 
  • Jacobs JM, DL Diamond, EY Chan, MA Gritsenko, W Qian, M Stastna, T Baas, DG Camp, II, RL Carithers, Jr., RD Smith, and MG Katze. 2005. "Proteome Analysis of Liver Cells Expressing a Full- Length Hepatitis C Virus (HCV) Replicon and Biopsy Specimens of Posttransplantation Liver from HCV-Infected Patients." Journal of Virology 79(12):7558-7569. 
  • Jacobs JM, JN Adkins, W Qian, T Liu, Y Shen, DG Camp, II, and RD Smith. 2005. "Utilizing human blood plasma for proteomic biomarker discovery." Journal of Proteome Research 4(4):1073-1085.  doi:10.1021/pr0500657
  • Jacobs JM, ME Monroe, W Qian, Y Shen, GA Anderson, and RD Smith. 2005. "Ultra-Sensitive, High Throughput and Quantitative Proteomics Measurements." International Journal of Mass Spectrometry 240(3):195-212. 
  • Liu T, W Qian, MA Gritsenko, DG Camp, II, ME Monroe, RJ Moore, and RD Smith. 2005. "Human Plasma N-Glycoproteome Analysis by Immunoaffinity Subtraction, Hydrazide Chemistry, and Mass Spectrometry." Journal of Proteome Research 4(6):2070-2080. 
  • Liu T, W Qian, WNU Chen, JM Jacobs, RJ Moore, DJ Anderson, MA Gritsenko, ME Monroe, BD Thrall, DG Camp, II, and RD Smith. 2005. "Improved Proteome Coverage by Using High Efficiency Cysteinyl-peptide Enrichment: The Human Mammary Epithelial Cell Proteome." Proteomics 5(5):1263-1273. 
  • Masselon CD, L Pasa-Tolic, N Tolic, GA Anderson, B Bogdanov, AN Vilkov, Y Shen, R Zhao, W Qian, MS Lipton, DG Camp, II, and RD Smith. 2005. "Targeted Comparative Proteomics by Liquid Chromatography - Tandem Fourier ion cyclotron resonance Mass Spectrometry." Analytical Chemistry 77(2):400-406. 
  • Wang HH, W Qian, HM Mottaz, TRW Clauss, DJ Anderson, RJ Moore, DG Camp, II, AH Khan, DM Sforza, M Pallavicini, DJ Smith, and RD Smith. 2005. "Development and Evaluation of a Micro- and Nanoscale Proteomic Sample Preparation Method." Journal of Proteome Research 4(6):2397-2403.  doi:10.1021/pr050160f

2004

  • Qian W, DG Camp, II, and RD Smith. 2004. "High Throughput Proteomics Using Fourier Transform Ion Cyclotron Resonance Mass Spectrometry." Expert Review of Proteomics 1(1):87-95. 
  • Liu T, W Qian, EF Strittmatter, DG Camp, II, GA Anderson, BD Thrall, and RD Smith. 2004. "High throughput comparative proteome analysis using a quantitative cysteinyl-peptide enrichment technology." Analytical Chemistry 76(18):5345-5353. 

2003

  • Qian W, MB Goshe, DG Camp, II, LR Yu, K Tang, and RD Smith. 2003. "Phosphoprotein Isotope-Coded Solid-Phase Tag Approach for Enrichment and Quantitative Analysis of Phosphopeptides from Complex Mixtures." Analytical Chemistry 75(20):5441-5450. 

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