U.S. Department of Energy

Pacific Northwest National Laboratory

Vladislav Petyuk

Vladislav Petyuk
Professional Title: 


  • Dhondt I, VA Petyuk, S Bauer, HM Brewer, RD Smith, GG Depuydt, and BP Braeckman. 2017. "Changes of Protein Turnover in Aging Caenorhabditis elegans." Molecular & Cellular Proteomics. MCP 16(9):1621-1633. doi:10.1074/mcp.RA117.000049
  • Lobanov AV, SM Heaphy, AA Turanov, MV Gerashchenko, S Pucciarelli, RR Devaraj, F Xie, VA Petyuk, RD Smith, LA Klobutcher, JF Atkins, C Miceli, DL Hatfield, PV Baranov, and VN Gladyshev. 2017. "Position-dependent termination and widespread obligatory frameshifting in Euplotes translation." Nature Structural & Molecular Biology 24(1):61-68. doi:10.1038/nsmb.3330
  • Nielson C, J Wiedrick, J Shen, JM Jacobs, EM Baker, A Baraff, PD Piehowski, C Lee, A Baratt, VA Petyuk, SK Mcweeney, JY Lim, DC Bauer, NE Lane, PM Cawthon, RD Smith, J Lapidus, and ES Orwoll. 2017. "Identification of Hip BMD Loss and Fracture Risk Markers Through Population-Based Serum Proteomics." Journal of Bone and Mineral Research 32(7):1559-1567.  doi:10.1002/jbmr.3125
  • Park JK, PD Piehowski, CS Wilkins, M Zhou, JA Mendoza, GM Fujimoto, BC Gibbons, JB Shaw, Y Shen, AK Shukla, RJ Moore, T Liu, VA Petyuk, N Tolic, L Pasa Tolic, RD Smith, SH Payne, and S Kim. 2017. "Informed-Proteomics: Open Source Software Package for Top-down Proteomics." Nature Methods 14(9):909-914.  doi:10.1038/nmeth.4388
  • Wang S, F Yang, VA Petyuk, AK Shukla, ME Monroe, MA Gritsenko, KD Rodland, RD Smith, W Qian, CX Gong, and T Liu. 2017. "Quantitative proteomics identifies altered O-GlcNAcylation of structural, synaptic and memory-associated proteins in Alzheimer's disease." The Journal of Pathology 243(1):78-88.  doi:10.1002/path.4929
  • Zheng X, L Deng, EM Baker, YM Ibrahim, VA Petyuk, and RD Smith. 2017. "Distinguishing D- and L-Aspartic and Isoaspartic Acids in Amyloid ß Peptides with Ultrahigh Resolution Ion Mobility Spectrometry." Chemical Communications 53(56):7913-7916. doi:10.1039/C7CC03321D


  • Dhondt I, VA Petyuk, H Cai, L Vandemeulebroucke, A Vierstraete, RD Smith, GG Depuydt, and BP Braeckman. 2016. "FOXO/DAF-16 Activation Slows Down Turnover of the Majority of Proteins in C. elegans." Cell Reports 16(11):3028-3040.  doi:10.1016/j.celrep.2016.07.088
  • Hasin-Brumshtein Y, AH Khan, F Hormozdiari, C Pan, B Parks, VA Petyuk, PD Piehowski, A Bruemmer, M Pellegrini, X Xiao, E Eskin, RD Smith, AJ Lusis, and DJ Smith. 2016. "Hypothalamic transcriptomes of 99 mouse strains reveal trans eQTL hotspots, splicing QTLs and novel non-coding genes." eLife 2016(5):e15614.  doi:10.7554/eLife.15614
  • Hatakeyama H, SY Wu, YA Lyons, S Pradeep, W Wang, Q Huang, KA Court, T Liu, S Nie, C Rodriguez-Aguayo, F Shen, Y Huang, T Hisamatsu, T Mitamura, N Jennings, J Shim, PL Dornialk, LS Mangala, M Petrillo, VA Petyuk, AA Schepmoes, AK Shukla, M Torres-Lugo, JS Lee, KD Rodland, A Fagotti, G Lopez-Bernstein, C Li, and AK Sood. 2016. "Role of CTGF in Sensitivity to Hyperthermia in Ovarian and Uterine Cancers." Cell Reports 17(6):1621-1631. doi:10.1016/j.celrep.2016.10.020
  • Shi T, M Niepel, JE McDermott, Y Gao, CD Nicora, WB Chrisler, LM Markillie, VA Petyuk, RD Smith, KD Rodland, P Sorger, W Qian, and HS Wiley. 2016. "Conservation of Protein Abundance Patterns Reveals the Regulatory Architecture of the of the EGFR-MAPK Pathway." Science Signaling 9(436):rs6.  doi:10.1126/scisignal.aaf0891
  • Tabb DL, X Wang, SA Carr, K Clauser, P Mertins, MC Chambers, JD Holman, J Wang, B Zhang, LJ Zimmerman, X Chen, H Gunawardena, S Davies, M Ellis, S Li, R Townsend, E Boja, K Ketchum, C Kinsinger, M Mesri, H Rodriguez, T Liu, S Kim, JE McDermott, SH Payne, VA Petyuk, KD Rodland, RD Smith, F Yang, DW Chan, B Zhang, H Zhang, Z Zhang, JY Zhou, and D Liebler. 2016. "Reproducibility of differential proteomic technologies in CPTAC fractionated xenografts." Journal of Proteome Research 15(3):691-706. doi:10.1021/acs.jproteome.5b00859
  • Zhang H, T Liu, Z Zhang, SH Payne, B Zhang, JE McDermott, JY Zhou, VA Petyuk, L Chen, D Ray, S Sun, F Yang, L Chen, J Wang, P Shah, SW Cha, P Aiyetan, S Woo, Y Tian, MA Gritsenko, TRW Clauss, C Choi, ME Monroe, SN Thomas, S Nie, C Wu, RJ Moore, KH Yu, DL Tabb, D Fenyo, V Bafna, Y Wang, H Rodriguez, E Boja, T Hiltket, R Rivers, LJ Sokoll, H Zhu, IM Shih, L Cope, A Pandey, B Zhang, M Snyder, D Levine, RD Smith, DW Chan, and KD Rodland. 2016. "Integrated proteogenomic characterization of human high grade serous ovarian cancer." Cell 166(3):755-765.  doi:10.1016/j.cell.2016.05.069


  • Rosenthal LS, D Drake, R Alcalay, D Babcock, DB Bowman, A Chen-Plotkin, TM Dawson, RB Dewey, D German, X Huang, B Landin, M McAuliffe, VA Petyuk, CR Scherzer, CS Hillaire-Clarke, BA Sieber, M Sutherland, C Tarn, A West, D Vaillancout, J Zhang, and K Gwinn. 2015. "The NINDS Parkinson’s Disease Biomarkers Program." Movement Disorders 31(6):915-923.  doi:10.1002/mds.26438
  • Vrablik TL, VA Petyuk, EM Larson, RD Smith, and J Watts. 2015. "Lipidomic and proteomic analysis of Caenorhabditis elegans lipid droplets and identi?cation of ACS-4 as a lipid droplet-associated protein ." Biochimica and Biophysica Acta. Molecular and Cell Biology of Lipids. 1851(10):1337-1345.  doi:10.1016/j.bbalip.2015.06.004
  • Xu Z, C Wu, F Xie, GW Slysz, N Tolic, ME Monroe, VA Petyuk, SH Payne, GM Fujimoto, RJ Moore, TL Fillmore, AA Schepmoes, D Levine, R Townsend, S Davies, S Li, M Ellis, E Boja, R Rivers, H Rodriguez, KD Rodland, T Liu, and RD Smith. 2015. "Comprehensive Quantitative Analysis of Ovarian and Breast Cancer Tumor Peptidomes." Journal of Proteome Research 14(1):422-433.  doi:10.1021/pr500840w
  • Xu Z, C Wu, F Xie, GW Slysz, N Tolic, ME Monroe, VA Petyuk, SH Payne, GM Fujimoto, RJ Moore, TL Fillmore, AA Schepmoes, D Levine, R Townsend, S Davies, S Li, M Ellis, E Boja, R Rivers, H Rodriguez, KD Rodland, T Liu, and RD Smith. 2015. "Comprehensive Quantitative Analysis of Ovarian and Breast Cancer Tumor Peptidomes." Journal of Proteome Research 14(1):422-433.  doi:10.1021/pr500840w


  • Martin JL, PA Yates, R Soysa, JF Alfaro, F Yang, KE Burnum-Johnson, VA Petyuk, KK Weitz, DG Camp, II, RD Smith, PA Wilmarth, LL David, G Ramasamy, PJ Myler, and NS Carter. 2014. "Metabolic Reprogramming During Purine Stress in the Protozoan Pathogen Leishmania donovani ." PLoS Pathogens 10(2):e1003938.  doi:10.1371/journal.ppat.1003938
  • Depuydt GG, F Xie, VA Petyuk, A Smolders, HM Brewer, DG Camp, II, RD Smith, and BP Braeckman. 2014. "LC-MS Proteomics Analysis of the Insulin/IGF-1 Deficient Caenorhabditis elegans daf-2(e1370) Mutant Reveals Extensive Restructuring of Intermediary Metabolism." Journal of Proteome Research 13(4):1938-1956.  doi:10.1021/pr401081b
  • Depuydt GG, F Xie, VA Petyuk, A Smolders, HM Brewer, DG Camp, II, RD Smith, and BP Braeckman. 2014. "LC-MS Proteomics Analysis of the Insulin/IGF-1-Deficient Caenorhabditis elegans daf-2(e1370) Mutant Reveals Extensive Restructuring of Intermediary Metabolism." Journal of Proteome Research 13(4):1938-1956.  doi:10.1021/pr401081b
  • He J, X Sun, T Shi, AA Schepmoes, TL Fillmore, VA Petyuk, F Xie, R Zhao, MA Gritsenko, F Yang, N Kitabayashi, SS Chae, M Rubin, J Siddiqui, J Wei, AM Chinnaiyan, W Qian, RD Smith, J Kagan, S Srivastava, KD Rodland, T Liu, and DG Camp, II. 2014. "Antibody-independent Targeted Quantification of TMPRSS2-ERG Fusion Protein Products in Prostate Cancer." Molecular Oncology 8(7):1169-1180.  doi:10.1016/j.molonc.2014.02.004
  • Mertins P, F Yang, T Liu, DR Mani, VA Petyuk, M Gillette, K Clauser, J Qiao, MA Gritsenko, RJ Moore, D Levine, R Townsend, P Erdmann-Gilmore, JE Snider, S Davies, K Ruggles, D Fenyo, RT Kitchens, S Li, N Olvera, F Dao, H Rodriguez, DW Chan, D Liebler, F White, KD Rodland, G Mills, RD Smith, AG Paulovich, M Ellis, and SA Carr. 2014. "Ischemia in tumors induces early and sustained phosphorylation changes in stress kinase pathways but does not affect global protein levels." Molecular & Cellular Proteomics. MCP 13(7):1690-1704. doi:10.1074/mcp.M113.036392
  • Nakayasu ES, S Wu, MA Sydor, AK Shukla, KK Weitz, RJ Moore, KK Hixson, JS Kim, VA Petyuk, ME Monroe, L Pasa-Tolic, W Qian, RD Smith, JN Adkins, and C Ansong. 2014. "A Method to determine lysine acetylation stoichiometries." International Journal of Proteomics 2014:Article No. 730725.  doi:10.1155/2014/730725
  • Xiong Y, ST Coradetti, X Li, MA Gritsenko, TRW Clauss, VA Petyuk, DG Camp, II, RD Smith, JH Cate, F Yang, and L Glass. 2014. "The proteome and phosphoproteome of Neurospora crassa in response to cellulose, sucrose and carbon starvation." Fungal Genetics and Biology : FG & B 72:21-33.  doi:10.1016/j.fgb.2014.05.005


  • Piehowski PD, VA Petyuk, DJ Orton, F Xie, RJ Moore, M Ramirez Restrepo, A Engel, AP Lieberman, RL Albin, DG Camp, II, RD Smith, and AJ Myers. 2013. "Sources of Technical Variability in Quantitative LC-MS Proteomics: Human Brain Tissue Sample Analysis." Journal of Proteome Research 12(5):2128-2137.  doi:10.1021/pr301146m
  • Piehowski PD, VA Petyuk, JD Sandoval, KE Burnum, GR Kiebel, ME Monroe, GA Anderson, DG Camp, II, and RD Smith. 2013. "STEPS: A Grid Search Methodology for Optimized Peptide Identification Filtering of MS/MS Database Search Results." Proteomics 13(5):766-770.  doi:10.1002/pmic.201200096
  • Crowell KL, ES Baker, SH Payne, YM Ibrahim, ME Monroe, GW Slysz, BL Lamarche, VA Petyuk, PD Piehowski, WF Danielson, III, GA Anderson, and RD Smith. 2013. "Increasing Confidence of LC-MS Identifications by Utilizing Ion Mobility Spectrometry." International Journal of Mass Spectrometry 354-355:312-317.  doi:10.1016/j.ijms.2013.06.028
  • Depuydt GG, F Xie, VA Petyuk, N Shanmugam, A Smolders, I Dhondt, HM Brewer, DG Camp, II, RD Smith, and BP Braeckman. 2013. "Reduced insulin/Insulin-like Growth Factor-1signaling and dietary restriction inhibit translation but preserve muscle mass in Caenorhabditis elegans." Molecular and Cellular Proteomics 12(12):3624-3639. doi:10.1074/mcp.M113.027383
  • Lamarche BL, KL Crowell, N Jaitly, VA Petyuk, AR Shah, AD Polpitiya, JD Sandoval, GR Kiebel, ME Monroe, SJ Callister, TO Metz, GA Anderson, and RD Smith. 2013. "MultiAlign: a multiple LC-MS analysis tool for targeted omics analysis." BMC Bioinformatics 14:Article No. 49. doi:10.1186/1471-2105-14-49
  • Nakayasu ES, R Tempel, XA Cambronne, VA Petyuk, MB Jones, MA Gritsenko, ME Monroe, F Yang, RD Smith, JN Adkins, and F Heffron. 2013. "Comparative phosphoproteomics reveals components of host cell invasion and post-transcriptional regulation during Francisella infection." Molecular and Cellular Proteomics 12(11):3297-3309. doi:10.1074/mcp.M113.029850
  • Nakayasu ES, RN Brown, C Ansong, MA Sydor, S Imtiaz, C Mihai, RL Sontag, KK Hixson, ME Monroe, T Sobreira, G Orr, VA Petyuk, F Yang, RD Smith, and JN Adkins. 2013. "Multi-omic data integration links Deleted in Breast Cancer 1 (DBC1) Degradation to Chromatin Remodeling in Inflammatory Response." Molecular & Cellular Proteomics. MCP 12(8):2136-2147.  doi:10.1074/mcp.M112.026138
  • 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


  • Baker ES, T Liu, VA Petyuk, KE Burnum-Johnson, YM Ibrahim, GA Anderson, and RD Smith. 2012. "Mass Spectrometry for Translational Proteomics: Progress and Clinical Implications." Genome Medicine 4:Article No. 63.  doi:10.1186/gm364
  • Andreev VP, VA Petyuk, HM Brewer, Y Karpievitch, F Xie, J Clarke, DG Camp, II, RD Smith, AP Lieberman, RL Albin, Z Nawaz, JE Hokayem, and AJ Myers. 2012. "Label-Free Quantitative LC-MS Proteomics of Alzheimer’s Disease and Normally Aged Human Brains." Journal of Proteome Research 11(6):3053-3067.  doi:10.1021/pr3001546


  • Ghazalpour A, B Bennett, VA Petyuk, L Orazco, R Hagopian, I Mungrue, CR Farber, J Sinsheimer, HM Kang, N Furlotte, C Park, PZ Wen, HM Brewer, KK Weitz, DG Camp, II, C Pan, R Yordanova, I Neuhaus, C Tilford, N Siemers, P Gargalovic, E Eskin, T Kirchgessner, DJ Smith, RD Smith, and AJ Lusis. 2011. "Comparative Analysis of Proteome and Transcriptome Variation in Mouse." PLoS Genetics 7(6):Article No. e1001393. doi:10.1371/journal.pgen.1001393
  • 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 Q, ME Monroe, AA Schepmoes, TRW Clauss, MA Gritsenko, D Meng, VA Petyuk, RD Smith, and TO Metz. 2011. "Comprehensive Identification of Glycated Peptides and Their Glycation Motifs in Plasma and Erythrocytes of Control and Diabetic Subjects." Journal of Proteome Research 10(7):3076-3088. 


  • Jung HJ, SO Purvine, H Kim, VA Petyuk, SW Hyung, ME Monroe, DG Mun, KC Kim, JM Park, SJ Kim, N Tolic, GW Slysz, RJ Moore, R Zhao, JN Adkins, GA Anderson, H Lee, DG Camp, II, MH Yu, RD Smith, and SW Lee. 2010. "Integrated Post-Experiment Monoisotopic Mass Refinement: An Integrated Approach to Accurately Assign Monoisotopic Precursor Masses to Tandem Mass Spectrometric Data." Analytical Chemistry 82(20):8510-8518. doi:10.1021/ac101388b
  • 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. 
  • 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


  • 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. 
  • Petyuk VA, AM Mayampurath, ME Monroe, AD Polpitiya, SO Purvine, GA Anderson, DG Camp, II, and RD Smith. 2009. "DtaRefinery: a software tool for elimination of systematic errors from parent ion mass measurements in tandem mass spectra datasets." Molecular & Cellular Proteomics. MCP 9.3:486-496.  doi:10.1074/mcp.M900217-MCP200 
  • 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. 


  • Zhang Q, VA Petyuk, AA Schepmoes, DJ Orton, ME Monroe, F Yang, RD Smith, and TO Metz. 2008. "Analysis of Non-Enzymatically Glycated Peptides: Neutral-Loss Triggered MS3 Versus Multi-Stage Activation Tandem Mass Spectrometry." Rapid Communications in Mass Spectrometry 22(19):3027-3034.  doi:10.1002/rcm.3703
  • 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
  • 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


  • 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. 
  • 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 


  • Jaitly N, ME Monroe, VA Petyuk, TRW Clauss, JN Adkins, and RD Smith. 2006. "Robust Algorithm for Alignment of Liquid Chromatography-Mass Spectrometry Analyses in an Accurate Mass and Time Tag Data Analysis Pipeline." Analytical Chemistry 78(21):7397-7409. 
  • Tolmachev AV, ME Monroe, N Jaitly, VA Petyuk, JN Adkins, and RD Smith. 2006. "Mass Measurement Accuracy In Analyses Of Highly Complex Mixtures Based Upon Multidimensional Recalibration." Analytical Chemistry 78(24):8374-8385. doi:10.1021/ac0606251
  • 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. 
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