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Fundamental and Computational Sciences Directorate

Staff information

Ronald Moore

Engage & Perform
Scientist
Pacific Northwest National Laboratory
PO Box 999
MSIN: K8-98
Richland, WA 99352

PNNL Publications

2014

  • Amidan BG, DJ Orton, BL Lamarche, ME Monroe, RJ Moore, AM Venzin, RD Smith, LH Sego, MF Tardiff, and SH Payne. 2014. "Signatures for Mass Spectrometry Data Quality." Journal of Proteome Research 13(4):2215-2222.  doi:10.1021/pr401143e
  • Baker ES, KE Burnum-Johnson, JM Jacobs, DL Diamond, RN Brown, YM Ibrahim, DJ Orton, PD Piehowski, DE Purdy, RJ Moore, WF Danielson, III, ME Monroe, KL Crowell, GW Slysz, MA Gritsenko, JD Sandoval, BL Lamarche, MM Matzke, BJM Webb-Robertson, BC Simons, BJ McMahon, R Bhattacharya, JD Perkins, RL Carithers, S Strom, S Self, MG Katze, GA Anderson, and RD Smith. 2014. "Advancing the High Throughput Identification of Liver Fibrosis Protein Signatures Using Multiplexed Ion Mobility Spectrometry." Molecular and Cellular Proteomics 13(4):1119-1127.  doi:10.1074/mcp.M113.034595
  • Cao L, N Tolic, Y Qu, D Meng, R Zhao, Q Zhang, RJ Moore, EM Zink, MS Lipton, L Pasa-Tolic, and S Wu. 2014. "Characterization of intact N- and O-linked glycopeptides using higher energy collisional dissociation." Analytical Biochemistry 452:96-102.  doi:10.1016/j.ab.2014.01.003
  • Kronewitter SR, GW Slysz, I Marginean, CD Hagler, BL Lamarche, R Zhao, MY Harris, ME Monroe, CA Polyukh, KL Crowell, TL Fillmore, TS Carlson, DG Camp, II, RJ Moore, SH Payne, GA Anderson, and RD Smith. 2014. "GlyQ-IQ: Glycomics Quintavariate-Informed Quantification with High-Performance Computing and GlycoGrid 4D Visualization." Analytical Chemistry 86(13):6268-6276.  doi:10.1021/ac501492f
  • 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
  • Smith JS, TE Angel, C Chavkin, DJ Orton, RJ Moore, and RD Smith. 2014. "Characterization of individual mouse cerebrospinal fluid proteomes." Proteomics 14(9):1102-1106.  doi:10.1002/pmic.201300241
  • Wu S, JN Brown, N Tolic, D Meng, X Liu, H Zhang, R Zhao, RJ Moore, PA Pevzner, RD Smith, and L Pasa-Tolic. 2014. "Quantitative Analysis of Human Salivary Gland-Derived Intact Proteome Using Top-Down Mass Spectrometry." Proteomics 14(10):1211-1222.  doi:10.1002/pmic.201300378
  • 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

  • Aryal UK, SJ Callister, S Mishra, X Zhang, JI Shutthanandan, TE Angel, AK Shukla, ME Monroe, RJ Moore, DW Koppenaal, RD Smith, and L Sherman. 2013. "Proteome Analyses of Strains ATCC 51142 and PCC 7822 of the Diazotrophic Cyanobacterium Cyanothece sp under Culture Conditions Resulting in Enhanced H-2 Production." Applied and Environmental Microbiology 79(4):1070-1077.  doi:10.1128/AEM.02864-12
  • 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
  • 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
  • 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
  • Qu Y, S Wu, R Zhao, EM Zink, DJ Orton, RJ Moore, D Meng, TRW Clauss, JT Aldrich, MS Lipton, and L Pasa-Tolic. 2013. "Automated Immobilized Metal Affinity Chromatography System for Enrichment of Escherichia coli Phosphoproteome." Electrophoresis 34(11):1619-1626.  doi:10.1002/elps.201200628
  • 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
  • Shvartsburg AA, TA Seim, WF Danielson, III, RV Norheim, RJ Moore, GA Anderson, and RD Smith. 2013. "High-Definition Differential Ion Mobility Spectrometry with Resolving Power up to 500." Journal of the American Society for Mass Spectrometry 24(1):109-114.  doi:10.1007/s13361-012-0517-5
  • Wu S, RN Brown, SH Payne, D Meng, R Zhao, N Tolic, L Cao, AK Shukla, ME Monroe, RJ Moore, MS Lipton, and L Pasa-Tolic. 2013. "Top-down characterization of the post-translationally modified intact periplasmic proteome of the bacterium Novosphingobium aromaticivorans ." International Journal of Proteomics 2013:279590.  doi:10.1155/2013/279590
  • 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

  • Gao X, Q Zhang, D Meng, G Isaac, R Zhao, TL Fillmore, RK Chu, J Zhou, K Tang, Z Hu, RJ Moore, RD Smith, MG Katze, and TO Metz. 2012. "A reversed-phase capillary ultra-performance liquid chromatography-mass spectrometry (UPLC-MS) method for comprehensive top-down/bottom-up lipid profiling." Analytical and Bioanalytical Chemistry 402(9):2923-2933. 
  • Marginean I, SR Kronewitter, RJ Moore, GW Slysz, ME Monroe, GA Anderson, K Tang, and RD Smith. 2012. "Improving N-Glycan Coverage using HPLC-MS with Electrospray Ionization at Subambient Pressure." Analytical Chemistry 84(21):9208-9213.  doi:10.1021/ac301961u
  • Tian Z, N Tolic, R Zhao, RJ Moore, SM Hengel, EW Robinson, DL Stenoien, S Wu, RD Smith, and L Pasa-Tolic. 2012. "Enhanced top-down characterization of histone post-translational modifications ." Genome Biology 13(10):R86.  doi:10.1186/gb-2012-13-10-r86
  • Lee JH, SW Hyung, DG Mun, HJ Jung, H Kim, H Lee, SJ Kim, KS Park, RJ Moore, RD Smith, and SW Lee. 2012. "Fully automated multifunctional ultrahigh pressure liquid chromatography system for advanced proteome analyses." Journal of Proteome Research 11(8):4373-4381.  doi:10.1021/pr3004166
  • Perera RM, C Riley, G Isaac, A Hopf- Jannasch, RJ Moore, KK Weitz, L Pasa-Tolic, TO Metz, J Adamec, and RJ Kuhn. 2012. "Dengue Virus Infection Perturbs Lipid Homeostasis in Infected Mosquito Cells." PLoS Pathogens 8(3):Article No. e1002584.  doi:10.1371/journal.ppat.1002584
  • 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
  • Varnum SM, BJM Webb-Robertson, JG Pounds, RJ Moore, RD Smith, C Frevert, SJ Skerret, and DS Wunschel. 2012. "Proteomic analysis of bronchoalveolar lavage fluid proteins from mice infected with Francisella tularensis ssp novicida." Journal of Proteome Research 11(7):3690-3703. 
  • 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

  • Shen Y, N Tolic, F Xie, R Zhao, SO Purvine, AA Schepmoes, RJ Moore, GA Anderson, and RD Smith. 2011. "Effectiveness of CID, HCD, and ETD with FT MS/MS for degradomic-peptidomic analysis: comparison of peptide identification methods." Journal of Proteome Research 10(9):3929-3943.  doi:10.1021/pr200052c
  • Shukla AK, R Zhang, DJ Orton, R Zhao, TRW Clauss, RJ Moore, and RD Smith. 2011. "Formation of iron complexs from trifluoroacetic acid based liquid chromatography mobile phases as interference ions in liquid chromatography/electrospray ionization mass spectrometric analysis." Rapid Communications in Mass Spectrometry 25(10):1452-1456.  doi:10.1002/rcm.5017
  • Aryal UK, J Stockel, RK Krovvidi, MA Gritsenko, ME Monroe, RJ Moore, DW Koppenaal, RD Smith, HB Pakrasi, and JM Jacobs. 2011. "Dynamic proteomic profiling of a unicellular cyanobacterium Cyanothece ATCC51142 across light-dark diurnal cycles." BMC Systems Biology 5:Article No. 194.  doi:10.1186/1752-0509-5-194
  • Frank AM, ME Monroe, AR Shah, JJ Carver, N Bandeira, RJ Moore, GA Anderson, RD Smith, and PA Pevzner. 2011. "Spectral archives: extending spectral libraries to analyze both identified and unidentified spectra." Nature Methods 8(7):587-591.  doi:10.1038/nmeth.1609
  • 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
  • Schoenherr RM, KS Kelly-Spratt, CW Lin, JR Whiteaker, T Liu, T Holzman, I Coleman, LC Feng, TD Lorentzen, AL Krasnoselsky, P Wang, Y Liu, KE Gurley, LM Amon, AA Schepmoes, RJ Moore, DG Camp, II, LA Chodosh, RD Smith, PS Nelson, M McIntosh, C Kemp, and AG Paulovich. 2011. "Proteome and Transcriptome Profiles of a Her2/Neu-driven Mouse Model of Breast Cancer." Proteomics - Clinical Applications 5(3-4):179-188.  doi:10.1002/prca.201000037
  • Wang Y, F Yang, MA Gritsenko, Y Wang, TRW Clauss, T Liu, Y Shen, ME Monroe, D Lopez-Ferrer, T Reno, RJ Moore, RL Klemke, DG Camp, II, and RD Smith. 2011. "Reversed-Phase Chromatography with Multiple Fraction Concatenation Strategy for Proteome Profiling of Human MCF10A Cells." Proteomics 11(10):2019-2026.  doi:10.1002/pmic.201000722
  • 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

2010

  • Tian Z, R Zhao, N Tolic, RJ Moore, DL Stenoien, EW Robinson, RD Smith, and L Pasa-Tolic. 2010. "Two-dimensional liquid chromatography system for online top-down mass spectrometry." Proteomics 10(20):3610-3620.  doi:10.1002/pmic.201000367
  • Baker ES, EA Livesay, DJ Orton, RJ Moore, WF Danielson, DC Prior, YM Ibrahim, BL Lamarche, AM Mayampurath, AA Schepmoes, DF Hopkins, K Tang, RD Smith, and ME Belov. 2010. "An LC-IMS-MS Platform Providing Increased Dynamic Range for High-Throughput Proteomic Studies." Journal of Proteome Research 9(2):997-1006.  doi:10.1021/pr900888b
  • Fraga CG, BH Clowers, RJ Moore, and EM Zink. 2010. "Signature-Discovery Approach for Sample Matching of a Nerve-Agent Precursor using Liquid Chromatography-Mass Spectrometry, XCMS, and Chemometrics." Analytical Chemistry 82(10):4165-4173. 
  • 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
  • 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. 
  • Shen Y, N Tolic, T Liu, R Zhao, BO Petritis, MA Gritsenko, DG Camp, II, RJ Moore, SO Purvine, FJ Esteva, and RD Smith. 2010. " Blood Peptidome-Degradome Profile of Breast Cancer." PLoS One 5(10):Article No.: e13133.  doi:10.1371/journal.pone.0013133
  • Shen Y, T Liu, N Tolic, BO Petritis, R Zhao, RJ Moore, SO Purvine, DG Camp, II, and RD Smith. 2010. "A strategy for degradomic-peptidomic analysis of the human blood plasma ." Journal of Proteome Research 9(5):2339-2346.  doi:10.1021/pr901083m
  • 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. 
  • 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

  • Chowdhury SM, X Du, N Tolic, S Wu, RJ Moore, MU Mayer, RD Smith, and JN Adkins. 2009. "Identification of Cross-Linked Peptides after Click-Based Enrichment Using Sequential Collision-Induced Dissociation and Electron Transfer Dissociation Tandem Mass Spectrometry." Analytical Chemistry 81(13):5524-5532.  doi:10.1021/ac900853k
  • Marginean I, RT Kelly, RJ Moore, DC Prior, BL Lamarche, K Tang, and RD Smith. 2009. "Selection of the Optimum Electrospray Voltage for Gradient Elution LC-MS Measurements." Journal of the American Society for Mass Spectrometry 20(4):682-688. 
  • 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. 
  • Weber TJ, LK Opresko, DM Waisman, GJ Newton, RD Quesenberry, N Bollinger, RJ Moore, and RD Smith. 2009. "Regulation of the Low Dose Radiation Paracrine-Specific Anchorage-Independent Growth Response by Annexin A2." Radiation Research 172(1):96-105.  doi:10.1667/RR1220.1
  • Yang F, S Wu, DL Stenoien, R Zhao, ME Monroe, MA Gritsenko, SO Purvine, AD Polpitiya, N Tolic, Q Zhang, AD Norbeck, DJ Orton, RJ Moore, K Tang, GA Anderson, L Pasa-Tolic, DG Camp, II, and RD Smith. 2009. "Combined Pulsed-Q dissociation and electron transfer dissociation for identification and quantitation of iTRAQ-labeled phosphopeptides." Analytical Chemistry 81(10):4137-4143.  doi:10.1021/ac802605m
  • 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

  • Manes NP, RD Estep, HM Mottaz, RJ Moore, TRW Clauss, ME Monroe, X Du, JN Adkins, S Wong, and RD Smith. 2008. "Comparative Proteomics of Human Monkeypox and Vaccinia Intracellular Mature and Extracellular Enveloped Virions." Journal of Proteome Research 3:960-8.  doi:10.1021/pr070432+
  • Shen Y, KK Hixson, N Tolic, DG Camp, II, SO Purvine, RJ Moore, and RD Smith. 2008. "Mass Spectrometry Analysis of Proteome-wide Proteolytic Post-translational Degradation of Proteins." Analytical Chemistry 80(15):5819-5828.  doi:10.1021/ac800077w
  • Zhang Q, AA Schepmoes, JW Brock, S Wu, RJ Moore, SO Purvine, J Baynes, RD Smith, and TO Metz. 2008. "Improved Methods for the Enrichment and Analysis of Glycated Peptides ." Analytical Chemistry 80(24):9822-9829.  doi:10.1021/ac801704j
  • Ding J, CM Sorensen, N Jaitly, H Jiang, DJ Orton, ME Monroe, RJ Moore, RD Smith, and TO Metz. 2008. "Application of the accurate mass and time tag approach in studies of the human blood lipidome." Journal of Chromatography B 871(2):243-252.  doi:10.1016/j.jchromb.2008.04.040
  • 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 18O Labeling Coupled with Immobilized Metal-ion Affinity Chromatography." Journal of Proteome Research 7(10):4215-24.  doi:10.1021/pr7007785
  • Livesay EA, K Tang, BK Taylor, MA Buschbach, DF Hopkins, BL Lamarche, R Zhao, Y Shen, DJ Orton, RJ Moore, RT Kelly, HR Udseth, and RD Smith. 2008. "Fully automated four-column capillary LC-MS system for maximizing throughput in proteomic analyses." Analytical Chemistry 80(1):294-302.  doi:10.1021/ac701727r
  • Lopez-Ferrer D, K Petritis, KK Hixson, TH Heibeck, RJ Moore, ME Belov, DG Camp, II, and RD Smith. 2008. "Application of pressurized solvents for ultrafast trypsin hydrolysis in proteomics: Proteomics on the fly." Journal of Proteome Research 7(8):3276-3281.  doi:10.1021/pr7008077
  • 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
  • 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
  • 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
  • Tolmachev AV, ME Monroe, SO Purvine, RJ Moore, N Jaitly, JN Adkins, GA Anderson, and RD Smith. 2008. "Characterization of Strategies for Obtaining Confident Identifications in Bottom-Up Proteomics Measurements Using Hybrid FTMS instruments ." Analytical Chemistry 80(22):8514-8525.  doi:10.1021/ac801376g

2007

  • Kim J, K Petritis, Y Shen, DG Camp, II, RJ Moore, and RD Smith. 2007. "Phosphopeptide elution times in reversed-phase liquid chromatography." Journal of Chromatography A 1172(1):9-18.  doi:doi:10.1016/j.chroma.2007.09.032
  • Resch W, KK Hixson, RJ Moore, MS Lipton, and B Moss. 2007. "Protein Composition of the Vaccinia Virus Mature Virion." Virology 358(1):233-247. 
  • 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
  • Yang F, N Jaitly, H Jayachandran, Q Lou, ME Monroe, X Du, MA Gritsenko, R Zhang, DJ Anderson, SO Purvine, JN Adkins, RJ Moore, HM Mottaz, SJ Ding, MS Lipton, DG Camp, II, HR Udseth, RD Smith, and SS Rossie. 2007. "Applying a Targeted Label-free Approach using LC-MS AMT Tags to Evaluate Changes in Protein Phosphorylation Following Phosphatase Inhibition." Journal of Proteome Research 6(11):4489-4497.  doi:10.1021/pr070068e
  • 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

  • Fang R, DA Elias, ME Monroe, Y Shen, M McIntosh, P Wang, CD Goddard, SJ Callister, RJ Moore, YA Gorby, JN Adkins, JK Fredrickson, MS Lipton, and RD Smith. 2006. "Differential Label-free Quantitative Proteomic Analysis of Shewanella oneidensis Cultured under Aerobic and Suboxic Conditions by Accurate Mass and Time Tag Approach." Molecular & Cellular Proteomics. MCP 5(4):714-725.  doi:10.1074/mcp.M500301-MCP200
  • Hixson KK, JN Adkins, SE Baker, RJ Moore, RD Smith, SL McCutchen-Maloney, and MS Lipton. 2006. "Biomarker Candidate Identification in Yersinia Pestis Using Organism-Wide Semiquantitative Proteomics ." Journal of Proteome Research 5(11):3008-3017. 
  • Kelly RT, JS Page, Q Luo, RJ Moore, DJ Orton, K Tang, and RD Smith. 2006. "Chemically Etched Open Tubular and Monolithic Emitters for Nanoelectrospray Ionization Mass Spectrometry." Analytical Chemistry 78(22):7796-7801. 
  • 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
  • Luo Q, K Tang, F Yang, A Elias, Y Shen, RJ Moore, R Zhao, KK Hixson, SS Rossie, and RD Smith. 2006. "More sensitive and quantitative proteomic measurements using very low flow rate porous silica monolithic LC columns with electrospray ionization-mass spectrometry ." Journal of Proteome Research 5(5):1091-1097. 
  • 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
  • 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. 
  • Zhang W, DE Culley, MA Gritsenko, RJ Moore, L Nie, JC Scholten, K Petritis, EF Strittmatter, DG Camp, II, RD Smith, and FJ Brockman. 2006. "LC-MS/MS Based Proteomic Analysis and Functional Inference of Hypothetical Proteins in Desulfovibrio Vulgaris." Biochemical and Biophysical Research Communications 349(4):1412-1419.  doi:10.1016/j.bbrc.2006.09.019
  • Zhang W, DE Culley, MA Gritsenko, RJ Moore, L Nie, JC Scholten, K Petritis, EF Strittmatter, DG Camp, II, RD Smith, and FJ Brockman. 2006. "LC-MS/MS based proteomic analysis and functional inference of hypothetical proteins in Desulfovibrio vulgaris." Biochemical and Biophysical Research Communications 349(4):1412-1419.  doi:10.1016/j.bbrc.2006.09.019
  • Zhang W, MA Gritsenko, RJ Moore, DE Culley, L Nie, K Petritis, EF Strittmatter, DG Camp, II, RD Smith, and FJ Brockman. 2006. "A Proteomic View of Desulfovibrio Vulgaris Metabolim as Determined by Liquid Chromatography Coupled with Tandem Mass Spectrometry." Proteomics 6(15):4286-4299.  doi:10.1002/pmic.200500930

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. 
  • Shen Y, EF Strittmatter, R Zhang, TO Metz, RJ Moore, F Li, HR Udseth, RD Smith, KK Unger, D Kumar, and D Lubda. 2005. "Making broad proteome protein measurements in 1-5 min using high-speed RPLC separations and high-accuracy mass measurments." Analytical Chemistry 77(23):7763-7773.  doi: 10.1021/ac051257o
  • Shen Y, R Zhang, RJ Moore, J Kim, TO Metz, KK Hixson, R Zhao, EA Livesay, HR Udseth, and RD Smith. 2005. "Automated 20 kpsi RPLC-MS and MS/MS with chromatographic peak capacities of 1000-1500 and capabilities in proteomics and metabolomics ." Analytical Chemistry 77(10):3090-3100. 
  • 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. 
  • Luo Q, Y Shen, KK Hixson, R Zhao, F Yang, RJ Moore, HM Mottaz, and RD Smith. 2005. "Preparation of 20-µm-i.d. Silica-based Monolithic Columns and Application for Proteomic Analysis." Analytical Chemistry 77(15):5028-5035. 
  • Markillie LM, CT Lin, JN Adkins, DL Auberry, EA Hill, BS Hooker, PA Moore, RJ Moore, L Shi, HS Wiley, and V Kery. 2005. "Simple Protein Complex Purification and Identification Method Suitable for High- throughput Mapping of Protein Interaction Networks." Journal of Proteome Research 4(2):268-274.  doi:10.1021/pr049847a
  • Shen Y, J Kim, EF Strittmatter, JM Jacobs, DG Camp, II, R Fang, N Tolic, RJ Moore, and RD Smith. 2005. "Characterization of the human blood plasma proteome." Proteomics 5(15):4034-4045. 
  • 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

  • Jacobs JM, HM Mottaz, LR Yu, DJ Anderson, RJ Moore, WNU Chen, KJ Auberry, EF Strittmatter, ME Monroe, BD Thrall, DG Camp, II, and RD Smith. 2004. "Multidimensional Proteome Analysis of Human Mammary Epithelial Cells." Journal of Proteome Research 3(1):68-75. 
  • Belov ME, GA Anderson, MA Wingerd, HR Udseth, K Tang, DC Prior, KR Swanson, MA Buschbach, EF Strittmatter, RJ Moore, and RD Smith. 2004. "An Automated High Performance Capillary Liquid Chromatography Fourier Transform Ion Cyclotron Resonance Mass Spectrometer for High-Throughput Proteomics." Journal of the American Society for Mass Spectrometry 15(2):212-232. 
  • Prokisch H, CM Scharfe, DG Camp, II, W Xiao, L David, C Andreoli, ME Monroe, RJ Moore, MA Gritsenko, C Kozany, KK Hixson, HM Mottaz, H Zischka, M Ueffing, ZS Herman, RW Davis, T Meitinger, P Oefner, RD Smith, and LM Steinmetz. 2004. "Integrative Analysis of the Mitochondrial Proteome in Yeast." PloS Biology 2(6):0795-0804. 
  • Shen Y, JM Jacobs, DG Camp, II, R Fang, RJ Moore, RD Smith, W Xiao, RW Davis, and RG Tompkins. 2004. "Ultra-High-Efficiency Strong Cation Exchange LC/RPLC/MS/MS for High Dynamic Range Characterization of the Human Plasma Proteome." Analytical Chemistry 76(4):1134-1144. 
  • Vilkov AN, B Bogdanov, L Pasa-Tolic, DC Prior, GA Anderson, CD Masselon, RJ Moore, and RD Smith. 2004. "Tailored Noise Waveform/ Collision-Induced Dissociation of Ions Stored in a Linear Ion Trap Combined with Liquid Chromatography/Fourier Transform Ion Cyclotron Resonance Mass Spectrometry." Rapid Communications in Mass Spectrometry 18(22):2682-2690. 

2003

  • Shen Y, RJ Moore, R Zhao, J Blonder, DL Auberry, CD Masselon, L Pasa-Tolic, KK Hixson, KJ Auberry, and RD Smith. 2003. "High-Efficiency On-Line Solid-Phase Extraction Coupling to 15-150 um I.D. Column Liquid Chromatography for Proteomic Analysis." Analytical Chemistry 75(14):3596-3605. 

2002

  • Adkins JN, SM Varnum, KJ Auberry, RJ Moore, N Angell, RD Smith, DL Springer, and JG Pounds. 2002. "Toward a Human Blood Serum Proteome: Analysis by Multidimensional Separation Coupled with Mass Spectrometry." Molecular & Cellular Proteomics. MCP 1(12):947-955. 
  • Blonder J, MB Goshe, RJ Moore, L Pasa-Tolic, CD Masselon, MS Lipton, and RD Smith. 2002. "Enrichment of Integral Membrane Proteins for Proteomic Analysis Using Liquid Chromatography-Tandem Mass Spectrometry." Journal of Proteome Research 1(4):351-360. 
  • Lipton MS, L Pasa-Tolic, GA Anderson, DJ Anderson, DL Auberry, JR Battista, MJ Daly, JK Fredrickson, KK Hixson, HM Kostandarithes, CD Masselon, LM Markillie, RJ Moore, MF Romine, Y Shen, EF Strittmatter, N Tolic, HR Udseth, A Venkateswaran, KK Wong, R Zhao, and RD Smith. 2002. "Global Analysis of Deinococcus Radiodurans Proteome by Csing Accurate Mass Tags." Proceedings of the National Academy of Sciences of the United States of America 99(17):11049-11054. 

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