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Publications

Journal Publications by year


Acknowledgments

All publications that result from utilization of the Resource must acknowledge NCRR grant support. Please include the following acknowledgment statement:

Portions of this research were supported by the NIH National Center for Research Resources (RR18522), and the W.R. Wiley Environmental Molecular Science Laboratory (a national scientific user facility sponsored by the U.S. Department of Energy's Office of Biological and Environmental Research and located at Pacific Northwest National Laboratory). Pacific Northwest National Laboratory is operated by Battelle Memorial Institute for the U.S. Department of Energy under contract DE-AC05-76RLO-1830.

2007 Journal Publications

Baker E, BH Clowers, F Li, K Tang, AV Tolmachev, DC Prior, ME Belov, and RD Smith. 2007. "Ion Mobility Spectrometry - Mass Spectrometry Performance Using Electrodynamic Ion Funnels and Elevated Drift Gas Pressures." Journal of the American Society for Mass Spectrometry 18(7):1176-1187.
Abstract on PubMed

Belov ME, MA Buschbach, DC Prior, K Tang, and RD Smith. 2007. "Multiplexed Ion Mobility Spectrometry - Orthogonal Time-of-Flight Mass Spectrometry." Analytical Chemistry 79(6):2451-2462.
Abstract on PubMed

Chan EY, WJ 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." Virology 81(14):7571-7583.
Abstract on PubMed

Chin MH, AB Geng, AH Khan, WJ 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.
Abstract on PubMed

Diamond DL, JM Jacobs, B Paeper, SC Proll, MA Gritsenko, RL Carithers Jr., AM Larson, MM Yeh, DG Camp II, RD Smith, and MG Katze. 2007. "Proteomic Profiling of Human Liver Biopsies: Hepatitis C Virus-Induced Fibrosis and Mitochondrial Dysfunction." Hepatology 46(3):649-657.
Abstract on PubMed

Ding, J, CM Sorensen, Q Zhang, H Jiang, N Jaitly, EA Livesay, Y Shen, RD Smith, and TO Metz. 2007. “Capillary LC Coupled with High-Mass Measurement Accuracy Mass Spectrometry Formetabolic Profiling.” Anal Chem, 79(16), 6081-6093.
Abstract on PubMed

Ding SJ, WJ Qian, and RD Smith. 2007. "Quantitative Proteomic Approaches for Studying Phosphotyrosine Signaling." Expert Review of Proteomics 4(1):13-23.
Abstract on PubMed

Gupta N, S Tanner, N Jaitly, JN Adkins, MS Lipton, R Edwards, MF Romine, A Osterman, V Bafna, RD Smith, and PA Pevzner. 2007. "Whole Proteome Analysis of Post-Translational Modifications: Applications of Mass-Spectrometry for Proteogenomic Annotation." Genome Research 17(9):1362-1377.
Abstract on PubMed

Jacobs JM, KM Waters, LE Kathmann, DG Camp II, HS Wiley, RD Smith, and BD Thrall. 2007. "The Mammary Epithelial Cell Secretome and Its Regulation by Signal Transduction Pathways." Journal of Proteome Research 8(2):558-569.
Abstract on PubMed

Kang H, L Paša-Tolic, and RD Smith. 2007. "Targeted Tandem Mass Spectrometry for High-Throughput Comparative Proteomics Employing NanoLC-FTICR MS with External Ion Dissociation." Journal of the American Society for Mass Spectrometry 18:1332-1343.
Abstract on PubMed

Kelly RT, JS Page, K Tang, and RD Smith. 2007. "Array of Chemically Etched Fused-Silica Emitters for Improving the Sensitivity and Quantitation of Electrospray Ionization Mass Spectrometry." Analytical Chemistry 79(11):4192-4198.
Abstract on PubMed

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.
Abstract on PubMed

Liu T, ME Belov, N Jaitly, W-J Qian, and RD Smith. 2007. "Accurate Mass Measurements in Proteomics." Chemical Reviews 107(8):3621-3653.
Abstract on PubMed

Luo Q, JS Page, K Tang, and RD Smith. 2007. "MicroSPE-nanoLC-ESI-MS/MS Using 10-microm-i.d. Silica-Based Monolithic Columns for Proteomics." Analytical Chemistry 79(2):540-545.
Abstract on PubMed

Manes, NP, JK Gustin, J Rue, HM Mottaz, SO Purvine, AD Norbeck, ME Monroe, JS Zimmer, TO Metz, JN Adkins, RD Smith, and F Heffron. 2007. “Targeted Protein Degradation by Salmonella under Phagosome-Mimicking Culture Conditions Investigated using Comparative Peptidomics.” Mol Cell Proteomic, 6(4), 717-727.
Abstract on PubMed

Marginean I, RT Kelly, JS Page, K Tang, and RD Smith. 2007. "Electrospray Characteristic Curves: In Pursuit of Improved Performance in the Nanoflow Regime." Analytical Chemistry 79(21):8030-8036.
Abstract on PubMed

Metz, TO, Q Zhang, JS Page, Y Shen, SJ Callister, JM Jacobs, and RD Smith. 2007. “The Future of Liquid Chromatography-Mass Spectrometry (LC-MS) in Metabolic Profiling and Metabolomic Studies for Biomarker Discovery.” Biomark Med., 1(1), 159-185.
PMCID: PMC2631423 - Abstract

Monroe ME, N Tolic, N Jaitly, JL Shaw, JN Adkins, and RD Smith. 2007. "VIPER: an Advanced Software Package to Support High-Throughput LC-MS Peptide Identification." Bioinformatics 23(15):2021-2023.
Abstract on PubMed

Page JS, K Tang, and RD Smith. 2007. "An Electrodynamic Ion Funnel Interface for Greater Sensitivity and Higher Throughput with Linear Ion Trap Mass Spectrometers." International Journal of Mass Spectrometry 265(2-3):244-250.

Page JS, RT Kelly, K Tang, and RD Smith. 2007. "Ionization and Transmission Efficiency in an Electrospray Ionization-Mass Spectrometry Interface." Journal of the American Society for Mass Spectrometry 18(9):1582-1590.
Abstract on PubMed

Petyuk VA, WJ Qian, MH Chin, H Wang, EA Livesay, ME Monroe, JN Adkins, N Jaitly, DJ Anderson, DG Camp, 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.
Abstract on PubMed (free full text)

Sharma S, DC Simpson, N Tolic, N Jaitly, AM Mayampurath, RD Smith, and L Pasa-Tolic. 2007. "Proteomic Profiling of Intact Proteins Using WAX-RPLC 2-D Separations and FTICR Mass Spectrometry." Journal of Proteome. Research 6(2):602-610.
Abstract on PubMed

Shvartsburg AA and RD Smith. 2007. "Scaling of the Resolving Power and Sensitivity for Planar FAIMS and Mobility-Based Discrimination in Flow- and Field-Driven Analyzer." Journal of the American Society for Mass Spectrometry 18(9):1672-1681.
Abstract on PubMed

Shvartsburg AA, F Li, K Tang, and RD Smith. 2007. "Distortion of Ion Structures by Field Asymmetric Waveform Ion Mobility Spectrometry." Analytical Chemistry 79(4):1523-1528.
Abstract on PubMed

Shvartsburg AA, SV Mashkevich, ES Baker, and RD Smith. 2007. "Optimization of Algorithms for Ion Mobility Calculations." Journal of Physical Chemistry A 111(10):2002-2010.
Abstract on PubMed

Smallwood HS, NM Lourette, CB Boschek, DJ Bigelow, RD Smith, L Pasa-Tolic, and TC Squier. 2007. "Identification of a Denitrase Activity in Activated Macrophages Using High-Field Liquid Chromatography-FTICR Mass Spectrometry." Biochemistry 46(37):10498-10505.
Abstract on PubMed

Umar A, TM Luider, JA Foekens, and L Pasa-Tolic. 2007. "NanoLC-FT-ICR MS Improves Proteome Coverage Attainable for ~3000 Laser-Microdissected Breast Carcinoma Cells." Proteomics 7(2):323-329.
Abstract on PubMed

Wang Y, SJ Ding, W Wang, F Yang, JM Jacobs, DG Camp II, RD Smith, and RL Klemke. 2007. "Methods for Pseudopodia Purification and Proteomic Analysis." Science's STKE 2007(400):l4.
Abstract on PubMed

Wang Y, SJ Ding, W Wang, JM Jacobs, WJ 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 USA 104(20):8328-8333.
Abstract on PubMed

Yang F, DG Camp, M Gritsenko, Q Luo, R Kelly, TRW Clauss, WR Brinkley, RD Smith, and DL Stenoien. 2007. "Identification of a Novel Mitotic Phosphorylation Motif Associated with Protein Localization to the Mitotic Apparatus." Journal of Cell Science 120(22):4060-4070.
Abstract on PubMed

Yang F, N Jaitly, H Jayachandran, Q Luo, M Gristenko, 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 S Rossie. 2007. "Applying a Targeted Label-free Approach using LC-MS AMT Tags to Evaluate Changes in Protein Phosphorylation Following Phosphatase Inhibition." Journal of Proteomic Research 6(11):4489-4497.
Abstract on PubMed

Zhang Q, A Frolov, N Tang, R Hoffmann, T van de Goor, TO Metz, and RD Smith. 2007. "Application of Electron Transfer Dissociation Mass Spectrometry in Analyses of Non-Enzymatically Glycated Peptides." Rapid Communications in Mass Spectrometry 21(5):661-666.
Abstract on PubMed

Zhang, Q, N Tang, JW Brock, HM Mottaz, JM Ames, JW Baynes, RD Smith, and TO Metz. 2007. “Enrichment and Analysis of Nonenzymatically Glycated Peptides: Boronate Affinity Chromatography Coupled with Electron-Transfer Dissociation Mass Spectrometry.” J Proteome Res., 6(6), 2323-2330.
PMCID: PMC2587408 - Abstract

Zhang, Q, W-J Qian, TV Knyushko, TR 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.” J Proteome Res., 6(6), 2257-2268.
Abstract on PubMed

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