Collaborative research projects in the PNNL NIH NCRR P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'
EMSL Project ID
40072
Abstract
Collaborative research projects in the PNNL NIH NCRR P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'
Project Details
Start Date
2010-10-01
End Date
2013-09-30
Status
Closed
Released Data Link
Team
Principal Investigator
Team Members
Related Publications
Microscale depletion of high abundance proteins in human biofluids using IgY14 immunoaffinity resin: analysis of human plasma and cerebrospinal fluid
Hyung SW, RJ Moore, PD Piehowski, DJ Orton, AA Schepmoes, TRW Clauss, RK Chu, TL Fillmore, HM Brewer, T Liu, R Zhao, and RD Smith. 2014. "Micro-Scale Depletion of High Abundance Proteins in Human Bio-fluids using IgY14 Immunoaffinity Resin: Analysis of Human Plasma and Cerebrospinal Fluid ." Journal of Proteome Research Epub ahead of print:, doi:10.1007/s00216-014-8058-3
Quantitative analysis of human salivary gland-derived intact proteome using top-down mass spectrometry
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. doi:10.1002/pmic.201300378 [In Press]
Characterization of individual mouse cerebrospinal fluid proteomes
Smith JS, TE Angel, C Chavkin, DJ Orton, RJ Moore, and RD Smith. 2014. "Characterization of individual mouse cerebrospinal fluid proteomes." Proteomics 2014(00):1-5. doi:10.1002/pmic.201300241
Phosphate-Containing Polyethylene Glycol Polymers Prevent Lethal Sepsis by Multidrug-Resistant Pathogens
Zaborin A, J Defazio, M Kade, BLD Kaiser, N Belogortseva, DG Camp, II, RD Smith, JN Adkins, SM Kim, A Alverdy, D Goldfeld, M Firestone, J Collier, B Jabri, M Tirrell, O Zaborina, and JC Alverdy. 2014. "Phosphate-Containing Polyethylene Glycol Polymers Prevent Lethal Sepsis by Multidrug-Resistant Pathogens." Antimicrobial Agents and Chemotherapy 58(2):966. doi:10.1128/AAC.02183-13
The succinated proteome
Merkley ED, TO Metz, RD Smith, J Baynes, and N Frizell. 2014. "The Succinated Proteome." Mass Spectrometry Reviews [Epub ahead of print]:, doi:10.1002/mas.21382
A Highly Sensitive Targeted Mass Spectrometric Assay for Quantification of AGR2 Protein in Human Urine and Serum
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
Reduced Insulin/Insulin-like Growth Factor-1 Signaling and Dietary Restriction Inhibit Translation but Preserve Muscle Mass in Caenorhabditis elegans
Depuydt GG, F Xie, VA Petyuk, N Shanmugam, A Smolders, I Dhondt, HM Brewer, DG Camp, II, RD Smith, and BP Braeckman. 2014. "Reduced insulin/IGF?1 signaling and dietary restriction inhibit translation but preserve muscle mass in Caenorhabditis elegans." Molecular and Cellular Proteomics. doi:10.1074/mcp.M113.027383 mcp.M113.027383
Mycobacterium tuberculosis Ser/Thr Protein Kinase B Mediates an Oxygen-Dependent Replication Switch
Ortega C, R Liao, LN Anderson, T Rustad, AR Ollodart, AT Wright, DR Sherman, and C Grundner. 2014. "Mycobacterium tuberculosis Ser/Thr protein kinase B mediates an oxygen-dependent replication switch." PLoS Biology 12(1):Article No. e1001746. doi:10.1371/journal.pbio.1001746
LC-IMS-MS Feature Finder: detecting multidimensional liquid chromatography, ion mobility and mass spectrometry features in complex datasets
Crowell KL, GW Slysz, ES Baker, BL Lamarche, ME Monroe, YM Ibrahim, SH Payne, GA Anderson, and RD Smith. 2013. "LC-IMS-MS Feature Finder: Detecting Multidimensional Liquid Chromatography, Ion Mobility, and Mass Spectrometry Features in Complex Datasets." Bioinformatics 29(21):2804-2805 . doi:10.1093/bioinformatics/btt465
Separation of Protein Conformers by Differential Ion Mobility in Hydrogen-Rich Gases
Shvartsburg AA, and RD Smith. 2013. "Separation of Protein Conformers by Differential Ion Mobility in Hydrogen-Rich Gases ." Analytical Chemistry 85(15):6967-6973. doi:10.1021/ac4015963
Resin-Assisted Enrichment of N-Terminal Peptides for Characterizing Proteolytic Processing
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
Evaluation of Selected Binding Domains for the Analysis of Ubiquitinated Proteomes
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. doi:10.1007/s13361-013-0619-8. Epub ahead of print
Sources of Technical Variability in Quantitative LC–MS Proteomics: Human Brain Tissue Sample Analysis
Piehowski PD, VA Petyuk, DJ Orton, F Xie, RJ Moore, M Ramirez, 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. Epub 2013 April 10.
Trauma-associated human neutrophil alterations revealed by comparative proteomics profiling
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 7:1-13. doi:10.1002/prca.201200109
Determination of Burn Patient Outcome by Large-Scale Quantitative Discovery Proteomics
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. doi:10.1097/CCM.0b013e31827c072e
Quantitative site-specific reactivity profiling of S-nitrosylation in mouse skeletal muscle using cysteinyl peptide enrichment coupled with mass spectrometry
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
STEPS: A grid search methodology for optimized peptide identification filtering of MS/MS database search results
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
Assigning Quantitative Function to Post-Translational Modifications Reveals Multiple Sites of Phosphorylation That Tune Yeast Pheromone Signaling Output
Pincus DE, C Ryan, RD Smith, R Brent, and O Resnekov. 2013. "Assigning quantitative function to post-Â?translational modifications reveals multiple sites of phosphorylation that tune yeast pheromone signaling output." PLoS One 8(3):Article No. e56544. doi:10.1371/journal.pone.0056544
The surface structure of α-uranophane and its interaction with Eu(III) – An integrated computational and fluorescence spectroscopy study
Kuta J, Z Wang, K Wisuri, MCF Wander, N Wall, and AE Clark. 2013. "The surface structure of ?-uranophane and its interaction with Eu(III) – An integrated computational and fluorescence spectroscopy study." Geochimica et Cosmochimica Acta 103:184-196. doi:10.1016/j.gca.2012.10.056
Identification of Widespread Adenosine Nucleotide Binding in Mycobacterium tuberculosis
Ansong C, C Ortega, SH Payne, DH Haft, LM Chauvigne-Hines, MP Lewis, SO Purvine, AK Shukla, S Fortuin, RD Smith, JN Adkins, C Grundner, and AT Wright. 2013. "Identification of widespread adenosine nucleotide binding in Mycobacterium tuberculosis." Chemistry & Biology 20(1):123-133. doi:10.1016/j.chembiol.2012.11.008
In-Source Fragmentation and the Sources of Partially Tryptic Peptides in Shotgun Proteomics
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.Epub 2013 January 16.
High-Definition Differential Ion Mobility Spectrometry with Resolving Power up to 500
Shvartsburg AA, TA Seim, WF Danielson, III, RV Norheim, RJ Moore, RD Smith, and GA Anderson. 2013. "High-Definition Differential Ion Mobility Spectrometry with Resolving Power up to 500 ." Journal of the American Society for Mass Spectrometry 24:109-114. doi:10.1007/s13361-012-0517-5
Suite of Activity-Based Probes for Cellulose-Degrading Enzymes
Chauvigne-Hines LM, LN Anderson, HM Weaver, JN Brown, PK Koech, CD Nicora, BA Hofstad, RD Smith, MJ Wilkins, SJ Callister, and AT Wright. 2012. "Suite of Activity-Based Probes for Cellulose-Degrading Enzymes." Journal of the American Chemical Society 134(50):20521-20532. doi:10.1021/ja309790w
Evaluation of SDS depletion using an affinity spin column and IMS-MS detection
Hengel SM, EA Floyd, ES Baker, R Zhao, S Wu, and L Pasa-Tolic. 2012. "Evaluation of SDS depletion using an affinity spin column and IMS-MS detection." Proteomics 12(21):3138-3142. doi:10.1002/pmic.201200168
GlycReSoft: A Software Package for Automated Recognition of Glycans from LC/MS Data
Maxwell E, Y Tan, Y Tan, H Hu, G Benson, K Aizikov, S Conley, GO Staples, GW Slysz, RD Smith, and J Zaia. 2012. "GlycReSoft: A Software Package for Automated Recognition of Glycans from LC/MS Data ." PLoS One 7(9):e45474. doi:10.1371/journal.pone.0045474
Serum proteomics reveals systemic dysregulation of innate immunity in type 1 diabetes
Zhang Q, TL Fillmore, AA Schepmoes, TRW Clauss, MA Gritsenko, PW Mueller, M Rewers, MA Atkinson, RD Smith, and TO Metz. 2013. "Serum proteomics reveals systemic dysregulation of innate immunity in type 1 diabetes." The Journal of Experimental Medicine 210(1):191-203. doi:10.1084/jem.20111843
Cerebrospinal Fluid Proteome of Patients with Acute Lyme Disease
Angel TE, JM Jacobs, S Elias, MA Gritsenko, AK Shukla, DG Camp, II, MS Pasternack, C McCarthy, RP Smith, S Warren, and RD Smith. 2012. "Cerebrospinal fluid proteome of subjects with acute Lyme disease." Journal of Proteome Research 11(10):4814-22. doi:10.1021/pr300577p
A Systematic Analysis of a Deep Mouse Epididymal Sperm Proteome1
Chauvin T, F Xie, T Liu, CD Nicora, F Yang, DG Camp, II, RD Smith, and KP Roberts. 2012. "A Systematic Analysis of a Deep Mouse Epididymal Sperm Proteome." Biology of Reproduction 87(6):141. doi:10.1095/biolreprod.112.104208
Improving N-Glycan Coverage using HPLC-MS with Electrospray Ionization at Subambient Pressure
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
High-Resolution Differential Ion Mobility Spectrometry of a Protein
Shvartsburg AA, and RD Smith. 2013. "High-Resolution Differential Ion Mobility Spectrometry of a Protein." Analytical Chemistry 85(1):10-13. doi:10.1021/ac3029129
Label-Free Quantitative LC–MS Proteomics of Alzheimer’s Disease and Normally Aged Human Brains
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
Advanced proteomic liquid chromatography
Xie F, RD Smith, and Y Shen. 2012. "Advanced proteomic liquid chromatography ." Journal of Chromatography A. doi:dx.doi.org/10.1016/j.chroma.2012.06.098
Antibody-free, targeted mass-spectrometric approach for quantification of proteins at low picogram per milliliter levels in human plasma/serum
Shi T, TL Fillmore, X Sun, R Zhao, AA Schepmoes, M Hossain, 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. "An antibody-free, targeted mass spectrometry approach for quantification of proteins at low picogram/milliliter levels in human plasma/serum." Proceedings of the National Academy of Sciences of the United States of America. doi:10.1073/pnas.1204366109 [In Press]
Protein Analyses Using Differential Ion Mobility Microchips with Mass Spectrometry
Shvartsburg AA, and RD Smith. 2012. "Protein Analyses Using Differential Ion Mobility Microchips with Mass Spectrometry." Analytical Chemistry. doi:dx.doi.org/10.1021/ac3018636 [In Press]
Separation of Variant Methylated Histone Tails by Differential Ion Mobility
Shvartsburg AA, Y Zheng, RD Smith, and N Kelleher. 2012. "Separation of Variant Methylated Histone Tails by Differential Ion Mobility ." Analytical Chemistry 84:6317-6320. doi:dx.doi.org/10.1021/ac301541r
Quantitative phosphoproteomics identifies filaggrin and other targets of ionizing radiation in a human skin model
Yang F, KM Waters, BJM Webb-Robertson, MB Sowa, CH Freiin von Neubeck, JT Aldrich, LM Markillie, RM Wirgau, MA Gristenko, R Zhao, DG Camp, II, RD Smith, and DL Stenoien. 2012. "Quantitative Phosphoproteomics Identifies Filaggrin and other Targets of Ionizing Radiation in a Human Skin Model." Experimental Dermatology 21(5):352–357. doi:10.1111/j.1600-0625.2012.01470.x
Morphine Produces Immunosuppressive Effects in Nonhuman Primates at the Proteomic and Cellular Levels
Brown JN, GM Ortiz, TE Angel, JM Jacobs, MA Gritsenko, EY Chan, DE Purdy, RD Murnane, K Larsen, RE Palermo, AK Shukla, TRW Clauss, MG Katze, JM McCune, and RD Smith. 2012. "Morphine Produces Immunosuppressive Effects in Non-human Primates at the Proteomic and Cellular Levels." Molecular & Cellular Proteomics. MCP. doi:10.1074/mcp.M111.016121
Discovery of Novel Glucose-Regulated Proteins in Isolated Human Pancreatic Islets Using LC–MS/MS-Based Proteomics
Rutledge AC, G Fontes, MA Gritsenko, AD Norbeck, DJ Anderson, KM Waters, JN Adkins, RD Smith, V Poitout, and TO Metz. 2012. "Discovery of novel glucose-regulated proteins in isolated human pancreatic islets using LC-MS/MS-based proteomics." Journal of Biological Chemistry. doi:10.1021/pr3002996
A hybrid approach to protein differential expression in mass spectrometry-based proteomics
Wang X, GA Anderson, RD Smith, and AR Dabney. 2012. "A Hybrid Approach to Protein Differential Expression in Mass Spectrometry-Based Proteomics." Bioinformatics 28(12):1586-1591. doi:10.1093/bioinformatics/bts193
Tandem mass spectrometry identifies many mouse brain O -GlcNAcylated proteins including EGF domain-specific O -GlcNAc transferase targets
Alfaro JF, CX Gong, ME Monroe, JT Aldrich, TRW Clauss, SO Purvine, Z Wang, DG Camp, II, J Shabanowitz, P Stanley, GW Hart, DF Hunt, F Yang, and RD Smith. 2012. "Tandem Mass Spectrometry identifies novel mouse brain O-GlcNAcylated proteins including targets of the ER-resident O-GlcNAc transferase." Proceedings of the National Academy of Sciences of the United States of America 109(19):7280-7285. doi:10.1073/pnas.1200425109
Mass spectrometry-based proteomics: existing capabilities and future directions
Angel TE, UK Aryal, SM Hengel, ES Baker, RT Kelly, EW Robinson, and RD Smith. 2012. "Mass spectrometry-based proteomics: existing capabilities and future directions." Chemical Society Reviews 41(10):3912-3928. doi:10.1039/C2CS15331A
Ion Mobility Separation of Variant Histone Tails Extending to the “Middle-Down” Range
Shvartsburg AA, Y Zheng, RD Smith, and N Kelleher. 2012. "Ion Mobility Separation of Variant Histone Tails Extending to the “Middle-down” Range ." Analytical Chemistry 84(10):4271-4276. doi:10.1021/ac300612y
The cerebrospinal fluid proteome in HIV infection: change associated with disease severity
Angel TE, JM Jacobs, SS Spudich, MA Gritsenko, D Fuchs, T Liegler, H Zetterberg, DG Camp, II, RW Price, and RD Smith. 2012. "The cerebrospinal fluid proteome in HIV infection: change associated with disease severity." Clinical Proteomics 9:Article No. 3. doi:10.1186/1559-0275-9-3
Mapping N-Linked Glycosylation Sites in the Secretome and Whole Cells of Aspergillus niger Using Hydrazide Chemistry and Mass Spectrometry
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
18O-Labeled Proteome Reference as Global Internal Standards for Targeted Quantification by Selected Reaction Monitoring-Mass Spectrometry
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
Proteome and computational analyses reveal new insights into the mechanisms of hepatitis C virus-mediated liver disease posttransplantation
Diamond DL, A Krasnoselski, KE Burnum, ME Monroe, BJM Webb-Robertson, JE McDermott, MM Yeh, S Strom , S Proll, S Belisle, A Rasmussen, KA Walters, JM Jacobs, MA Gritsenko, DG Camp, II, R Bhattacharya, JD Perkins, RL Carithers, IW Liou, AM Larson, KM Waters, RD Smith, and MG Katze. 2012. "Proteome and Computational Analyses Reveal New Insights into the Mechanisms of Hepatitis C Virus Mediated Liver Disease Post-Transplantation." Hepatology. doi:10.1002/hep.25649 (Epub ahead of print)
High-pH reversed-phase chromatography with fraction concatenation for 2D proteomic analysis
Yang F, Y Shen, DG Camp, II, and RD Smith. 2012. "High pH reversed-phase chromatography with fraction concatenation for 2D proteomic analysis." Expert Review of Proteomics 9(2):129-134. doi:10.1586/EPR.12.15
Mass Spectrometry in Biomarker Applications: From Untargeted Discovery to Targeted Verification, and Implications for Platform Convergence and Clinical Application
Smith RD. 2012. "Mass spectrometry in biomarker applications: from untargeted discovery to targeted verification, and implications for platform convergence and clinical application." Clinical Chemistry 58(3):528-530. doi:10.1373/clinchem.2011.180596
Accelerated High-Resolution Differential Ion Mobility Separations Using Hydrogen
Shvartsburg AA, and RD Smith. 2011. "Accelerated High-Resolution Differential Ion Mobility Separations Using Hydrogen ." Analytical Chemistry 83:9159-9166. doi:dx.doi.org/10.1021/ac202386w
Improving Collision Induced Dissociation (CID), High Energy Collision Dissociation (HCD), and Electron Transfer Dissociation (ETD) Fourier Transform MS/MS Degradome–Peptidome Identifications Using High Accuracy Mass Information
Shen Y, N Tolic, SO Purvine, and RD Smith. 2011. "Improving CID, HCD, and ETD FT MS/MS degradome-peptidome identifications using high accuracy mass information." Journal of Proteome Research. doi:10.1021/pr200597j
Spectral archives: extending spectral libraries to analyze both identified and unidentified spectra
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
Proteome Analysis of Borrelia burgdorferi Response to Environmental Change
Angel TE, BJ Luft, X Yang, CD Nicora, DG Camp, II, JM Jacobs, and RD Smith. 2010. "Proteome Analysis of Borrelia burgdorferi Response to Environmental Change." PLoS One 5(11):Article No.: e13800. doi:10.1371/journal.pone.0013800
The ion funnel: Theory, implementations, and applications
Kelly RT, AV Tolmachev, JS Page, K Tang, and RD Smith. 2010. "The Ion Funnel: Theory, Implementations and Applications." Mass Spectrometry Reviews 29(2):294-312. doi:10.1002/mas.20232
Temporal Proteome and Lipidome Profiles Reveal Hepatitis C Virus-Associated Reprogramming of Hepatocellular Metabolism and Bioenergetics
Diamond DL, AJ Syder, JM Jacobs, CM Sorensen, KA Walters, S Proll, JE McDermott, MA Gritsenko, Q Zhang, R Zhao, TO Metz, DG Camp, II, KM Waters, RD Smith, CM Rice, and MG Katze. 2010. "Temporal Proteome and Lipidome Profiles Reveal HCV-Associated Reprogramming of Hepatocellular Metabolism and Bioenergetics ." PLoS Pathogens 6(1):Art. No. e1000719. doi:10.1371/journal.ppat.1000719
Phosphoproteomics Profiling of Human Skin Fibroblast Cells Reveals Pathways and Proteins Affected by Low Doses of Ionizing Radiation
Yang F, KM Waters, JH Miller, MA Gritsenko, R Zhao, X Du, EA Livesay, SO Purvine, ME Monroe, Y Wang, DG Camp, II, RD Smith, and DL Stenoien. 2010. "Phosphoproteomics profiling of human skin fibroblast cells reveals pathways and proteins affected by low doses of ionizing radiation." PLoS One 5(11):e14152. doi:10.1371/journal.pone.0014152
Proteome and transcriptome profiles of a Her2/Neu-driven mouse model of breast cancer
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
Region-Specific Protein Abundance Changes in the Brain of MPTP-Induced Parkinson’s Disease Mouse Model
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
Trypsin Coatings on Electrospun and Alcohol-Dispersed Polymer Nanofibers for a Trypsin Digestion Column
Jun SH, MS Chang, BC Kim, HJ An, D Lopez-Ferrer, R Zhao, RD Smith, SW Lee, and J Kim. 2010. "Trypsin coatings on electrospun and alcohol-dispersed polymer nanofibers for trypsin digestion column." Analytical Chemistry 82(18):7828 - 7834. doi:10.1021/ac101633e
Pressurized Pepsin Digestion in Proteomics
Lopez-Ferrer D, K Petritis, EW Robinson, KK Hixson, Z Tian, JH Lee, SW Lee, N Tolic, KK Weitz, ME Belov, RD Smith, and L Pasa-Tolic. 2011. "Pressurized Pepsin Digestion in Proteomics: An Automatable Alternative to Trypsin for Integrated Top-down Bottom-up Proteomics." Molecular & Cellular Proteomics. MCP 10(2):, doi:10.1074/mcp.M110.001479
Pulsed Multiple Reaction Monitoring Approach to Enhancing Sensitivity of a Tandem Quadrupole Mass Spectrometer
Belov ME, S Prasad, DC Prior, WF Danielson, III, KK Weitz, YM Ibrahim, and RD Smith. 2011. "Pulsed Multiple Reaction Monitoring Approach to Enhancing Sensitivity of a Tandem Quadrupole Mass Spectrometer." Analytical Chemistry 83(6):2162–2171. doi:10.1021/ac103006b
Ultrahigh-Resolution Differential Ion Mobility Spectrometry Using Extended Separation Times
Shvartsburg AA, and RD Smith. 2011. "Ultrahigh-Resolution Differential Ion Mobility Spectrometry Using Extended Separation Times." Analytical Chemistry 83(1):23-29. doi:10.1021/ac102689p
Strategy for Degradomic-Peptidomic Analysis of Human Blood Plasma
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