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Collaborative research projects in the PNNL NIH NCRR P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'


EMSL Project ID
48135

Abstract

Collaborative research projects in the PNNL NIH NCRR P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'

Project Details

Start Date
2013-10-16
End Date
2016-09-30
Status
Closed

Team

Principal Investigator

Jon Jacobs
Institution
Environmental Molecular Sciences Laboratory

Team Members

Si Wu
Institution
University of Oklahoma

Yuxuan Zhou
Institution
Pacific Northwest National Laboratory

Richard White
Institution
Washington State University

Xing Zhang
Institution
Pacific Northwest National Laboratory

Joshua Rosnow
Institution
Pacific Northwest National Laboratory

Geremy CD Clair
Institution
Pacific Northwest National Laboratory

Christina Stevenson
Institution
Pacific Northwest National Laboratory

Tujin Shi
Institution
Pacific Northwest National Laboratory

Eric Orwoll
Institution
Oregon Health & Science University

Paul Piehowski
Institution
Environmental Molecular Sciences Laboratory

Charles Ansong
Institution
National Institutes of Health

Kristin Burnum-Johnson
Institution
Environmental Molecular Sciences Laboratory

Aaron Wright
Institution
Pacific Northwest National Laboratory

Minnie Sarwal
Institution
Stanford University

Ioan Marginean
Institution
Pacific Northwest National Laboratory

Qibin Zhang
Institution
University of North Carolina Greensboro

Vladislav Petyuk
Institution
Pacific Northwest National Laboratory

Alexandre Shvartsburg
Institution
Wichita State University

Erin Baker
Institution
North Carolina State University

Tao Liu
Institution
Pacific Northwest National Laboratory

Rohit Kulkarni
Institution
Joslin Diabetes Center

Feng Yang
Institution
Pacific Northwest National Laboratory

Terumi Kohwi-shigematsu
Institution
Lawrence Berkeley National Laboratory

Weijun Qian
Institution
Pacific Northwest National Laboratory

Richard Klemke
Institution
University of California, San Diego

Heather Olson
Institution
Environmental Molecular Sciences Laboratory

Sandra Rossie
Institution
Purdue University

Joshua Adkins
Institution
Pacific Northwest National Laboratory

Desmond Smith
Institution
University of California, Los Angeles

Rui Zhao
Institution
Environmental Molecular Sciences Laboratory

Ljiljana Pasa-Tolic
Institution
Environmental Molecular Sciences Laboratory

David Camp
Institution
Pacific Northwest National Laboratory

Richard Smith
Institution
Pacific Northwest National Laboratory

Keqi Tang
Institution
Pacific Northwest National Laboratory

Related Publications

The MPLEx Protocol for Multi-omic Analyses of Soil Samples

Nicora C.D., K.E. Burnum-Johnson, E.S. Nakayasu, C.P. Casey, R.A. White, T. Roy Chowdhury, and J.E. Kyle, et al. 2018. "The MPLEx Protocol for Multi-Omic Analyses of Soil Samples." Journal of Visualized Experiments e57343, no. 135. PNNL-SA-129344. doi:10.3791/57343

Hypothalamic transcriptomes of 99 mouse strains reveal trans eQTL hotspots, splicing QTLs and novel non-coding genes

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

Quantitative proteomics identifies altered O‐GlcNAcylation of structural, synaptic and memory‐associated proteins in Alzheimer's disease

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

Informed-Proteomics: open-source software package for top-down proteomics

Park JK, PD Piehowski, CS Wilkins, M Zhou, JA Mendoza, GM Fujimoto, 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 14:909-914. doi:10.1038/nmeth.4388

Simultaneous Proteomic Discovery and Targeted Monitoring using Liquid Chromatography, Ion Mobility Spectrometry, and Mass Spectrometry

Burnum-Johnson KE, S Nie, CP Casey, ME Monroe, DJ Orton, YM Ibrahim, MA Gritsenko, TRW Clauss, AK Shukla, RJ Moore, SO Purvine, T Shi, W Qian, T Liu, ES Baker, and RD Smith. 2016. "Simultaneous Proteomic Discovery and Targeted Monitoring using Liquid Chromatography, Ion Mobility Spectrometry and Mass Spectrometry." Molecular and Cellular Proteomics 15(12):3694-3705. doi:10.1074/mcp.M116.061143

Lipid and Glycolipid Isomer Analyses Using Ultra-High Resolution Ion Mobility Spectrometry Separations

Wojcik R, IK Webb, VBS Garimella, SA Prost, YM Ibrahim, EM Baker, and RD Smith. 2017. "Lipid and Glycolipid Isomer Analyses Using Ultra-high Resolution Ion Mobility Spectrometry Separations." International Journal of Molecular Sciences 18(1):183. doi:10.3390/ijms18010183

Enhancing glycan isomer separations with metal ions and positive and negative polarity ion mobility spectrometry-mass spectrometry analyses

Zheng X, X Zhang, N Schocker, RS Renslow, DJ Orton, J Khamsi, RA Ashmus, IC Almeida, K Tang, CE Costello, RD Smith, K Michael, and EM Baker. 2017. "Enhancing Glycan Isomer Separations with Metal Ions and Positive and Negative Polarity Ion Mobility Spectrometry-Mass Spectrometry Analyses." Analytical and Bioanalytical Chemistry 409:467-476. doi:10.1007/s00216-016-9866-4

Ultra-High Resolution Ion Mobility Separations Utilizing Traveling Waves in a 13 m Serpentine Path Length Structures for Lossless Ion Manipulations Module

Deng L, YM Ibrahim, AM Hamid, VBS Garimella, IK Webb, X Zheng, SA Prost, JA Sandoval, RV Norheim, GA Anderson, AV Tolmachev, ES Baker, and RD Smith. 2016. "Ultra-High Resolution Ion Mobility Separations Utilizing Traveling Waves in a 13-m Serpentine Path Length Structures for Lossless Ion Manipulations Module." Analytical Chemistry. doi:10. 1021/acs. analchem. 6b01915

Ion Mobility Separations of Isomers based upon Long Path Length Structures for Lossless Ion Manipulations Combined with Mass Spectrometry

Deng L, YM Ibrahim, ES Baker, NA Aly, AM Hamid, X Zhang, X Zheng, VBS Garimella, IK Webb, SA Prost, JA Sandoval, RV Norheim, GA Anderson, AV Tolmachev, and RD Smith. 2016. "Ion Mobility Separations of Isomers based upon Long Path Length Structures for Lossless Ion Manipulations Combined with Mass Spectrometry." ChemistrySelect 1(10):2396-2399. doi:10. 1002/slct. 201600460

Achieving High Resolution Ion Mobility Separations Using Traveling Waves in Compact Multiturn Structures for Lossless Ion Manipulations

Hamid AM, VBS Garimella, YM Ibrahim, L Deng, X Zheng, IK Webb, GA Anderson, SA Prost, RV Norheim, AV Tolmachev, ES Baker, and RD Smith. 2016. "Achieving high resolution ion mobility separations using traveling waves in compact multi-turn Structures for Lossless Ion Manipulations modules." Analytical Chemistry. doi:10. 1021/acs. analchem. 6b01914

Integrated Proteogenomic Characterization of Human High-Grade Serous Ovarian Cancer

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

A Structures for Lossless Ion Manipulations (SLIM) Module for Collision Induced Dissociation

Webb IK, VBS Garimella, RV Norheim, ES Baker, YM Ibrahim, and RD Smith. 2016. "A Structures for Lossless Ion Manipulations (SLIM) Module for Collision Induced Dissociation." Journal of the American Society for Mass Spectrometry 2016(27):1285-1288. doi:10.1007/s13361-016-1397-x

Mining the human urine proteome for monitoring renal transplant injury

Sigdel TK, Y Gao, J He, A Wang, CD Nicora, TL Fillmore, T Shi, BJM Webb-Robertson, RD Smith, W Qian, O Salvatierra, DG Camp, II, and M Sarwal. 2016. "Mining the Human Urine Proteome for Monitoring Renal Transplant Injury ." Kidney International 89(6):1244-1252. doi:10. 1016/j. kint. 2015. 12. 049

Capillary Electrophoresis–Nanoelectrospray Ionization–Selected Reaction Monitoring Mass Spectrometry via a True Sheathless Metal-Coated Emitter Interface for Robust and High-Sensitivity Sample Quantification

Guo X, TL Fillmore, Y Gao, and K Tang. 2016. "Capillary Electrophoresis-nanoelectrospray Ionization-selected Reaction Monitoring Mass Spectrometry Via A True Sheathless Metal-coated Emitter Interface For Robust And High Sensitivity Sample Quantification." Analytical Chemistry 88(8):4418-4425. doi:10.1021/acs.analchem.5b04912

Mobility-Selected Ion Trapping and Enrichment Using Structures for Lossless Ion Manipulations

Chen TC, YM Ibrahim, IK Webb, VBS Garimella, X Zhang, AM Hamid, L Deng, WE Karnesky, SA Prost, JA Sandoval, RV Norheim, GA Anderson, AV Tolmachev, ES Baker, and RD Smith. 2016. "Mobility-Selected Ion Trapping and Enrichment Using Structures for Lossless Ion Manipulations." Analytical Chemistry 88(3):1728-1733. doi:10.1021/acs.analchem.5b03910

SerpinB1 Promotes Pancreatic β Cell Proliferation

Quaamari A, E Dirice, N Gedeon, J Hu, JY Zhou, J Shirakawa, L Hou, J Goodman, C Karampelias, G Qiang, J Boucher, R Martinez, MA Gritsenko, DF De Jesus, S Kahraman, S Bhatt, RD Smith, HD Beer, P Jungtrakoon, Y Gong, AB Goldfine, CW Liew, A Doria, O Andersson, W Qian, E Remold-O'Donnell, and RN Kulkami. 2016. "SerpinB1 Promotes Pancreatic ? Cell Proliferation." Cell Metabolism 23(1):194-205. doi:10.1016/j.cmet.2015.12.001

The Measurement of Reversible Redox Dependent Post-translational Modifications and Their Regulation of Mitochondrial and Skeletal Muscle Function

Kramer PA, J Duan, W Qian, and DJ Marcinek. 2015. "The measurement of reversible redox dependent post-translational modifications and their regulation of mitochondrial and skeletal muscle function." Frontiers in Physiology 6:347-1 to 347-14. doi:10.3389/fphys.2015.00347

Quantitative Profiling of Protein S-Glutathionylation Reveals Redox-Dependent Regulation of Macrophage Function during Nanoparticle-Induced Oxidative Stress

Duan J, VK Kodali, MJ Gaffrey, J Guo, RK Chu, DG Camp, II, RD Smith, BD Thrall, and W Qian. 2015. "Quantitative Profiling of Protein S-Glutathionylation Reveals Redox-Dependent Regulation of Macrophage Function During Nanoparticle-Induced Oxidative Stress." ACS Nano Epub ahead of print:, doi:10.1021/acsnano.5b05524

Ion manipulations in structures for lossless ion manipulations (SLIM): computational evaluation of a 90° turn and a switch

Garimella VBS, YM Ibrahim, IK Webb, AB Ipsen, TC Chen, AV Tolmachev, ES Baker, GA Anderson, and RD Smith. 2015. "ION MANIPULATIONS IN STRUCTURES FOR LOSSLESS ION MANIPULATIONS (SLIM): COMPUTATIONAL EVALUATION OF A 90o TURN AND A SWITCH." Analyst 140(20):6845-6852. doi:10.1039/c5an00844a

Correcting systematic bias and instrument measurement drift with mzRefinery: Fig. 1.

Gibbons BC, MC Chambers, ME Monroe, DL Tabb, and SH Payne. 2015. "Correcting systematic bias and instrument measurement drift with mzRefinery." Bioinformatics 31(23):3838-3840. doi:10.1093/bioinformatics/btv437

SNaPP: Simplified Nanoproteomics Platform for Reproducible Global Proteomic Analysis of Nanogram Protein Quantities

Huang EL, PD Piehowski, DJ Orton, RJ Moore, W Qian, CP Casey, X Sun, SK Dey, KE Burnum-Johnson, and RD Smith. 2016. "SNaPP: Simplified Nano-Proteomics Platform for reproducible global proteomic analysis of nanogram protein quantities." Endocrinology . doi:10.1210/en.2015-1821 [In Press]

Contributions of immunoaffinity chromatography to deep proteome profiling of human biofluids

Wu C, J Duan, T Liu, RD Smith, and W Qian. 2016. "Contributions of Immunoaffinity Chromatography to Deep Proteome Profiling of Human Biofluids." Journal of Chromatography B. doi:10.1016/j.jchromb.2016.01.015

Characterization of Traveling Wave Ion Mobility Separations in Structures for Lossless Ion Manipulations

Hamid AM, YM Ibrahim, VBS Garimella, IK Webb, L Deng, TC Chen, GA Anderson, SA Prost, RV Norheim, AV Tolmachev, and RD Smith. 2015. "Characterization of Traveling Wave Ion Mobility Separations in Structures for Lossless Ion Manipulations." Analytical Chemistry. doi:10.1021/acs.analchem.5b02481

Lipidomic and proteomic analysis of Caenorhabditis elegans lipid droplets and identification of ACS-4 as a lipid droplet-associated protein

Vrablik TL, VA Petyuk, EM Larson, RD Smith, and J Watts. 2015. " Q21Q1 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. . doi:10.1016/j.bbalip.2015.06.004 [In Press]

An Optimized Informatics Pipeline for Mass Spectrometry-Based Peptidomics

Wu C, ME Monroe, Z Xu, GW Slysz, SH Payne, KD Rodland, T Liu, and RD Smith. 2015. "An Optimized Informatics Pipeline for Mass Spectrometry-Based Peptidomics." Journal of the American Society for Mass Spectrometry . doi:10.1007/s13361-015-1169-z [In Press]

Orthogonal Injection Ion Funnel Interface Providing Enhanced Performance for Selected Reaction Monitoring-Triple Quadrupole Mass Spectrometry

Chen TC, TL Fillmore, SA Prost, RJ Moore, YM Ibrahim, and RD Smith. 2015. "An Orthogonal Injection Ion Funnel Interface Providing Enhanced Performance for Selected Reaction Monitoring-Triple Quadruple Mass Spectrometry." Analytical Chemistry. doi:10.1021/acs.analchem.5b01482

Ion Trapping, Storage, and Ejection in Structures for Lossless Ion Manipulations

Zhang X, VBS Garimella, SA Prost, IK Webb, TC Chen, K Tang, AV Tolmachev, RV Norheim, ES Baker, GA Anderson, YM Ibrahim, and RD Smith. 2015. "Ion Trapping, Storage, and Ejection in Structures for Lossless Ion Manipulations ." Analytical Chemistry 87(12):6010-6016. doi:10.1021/acs.analchem.5b00214

Proteomic analysis reveals down-regulation of surfactant protein B in murine type II pneumocytes infected with influenza A virus

Kebaabetswe LP, AK Haick, MA Gritsenko, TL Fillmore, RK Chu, SO Purvine, BJM Webb-Robertson, MM Matzke, RD Smith, KM Waters, TO Metz, and TA Miura. 2015. "Proteomic Analysis Reveals Down-Regulation of Surfactant Protein B in Murine Type II Pneumocytes Infected with Influenza A Virus." Virology 438:96-107. doi:10.1016/j.virol.2015.03.045

Global Analysis of Salmonella Alternative Sigma Factor E on Protein Translation

Li J, ES Nakayasu, CC Overall, R Johnson, AS Kidwai, JE McDermott, C Ansong, F Heffron, E Cambronne, and JN Adkins. 2015. "Global analysis of Salmonella alternative sigma factor E on protein translation." Journal of Proteome Research 14(4):1716-1726. doi:10.1021/pr5010423

Perturbations in the Urinary Exosome in Transplant Rejection

Sigdel TK, Y NG, S Lee, CD Nicora, W Qian, RD Smith, DG Camp, II, and MM Sarwal. 2015. "Perturbations in the Urinary Exosome in Transplant Rejection." Frontiers of Medicine 1(57):, doi:10.3389/fmed.2014.00057

Improved ion optics for introduction of ions into a 9.4-T Fourier transform ion cyclotron resonance mass spectrometer

Chen Y, FE Leach, III, NK Kaiser, X Dang, YM Ibrahim, RV Norheim, GA Anderson, RD Smith, and AG Marshall. 2015. "Improved Ion Optics for Introduction of Ions into a 9.4 Tesla Fourier Transform Ion Cyclotron Resonance Mass Spectrometer." Journal of Mass Spectrometry 50(1):280-284. doi:10.1002/jms.3523

HAM-5 Functions As a MAP Kinase Scaffold during Cell Fusion in Neurospora crassa

Jonkers W, AC Leeder, C Ansong, Y Wang, F Yang, TL Starr, DG Camp, II, RD Smith, and NL Glass. 2014. "HAM-5 functions as a MAP kinase scaffold during cell fusion in Neurospora crassa." PLoS Genetics 10(11):Article No. e1004783. doi:10.1371/journal.pgen.1004783

On the Ionization and Ion Transmission Efficiencies of Different ESI-MS Interfaces

Cox JT, I Marginean, RD Smith, and K Tang. 2014. "On the Ionization and Ion Transmission Efficiencies of Different ESI-MS Interfaces." Journal of the American Society for Mass Spectrometry . doi:10.1007/s13361-014-0998-5 [In Press]

Ultrahigh-Resolution Differential Ion Mobility Separations of Conformers for Proteins above 10 kDa: Onset of Dipole Alignment?

Shvartsburg AA. 2014. "Ultrahigh-Resolution Differential Ion Mobility Separations of Conformers for Proteins above 10 kDa - Onset of Dipole Alignment?" Analytical Chemistry . doi:10.1021/ac502389a [In Press]

Proteogenomic strategies for identification of aberrant cancer peptides using large-scale next-generation sequencing data

Woo S, S Cha Won, S Na, C Guest, T Liu, RD Smith, KD Rodland, SH Payne, and V Bafna. 2014. "Proteogenomic strategies for identification of aberrant cancer peptides using large-scale Next Generation Sequencing data." Proteomics epub ahead of print:, doi:10.1002/pmic.201400206

Protein and microRNA biomarkers from lavage, urine, and serum in military personnel evaluated for dyspnea

Protein and microRNA biomarkers from lavage, urine, and serum in military personnel evaluated for dyspnea
Brown JN, HM Brewer, CD Nicora, KK Weitz, MJ Morris, AJ Skabelund, JN Adkins, RD Smith, JH Cho, and R Gelinas. 2014. "Protein and microRNA biomarkers from lavage, urine, and serum in military personnel evaluated for dyspnea." BMC Medical Genomics 7(1):58. doi:10.1186/1755-8794-7-58

Brain Insulin Lowers Circulating BCAA Levels by Inducing Hepatic BCAA Catabolism

Shin AC, M Fasshauer, N Filatova, LA Grundell, E Zielinski, J Zhou, T Scherer, C Lindtner, PJ White, AL Lapworth, O Llkayeva, U Knippschild, AM Wolf, L Scheja, KL Grove, RD Smith, W Qian, CJ Lynch, CB Newgard, and C Buettner. 2014. "Brain insulin lowers circulating BCAA levels by inducing hepatic BCAA catabolism ." Cell Metabolism. doi:10.1016/j.cmet.2014.09.003 [In Press]

Mobility-Resolved Ion Selection in Uniform Drift Field Ion Mobility Spectrometry/Mass Spectrometry: Dynamic Switching in Structures for Lossless Ion Manipulations

Webb IK, VBS Garimella, AV Tolmachev, TC Chen, X Zhang, JT Cox, RV Norheim, SA Prost, BL Lamarche, GA Anderson, YM Ibrahim, and RD Smith. 2014. "Mobility-Resolved Ion Selection in Uniform Drift Field Ion Mobility Spectrometry/Mass Spectrometry; Dynamic Switching in Structures for Lossless Ion Manipulations ." Analytical Chemistry epub ahead of print:, doi:10.1021/ac502139e

Effective Ion Mobility Calculations for Macromolecules by Scattering on Electron Clouds

Alexeev Y, D Fedorov, and AA Shvartsburg. 2014. "Effective Ion Mobility Calculations for Macromolecules by Scattering off Electron Clouds." Journal of Physical Chemistry A 118:6763-6772. doi:10.1021/jp505012c

Characterization of Ion Dynamics in Structures for Lossless Ion Manipulations

Tolmachev AV, IK Webb, YM Ibrahim, VBS Garimella, X Zhang, GA Anderson, and RD Smith. 2014. "Characterization of Ion Dynamics in Structures for Lossless Ion Manipulations." Analytical Chemistry epub ahead of print:, doi:10.1021/ac502054p

Experimental Evaluation and Optimization of Structures for Lossless Ion Manipulations for Ion Mobility Spectrometry with Time-of-Flight Mass Spectrometry

Webb IK, VBS Garimella, AV Tolmachev, TC Chen, X Zhang, RV Norheim, SA Prost, BL Lamarche, GA Anderson, YM Ibrahim, and RD Smith. 2014. "Experimental Evaluation and Optimization of Structures for Lossless Ion Manipulations for Ion Mobility Spectrometry/Time-of-Flight Mass Spectrometry." Analytical Chemistry Epub ahead of print:, doi:10.1021/ac502055e

Development of a new ion mobility time-of-flight mass spectrometer

Ibrahim YM, ES Baker, WF Danielson Iii, RV Norheim, DC Prior, GA Anderson, ME Belov, and RD Smith. "Development of a new ion mobility (quadrupole) time-of-flight mass spectrometer." International Journal of Mass Spectrometry. doi:10.1016/j.ijms.2014.07.034

Detecting and Removing Data Artifacts in Hadamard Transform Ion Mobility-Mass Spectrometry Measurements

Prost SA, KL Crowell, ES Baker, YM Ibrahim, BH Clowers, ME Monroe, GA Anderson, RD Smith, and SH Payne. 2014. "Detecting and Removing Data Artifacts in Hadamard Transform Ion Mobility-Mass Spectrometry Measurements." Journal of the American Society for Mass Spectrometry Epub Ahead of print:, doi:10.1007/s13361-014-0895-y

Detecting differential protein expression in large-scale population proteomics

Ryu S, W Qian, DG Camp, II, RD Smith, RG Tompkins, RW Davis, and W Xiao. 2014. "Detecting differential protein expression in large-scale population proteomics." Bioinformatics 00(00):1-7. doi:10.1093/bioinformatics/btu341

The proteome and phosphoproteome of Neurospora crassa in response to cellulose, sucrose and carbon starvation

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. doi:10.1016/j.fgb.2014.05.005 [Epub ahead of print]

Improving Ion Mobility Measurement Sensitivity by Utilizing Helium in an Ion Funnel Trap

Ibrahim YM, VBS Garimella, AV Tolmachev, ES Baker, and RD Smith. 2014. "Improving Ion Mobility Measurement Sensitivity by Utilizing Helium in an Ion Funnel-Trap." Analytical Chemistry Epub ahead of print:, doi:10.1021/ac404250z

LC–MS Proteomics Analysis of the Insulin/IGF-1-Deficient Caenorhabditis elegans daf-2(e1370) Mutant Reveals Extensive Restructuring of Intermediary Metabolism

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 C. elegans daf-2(e1370) Mutant Reveals Extensive Restructuring of Intermediary Metabolism." Journal of Proteome Research. doi:dx.doi.org/pr401081b

Differential Ion Mobility Separations in up to 100 % Helium Using Microchips

Shvartsburg AA, YM Ibrahim, and RD Smith. 2014. "Differential Ion Mobility Separations in up to 100% Helium Using Microchips." Journal of the American Society for Mass Spectrometry 2014(25):480-489. doi:10.1007/s13361-013-0797-4

Optimization for peptide sample preparation for urine peptidomics

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

Accounting for Population Variation in Targeted Proteomics

Fujimoto GM, LM Rodriguez, B MacLean, RD Smith, M MacCoss, and SH Payne. 2013. "Accounting for population variation in targeted proteomics." Journal of Proteome Research 13(1):321-323. doi:10.1021/pr4011052