U.S. Department of Energy

Pacific Northwest National Laboratory


Export 175 results:
Bordbar A, Mo ML, Nakayasu ES, Schrimpe-Rutledge AC, Kim Y-M, Metz TO, Jones MB, Frank BC, Smith RD, Peterson SN et al..  2012.  Model-driven multi-omic data analysis elucidates metabolic immunomodulators of macrophage activation.. Mol Syst Biol.
Gao X, Zhang Q, Meng D, Isaac G, Zhao R, Fillmore TL, Chu RK, Zhou J, Tang K, Hu Z et al..  2012.  A reversed-phase capillary ultra-performance liquid chromatography-mass spectrometry (UPLC-MS) method for comprehensive top-down/bottom-up lipid profiling.. Anal Bioanal Chem.
Chauvignè-Hines LM, Anderson LN, Weaver HM, Brown JN, Koech PK, Nicora CD, Hofstad BA, Smith RD, Wilkins MJ, Callister SJ et al..  2012.  Suite of activity-based probes for cellulose-degrading enzymes.. J Am Chem Soc.
Alfaro JF, Gong C-X, Monroe ME, Aldrich JT, Clauss TRW, Purvine SO, Wang Z, Camp DG, Shabanowitz J, Stanley P et al..  2012.  Tandem mass spectrometry identifies many mouse brain O-GlcNAcylated proteins including EGF domain-specific O-GlcNAc transferase targets.. Proc Natl Acad Sci U S A.
Burnum K.E, Hirota Y., Baker ES, Yoshie M., Ibrahim YM, Monroe ME, Anderson GA, Smith RD, Daikoku T., Dey S.K.  2012.  Uterine deletion of Trp53 compromises antioxidant responses in the mouse decidua.. Endocrinology. File Uterine deletion of Trp53 compromises antioxidant responses in the mouse decidua. Endocrinology 153 4568-4579.xlsx (2.93 MB)
Zhang Q, Monroe ME, Schepmoes AA, Clauss TRW, Gritsenko MA, Meng D, Petyuk VA, Smith RD, Metz TO.  2011.  Comprehensive identification of glycated peptides and their glycation motifs in plasma and erythrocytes of control and diabetic subjects.. J Proteome Res.
Dresang LR, Teuton JR, Feng H, Jacobs JM, Camp DG, Purvine SO, Gritsenko MA, Li Z, Smith RD, Sugden B et al..  2011.  Coupled transcriptome and proteome analysis of human lymphotropic tumor viruses: insights on the detection and discovery of viral genes.. BMC Genomics.
Gonzalez RM, Zhang Q, Zangar RC, Smith RD, Metz TO.  2011.  Development of a fibrinogen-specific sandwich enzyme-linked immunosorbent assay microarray assay for distinguishing between blood plasma and serum samples.. Anal Biochem.
Niemann GS, Brown RN, Gustin JK, Stufkens A, Shaikh-Kidwai AS, Li J, McDermott JE, Brewer HM, Schepmoes A, Smith RD et al..  2011.  Discovery of novel secreted virulence factors from Salmonella enterica serovar Typhimurium by proteomic analysis of culture supernatants.. Infect Immun.
Kim Y-M, Metz TO, Hu Z, Wiedner SD, Kim J-S, Smith RD, Morgan WF, Zhang Q.  2011.  Formation of dehydroalanine from mimosine and cysteine: artifacts in gas chromatography/mass spectrometry based metabolomics.. Rapid Commun Mass Spectrom.
Matzke MM, Waters KM, Metz TO, Jacobs JM, Sims AC, Baric RS, Pounds JG, Webb-Robertson B-JM.  2011.  Improved quality control processing of peptide-centric LC-MS proteomics data.. Bioinformatics.
Venter E, Smith RD, Payne SH.  2011.  Proteogenomic analysis of bacteria and archaea: a 46 organism case study.. PLoS One.
Shvartsburg AA, Isaac G, Leveque N, Smith RD, Metz TO.  2011.  Separation and classification of lipids using differential ion mobility spectrometry.. J Am Soc Mass Spectrom.
Yoon H, Ansong C, McDermott JE, Gritsenko M, Smith RD, Heffron F, Adkins JN.  2011.  Systems analysis of multiple regulator perturbations allows discovery of virulence factors in Salmonella.. BMC Syst Biol.
Rasmussen AL, Diamond DL, McDermott JE, Gao X, Metz TO, Matzke MM, Carter VS, Belisle SE, Korth MJ, Waters KM et al..  2011.  Systems virology identifies a mitochondrial fatty acid oxidation enzyme, dodecenoyl coenzyme A delta isomerase, required for hepatitis C virus replication and likely pathogenesis.. J Virol.
McDermott JE, Yoon H, Nakayasu ES, Metz TO, Hyduke DR, Kidwai AS, Palsson BO, Adkins JN, Heffron F.  2011.  Technologies and approaches to elucidate and model the virulence program of salmonella.. Front Microbiol.
Brown JN, Estep RD, Lopez-Ferrer D, Brewer HM, Clauss TR, Manes NP, O'Connor M, Li H, Adkins JN, Wong SW et al..  2010.  Characterization of macaque pulmonary fluid proteome during monkeypox infection: dynamics of host response.. Mol Cell Proteomics.
Webb-Robertson B-JM, McCue LAnn, Waters KM, Matzke MM, Jacobs JM, Metz TO, Varnum SM, Pounds JG.  2010.  Combined statistical analyses of peptide intensities and peptide occurrences improves identification of significant peptides from MS-based proteomics data.. J Proteome Res.
Petyuk VA, Mayampurath AM, Monroe ME, Polpitiya AD, Purvine SO, Anderson GA, Camp DG, Smith RD.  2010.  DtaRefinery, a software tool for elimination of systematic errors from parent ion mass measurements in tandem mass spectra data sets.. Mol Cell Proteomics.
Brown JN, Palermo RE, Baskin CR, Gritsenko M, Sabourin PJ, Long JP, Sabourin CL, Bielefeldt-Ohmann H, García-Sastre A, Albrecht R et al..  2010.  Macaque proteome response to highly pathogenic avian influenza and 1918 reassortant influenza virus infections.. J Virol. File MacaqueProteome_PeptideCrosstab.xlsx (2.02 MB)
Adkins JN, Mottaz H, Metz TO, Ansong C, Manes NP, Smith RD, Heffron F.  2010.  Performing comparative peptidomics analyses of Salmonella from different growth conditions.. Methods Mol Biol.
Sorensen CM, Ding J, Zhang Q, Alquier T, Zhao R, Mueller PW, Smith RD, Metz TO.  2010.  Perturbations in the lipid profile of individuals with newly diagnosed type 1 diabetes mellitus: lipidomics analysis of a Diabetes Antibody Standardization Program sample subset.. Clin Biochem.
Angel TE, Luft BJ, Yang X, Nicora CD, Camp DG, Jacobs JM, Smith RD.  2010.  Proteome analysis of Borrelia burgdorferi response to environmental change.. PLoS One.
Diamond DL, Syder AJ, Jacobs JM, Sorensen CM, Walters K-A, Proll SC, McDermott JE, Gritsenko MA, Zhang Q, Zhao R et al..  2010.  Temporal proteome and lipidome profiles reveal hepatitis C virus-associated reprogramming of hepatocellular metabolism and bioenergetics.. PLoS Pathog.


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