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Submitted
Matzke MM, Datta S, Payne SH, Nicora CD, Shukla AK, Metz TO, Smith RD, Tardiff MF, Waters KM, McDermott JE et al..  Submitted.  Bayesian Proteoform Modeling Improves Protein Quantification of Global Proteomic Experiments. Molecular & Cellular Proteomics. File MCP_Bayesian_Proteoform_Dilution_All_Raw_Intensity.xlsx (15.74 MB)File MCP_Bayesian_Proteoform_Dilution_Normalized.xlsx (8.9 MB)
2013
Matzke MM, Brown JN, Gritsenko MA, Metz TO, Pounds JG, Rodland KD, Shukla AK, Smith RD, Waters KM, McDermott JE et al..  2013.  A comparative analysis of computational approaches to relative protein quantification using peptide peak intensities in label-free LC-MS proteomics experiments.. Proteomics.
Ansong C, Schrimpe-Rutledge AC, Mitchell HD, Chauhan S, Jones MB, Kim Y-M, McAteer K, Kaiser BLDeathera, Dubois JL, Brewer HM et al..  2013.  A multi-omic systems approach to elucidating Yersinia virulence mechanisms.. Mol Biosyst.
Mitchell HD, Eisfeld AJ, Sims AC, McDermott JE, Matzke MM, Webb-Robertson B-JM, Tilton SC, Tchitchek N, Josset L, Li C et al..  2013.  A network integration approach to predict conserved regulators related to pathogenicity of influenza and SARS-CoV respiratory viruses.. PLoS One.
Kim Y-M, Schmidt BJ, Kidwai AS, Jones MB, Kaiser BLDeathera, Brewer HM, Mitchell HD, Palsson BO, McDermott JE, Heffron F et al..  2013.  Salmonella modulates metabolism during growth under conditions that induce expression of virulence genes.. Mol Biosyst.
Webb-Robertson B-JM, Matzke MM, Metz TO, McDermott JE, Walker H, Rodland KD, Pounds JG, Waters KM.  2013.  Sequential projection pursuit principal component analysis--dealing with missing data associated with new -omics technologies.. Biotechniques.
Ansong C, Deatherage BL, Hyduke D, Schmidt B, McDermott JE, Jones MB, Chauhan S, Charusanti P, Kim Y-M, Nakayasu ES et al..  2013.  Studying Salmonellae and Yersiniae host-pathogen interactions using integrated 'omics and modeling.. Curr Top Microbiol Immunol.
2011
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.
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.
2010
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.
2009
Shi L, Chowdhury SM, Smallwood HS, Yoon H, Mottaz-Brewer HM, Norbeck AD, McDermott JE, Clauss TRW, Heffron F, Smith RD et al..  2009.  Proteomic investigation of the time course responses of RAW 264.7 macrophages to infection with Salmonella enterica.. Infect Immun.
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