Review, Evaluation, and Discussion of the Challenges of Missing Value Imputation for Mass Spectrometry-Based Label-Free Global Proteomics
Webb-Robertson, Bobbie-Jo M, Wiberg, Holli K, Matzke, Melissa M, Brown, Joseph N, Wang, Jing, McDermott, Jason E, Smith, Richard D, Rodland, Karin D, Metz, Thomas O, Pounds, Joel G, Waters, Katrina M
Published in Journal of proteome research (01.05.2015)
Published in Journal of proteome research (01.05.2015)
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Journal Article
Comparative developmental toxicity of environmentally relevant oxygenated PAHs
Knecht, Andrea L., Goodale, Britton C., Truong, Lisa, Simonich, Michael T., Swanson, Annika J., Matzke, Melissa M., Anderson, Kim A., Waters, Katrina M., Tanguay, Robert L.
Published in Toxicology and applied pharmacology (01.09.2013)
Published in Toxicology and applied pharmacology (01.09.2013)
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Pathogenic influenza viruses and coronaviruses utilize similar and contrasting approaches to control interferon-stimulated gene responses
Menachery, Vineet D, Eisfeld, Amie J, Schäfer, Alexandra, Josset, Laurence, Sims, Amy C, Proll, Sean, Fan, Shufang, Li, Chengjun, Neumann, Gabriele, Tilton, Susan C, Chang, Jean, Gralinski, Lisa E, Long, Casey, Green, Richard, Williams, Christopher M, Weiss, Jeffrey, Matzke, Melissa M, Webb-Robertson, Bobbie-Jo, Schepmoes, Athena A, Shukla, Anil K, Metz, Thomas O, Smith, Richard D, Waters, Katrina M, Katze, Michael G, Kawaoka, Yoshihiro, Baric, Ralph S
Published in mBio (20.05.2014)
Published in mBio (20.05.2014)
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Journal Article
Mechanisms of severe acute respiratory syndrome coronavirus-induced acute lung injury
Gralinski, Lisa E, Bankhead, 3rd, Armand, Jeng, Sophia, Menachery, Vineet D, Proll, Sean, Belisle, Sarah E, Matzke, Melissa, Webb-Robertson, Bobbie-Jo M, Luna, Maria L, Shukla, Anil K, Ferris, Martin T, Bolles, Meagan, Chang, Jean, Aicher, Lauri, Waters, Katrina M, Smith, Richard D, Metz, Thomas O, Law, G Lynn, Katze, Michael G, McWeeney, Shannon, Baric, Ralph S
Published in mBio (06.08.2013)
Published in mBio (06.08.2013)
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Journal Article
MPLEx: a Robust and Universal Protocol for Single-Sample Integrative Proteomic, Metabolomic, and Lipidomic Analyses
Nakayasu, Ernesto S, Nicora, Carrie D, Sims, Amy C, Burnum-Johnson, Kristin E, Kim, Young-Mo, Kyle, Jennifer E, Matzke, Melissa M, Shukla, Anil K, Chu, Rosalie K, Schepmoes, Athena A, Jacobs, Jon M, Baric, Ralph S, Webb-Robertson, Bobbie-Jo, Smith, Richard D, Metz, Thomas O
Published in mSystems (01.05.2016)
Published in mSystems (01.05.2016)
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Journal Article
A statistical selection strategy for normalization procedures in LC-MS proteomics experiments through dataset-dependent ranking of normalization scaling factors
Webb-Robertson, Bobbie-Jo M., Matzke, Melissa M., Jacobs, Jon M., Pounds, Joel G., Waters, Katrina M.
Published in Proteomics (Weinheim) (01.12.2011)
Published in Proteomics (Weinheim) (01.12.2011)
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Journal Article
A comparative analysis of computational approaches to relative protein quantification using peptide peak intensities in label-free LC-MS proteomics experiments
Matzke, Melissa M., Brown, Joseph N., Gritsenko, Marina A., Metz, Thomas O., Pounds, Joel G., Rodland, Karin D., Shukla, Anil K., Smith, Richard D., Waters, Katrina M., McDermott, Jason E., Webb-Robertson, Bobbie-Jo
Published in Proteomics (Weinheim) (01.02.2013)
Published in Proteomics (Weinheim) (01.02.2013)
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Journal Article
Release of Severe Acute Respiratory Syndrome Coronavirus Nuclear Import Block Enhances Host Transcription in Human Lung Cells
Sims, Amy C, Tilton, Susan C, Menachery, Vineet D, Gralinski, Lisa E, Schäfer, Alexandra, Matzke, Melissa M, Webb-Robertson, Bobbie-Jo M, Chang, Jean, Luna, Maria L, Long, Casey E, Shukla, Anil K, Bankhead, 3rd, Armand R, Burkett, Susan E, Zornetzer, Gregory, Tseng, Chien-Te Kent, Metz, Thomas O, Pickles, Raymond, McWeeney, Shannon, Smith, Richard D, Katze, Michael G, Waters, Katrina M, Baric, Ralph S
Published in Journal of Virology (01.04.2013)
Published in Journal of Virology (01.04.2013)
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Journal Article
A network integration approach to predict conserved regulators related to pathogenicity of influenza and SARS-CoV respiratory viruses
Mitchell, Hugh D, Eisfeld, Amie J, Sims, Amy C, McDermott, Jason E, Matzke, Melissa M, Webb-Robertson, Bobbi-Jo M, Tilton, Susan C, Tchitchek, Nicolas, Josset, Laurence, Li, Chengjun, Ellis, Amy L, Chang, Jean H, Heegel, Robert A, Luna, Maria L, Schepmoes, Athena A, Shukla, Anil K, Metz, Thomas O, Neumann, Gabriele, Benecke, Arndt G, Smith, Richard D, Baric, Ralph S, Kawaoka, Yoshihiro, Katze, Michael G, Waters, Katrina M
Published in PloS one (25.07.2013)
Published in PloS one (25.07.2013)
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Journal Article
Association of Carcinogenic Polycyclic Aromatic Hydrocarbon Emissions and Smoking with Lung Cancer Mortality Rates on a Global Scale
Motorykin, Oleksii, Matzke, Melissa M, Waters, Katrina M, Massey Simonich, Staci L
Published in Environmental science & technology (02.04.2013)
Published in Environmental science & technology (02.04.2013)
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Journal Article
Combined Statistical Analyses of Peptide Intensities and Peptide Occurrences Improves Identification of Significant Peptides from MS-Based Proteomics Data
Webb-Robertson, Bobbie-Jo M, McCue, Lee Ann, Waters, Katrina M, Matzke, Melissa M, Jacobs, Jon M, Metz, Thomas O, Varnum, Susan M, Pounds, Joel G
Published in Journal of proteome research (05.11.2010)
Published in Journal of proteome research (05.11.2010)
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Journal Article
Effect of Native American Fish Smoking Methods on Dietary Exposure to Polycyclic Aromatic Hydrocarbons and Possible Risks to Human Health
Forsberg, Norman D, Stone, Dave, Harding, Anna, Harper, Barbara, Harris, Stuart, Matzke, Melissa M, Cardenas, Andres, Waters, Katrina M, Anderson, Kim A
Published in Journal of agricultural and food chemistry (11.07.2012)
Published in Journal of agricultural and food chemistry (11.07.2012)
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Transplacental carcinogenesis with dibenzo[ def , p ]chrysene (DBC): Timing of maternal exposures determines target tissue response in offspring
Shorey, Lyndsey E, Castro, David J, Baird, William M, Siddens, Lisbeth K, Löhr, Christiane V, Matzke, Melissa M, Waters, Katrina M, Corley, Richard A, Williams, David E
Published in Cancer letters (01.04.2012)
Published in Cancer letters (01.04.2012)
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Systems Virology Identifies a Mitochondrial Fatty Acid Oxidation Enzyme, Dodecenoyl Coenzyme A Delta Isomerase, Required for Hepatitis C Virus Replication and Likely Pathogenesis
RASMUSSEN, Angela L, DIAMOND, Deborah L, SMITH, Richard D, KATZE, Michael G, MCDERMOTT, Jason E, XIAOLI GAO, METZ, Thomas O, MATZKE, Melissa M, CARTER, Victoria S, BELISLE, Sarah E, KORTH, Marcus J, WATERS, Katrina M
Published in Journal of Virology (01.11.2011)
Published in Journal of Virology (01.11.2011)
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Advancing the High Throughput Identification of Liver Fibrosis Protein Signatures Using Multiplexed Ion Mobility Spectrometry
Baker, Erin Shammel, Burnum-Johnson, Kristin E., Jacobs, Jon M., Diamond, Deborah L., Brown, Roslyn N., Ibrahim, Yehia M., Orton, Daniel J., Piehowski, Paul D., Purdy, David E., Moore, Ronald J., Danielson, William F., Monroe, Matthew E., Crowell, Kevin L., Slysz, Gordon W., Gritsenko, Marina A., Sandoval, John D., LaMarche, Brian L., Matzke, Melissa M., Webb-Robertson, Bobbie-Jo M., Simons, Brenna C., McMahon, Brian J., Bhattacharya, Renuka, Perkins, James D., Carithers, Robert L., Strom, Susan, Self, Steven G., Katze, Michael G., Anderson, Gordon A., Smith, Richard D.
Published in Molecular & cellular proteomics (01.04.2014)
Published in Molecular & cellular proteomics (01.04.2014)
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Journal Article
High and low doses of ionizing radiation induce different secretome profiles in a human skin model
Zhang, Qibin, Matzke, Melissa, Schepmoes, Athena A, Moore, Ronald J, Webb-Robertson, Bobbie-Jo, Hu, Zeping, Monroe, Matthew E, Qian, Wei-Jun, Smith, Richard D, Morgan, William F
Published in PloS one (18.03.2014)
Published in PloS one (18.03.2014)
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Journal Article
Bayesian proteoform modeling improves protein quantification of global proteomic measurements
Webb-Robertson, Bobbie-Jo M, Matzke, Melissa M, Datta, Susmita, Payne, Samuel H, Kang, Jiyun, Bramer, Lisa M, Nicora, Carrie D, Shukla, Anil K, Metz, Thomas O, Rodland, Karin D, Smith, Richard D, Tardiff, Mark F, McDermott, Jason E, Pounds, Joel G, Waters, Katrina M
Published in Molecular & cellular proteomics (01.12.2014)
Published in Molecular & cellular proteomics (01.12.2014)
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Journal Article
Data integration reveals key homeostatic mechanisms following low dose radiation exposure
Tilton, Susan C., Matzke, Melissa M., Sowa, Marianne B., Stenoien, David L., Weber, Thomas J., Morgan, William F., Waters, Katrina M.
Published in Toxicology and applied pharmacology (15.05.2015)
Published in Toxicology and applied pharmacology (15.05.2015)
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A halotyrosine antibody that detects increased protein modifications in asthma patients
Jin, Hongjun, Hallstrand, Teal S., Daly, Don S., Matzke, Melissa M., Nair, Parameswaran, Bigelow, Diana J., Pounds, Joel G., Zangar, Richard C.
Published in Journal of immunological methods (31.01.2014)
Published in Journal of immunological methods (31.01.2014)
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