Collaborative research projects in the PNNL NIH P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'
EMSL Project ID
50604
Abstract
Collaborative research projects in the PNNL NIH P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'
Project Details
Start Date
2018-10-09
End Date
2021-09-30
Status
Closed
Released Data Link
Team
Principal Investigator
Team Members
Related Publications
Burnum-Johnson K.E., X. Zheng, J.N. Dodds, J. Ash, D. Fourches, C.D. Nicora, and J.P. Wendler, et al. 2019. "Ion mobility spectrometry and the omics: Distinguishing isomers, molecular classes and contaminant ions in complex samples." Trends in Analytical Chemistry. TrAC 116. PNNL-SA-140985. doi:10.1016/j.trac.2019.04.022
Cao X., T. Zhang, G.M. DeLoid, M.J. Gaffrey, K.K. Weitz, B.D. Thrall, and W. Qian, et al. 2020. "Evaluation of the cytotoxic and cellular proteome impacts of food-grade TiO2 (E171) using simulated gastrointestinal digestions and a tri-culture small intestinal epithelial model." NanoImpact 17. PNNL-SA-147195. doi:10.1016/j.impact.2019.100202
Chiao Y., H. Zhang, M. Sweetwyne, J. Whitson, Y. Ting, N. Basisty, and L. Pino, et al. 2020. "Late-life restoration of mitochondrial function reverses cardiac dysfunction in old mice." eLife 9. PNNL-SA-150324. doi:10.1016/j.impact.2020.100216
07/10/2020
Chiao Y., H. Zhang, M. Sweetwyne, J. Whitson, Y. Ting, N. Basisty, and L. Pino, et al. 2020. "Late-life restoration of mitochondrial function reverses cardiac dysfunction in old mice." PLoS Biology. PNNL-SA-150324. doi:10.1016/j.impact.2020.100216.
Dou M., C. Tsai, P.D. Piehowski, Y. Wang, T.L. Fillmore, R. Zhao, and R.J. Moore, et al. 2019. "Automated Nanoflow Two-Dimensional Reversed-Phase Liquid Chromatography System Enables In-Depth Proteome and Phosphoproteome Profiling of Nanoscale Samples." Analytical Chemistry 91, no. 15:9707-9715. PNNL-SA-141437. doi:10.1021/acs.analchem.9b01248
Kagan J., R.L. Moritz, R. Mazurchuk, J. Lee, P. Kharchenko, O. Rozenblatt-Rosen, and E. Ruppin, et al. 2020. "NCI Think-Tank Meeting Report on Proteomic Cartography and Biomarkers at the Single-Cell Level: Interrogation of Premalignant Lesions." Journal of Proteome Research. PNNL-SA-152101. doi:10.1021/acs.jproteome.0c00021
Nicora C.D., A. Sims, K.J. Bloodsworth, Y. Kim, R.J. Moore, J.E. Kyle, and E.S. Nakayasu, et al. 2020. "Metabolite, Protein, and Lipid Extraction (MPLEx): a method that simultaneously inactivates Middle East respiratory syndrome coronavirus and allows analysis of multiple host cell components following infection." In MERS Coronavirus: Methods and Protocols, edited by R. Vijay. 173-194. New York, New York:Humana. PNNL-SA-142077. doi:10.1007/978-1-0716-0211-9_14
Stoddard E.G., B.J. Killinger, S. Nag, J. Martin, R.A. Corley, J.N. Smith, and A.T. Wright. 2019. "Benzo[a]pyrene Induction of Glutathione S-Transferases: An Activity-Based Protein Profiling Investigation." Chemical Research in Toxicology 32, no. 6:1259-1267. PNNL-SA-137670. doi:10.1021/acs.chemrestox.9b00069
Tsai C., J.S. Smith, K. Krajewski, R. Zhao, A.M. Moghieb, C.D. Nicora, and X. Xiong, et al. 2019. "Tandem Mass Tag Labeling Facilitates Reversed-Phase Liquid Chromatography-Mass Spectrometry Analysis of Hydrophilic Phosphopeptides." Analytical Chemistry 91, no. 18:11606-11613. PNNL-SA-142808. doi:10.1021/acs.analchem.9b01814
Tsai C., J.S. Smith, K. Krajewski, R. Zhao, A.M. Moghieb, C.D. Nicora, and X. Xiong, et al. 2019. "TMT labeling facilitates RPLC-MS analysis of hydrophilic phosphopeptides." Analytical Chemistry. PNNL-SA-142808. doi:10.1021/acs.analchem.9b01814
Tsai C., R. Zhao, R.J. Moore, S.M. Williams, K.D. Schultz, L. Pasa Tolic, and K.D. Rodland, et al. 2020. "An improved Boosting to Amplify Signal with Isobaric Labeling (iBASIL) strategy for precise quantitative single-cell proteomics." Molecular and Cellular Proteomics. PNNL-SA-149183. doi:10.1074/mcp.RA119.001857
Wang X., A.C. Swensen, T. Zhang, P.D. Piehowski, M.J. Gaffrey, M.E. Monroe, and Y. Zhu, et al. 2020. "Accurate Identification of Deamidation and Citrullination from Global Shotgun Proteomics Data Using a Dual-search Delta Score Strategy." Journal of Proteome Research 19, no. 4:1863-1872. PNNL-SA-149222. doi:10.1021/acs.jproteome.9b00766
Weber T.J., W. Qian, J.N. Smith, M.A. Gritsenko, D. Hu, W.B. Chrisler, and C. Timchalk. 2019. "Stable Acinar Progenitor Cell Model Identifies Treacle-Dependent Radioresistance." Radiation Research 192, no. 2:135-144. PNNL-SA-140501. doi:10.1667/RR15342.1
Xiang P, Zhu Y, Yang Y, Zhao Z, Williams SM, Moore RJ, Kelly RT, Smith RD, Liu S (2020) Picoflow Liquid Chromatography?Mass Spectrometry for Ultrasensitive Bottom-Up Proteomics Using 2-μm-i.d. Open Tubular Columns. Anal Chem 92: 4711?4715.
Zhang P., M.J. Gaffrey, Y. Zhu, W.B. Chrisler, T.L. Fillmore, L. Yi, and C.D. Nicora, et al. 2019. "Carrier-assisted single-tube processing approach for targeted proteomics analysis of low numbers of mammalian cells." Analytical Chemistry 91, no. 2:1441-1451. PNNL-SA-138130. doi:10.1021/acs.analchem.8b04258
Zhang T., M.J. Gaffrey, D.G. Thomas, T.J. Weber, B.M. Hess, K.K. Weitz, and P.D. Piehowski, et al. 2020. "A proteome-wide assessment of the oxidative stress paradigm for metal and metal-oxide nanomaterials in human macrophages." NanoImpact 17. PNNL-SA-147217. doi:10.1016/j.impact.2019.100194
Zhang T., M.J. Gaffrey, M.E. Monroe, D.G. Thomas, K.K. Weitz, P.D. Piehowski, and V.A. Petyuk, et al. 2020. "Block design with common reference samples enables robust large-scale label-free quantitative proteome profiling." Journal of Proteome Research 19, no. 7:2863-2872. PNNL-SA-151164. doi:10.1021/acs.jproteome.0c00310
Zhang Y., Z. Ouyang, W. Qian, R.D. Smith, W. Wong, and R.W. Davis. 2020. "Meta-analysis of peptides to detect protein significance." Statistics and Its Interface 13. PNNL-SA-152554. doi:10.4310/sii.2020.v13.n4.a4
Zheng X., F.B. Smith, A. Noor, J. Cai, R.D. Smith, and E.S. Baker. 2019. "Evaluating the structural complexity of isomeric bile acids with ion mobility spectrometry." Analytical and Bioanalytical Chemistry. PNNL-SA-147447. doi:10.1007/s00216-019-01869-0