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2018
Mertins P., Tang L.C, Krug K., Clark D.J, Gritsenko M.A, Chen L., Clauser K.R, Clauss T.R, Shah P., Gillette M.A et al..  2018.  Reproducible workflow for multiplexed deep-scale proteome and phosphoproteome analysis of tumor tissues by liquid chromatography-mass spectrometry. Nat Protoc.
Guo J., Wilken S., Jimenez V., Choi C.J, Ansong C., Dannebaum R., Sudek L., Milner D.S, Bachy C., Reistetter E.N et al..  2018.  Specialized proteomic responses and an ancient photoprotection mechanism sustain marine green algal growth during phosphate limitation. Nat Microbiol.
Zhu Y., Zhao R., Piehowski P.D, Moore R.J, Lim S., Orphan V.J, Pa?a-Toli? L., Qian W.J, Smith R.D, Kelly R.T.  2018.  Subnanogram proteomics: impact of LC column selection, MS instrumentation and data analysis strategy on proteome coverage for trace samples. Int J Mass Spectrom.
Yu L., Petyuk V.A, Gaiteri C., Mostafavi S., Young-Pearse T., Shah R.C, Buchman A.S, Schneider J.A, Piehowski P.D, Sontag R.L et al..  2018.  Targeted brain proteomics uncover multiple pathways to Alzheimer's dementia. Ann. Neurol..
Yu L., Petyuk V.A, Gaiteri C., Mostafavi S., Young-Pearse T., Shah R.C, Buchman A.S, Schneider J.A, Piehowski P.D, Sontag R.L et al..  2018.  Targeted brain proteomics uncover multiple pathways to Alzheimer's dementia. Ann. Neurol..
Yi L., Shi T., Gritsenko M.A, Chan C.YX'avia, Fillmore T.L, Hess B.M, Swensen A.C, Liu T., Smith R.D, Wiley H.S et al..  2018.  Targeted Quantification of Phosphorylation Dynamics in the Context of EGFR-MAPK Pathway. Anal. Chem..
Garabedian A., Benigni P., Ramirez C.E, Baker E.S, Liu T., Smith R.D, Fernandez-Lima F..  2018.  Towards Discovery and Targeted Peptide Biomarker Detection Using nanoESI-TIMS-TOF MS. J. Am. Soc. Mass Spectrom..
Nagy G., Attah I.K, Garimella S.VB, Tang K., Ibrahim Y.M, Baker E.S, Smith R.D.  2018.  Unraveling the isomeric heterogeneity of glycans: ion mobility separations in structures for lossless ion manipulations. Chem. Commun. (Camb.).
MacLean B.X, Pratt B.S, Egertson J.D, MacCoss M.J, Smith R.D, Baker E.S.  2018.  Using Skyline to Analyze Data-Containing Liquid Chromatography, Ion Mobility Spectrometry, and Mass Spectrometry Dimensions. J. Am. Soc. Mass Spectrom..
Zheng X., Dupuis K.T, Aly N.A, Zhou Y., Smith F.B, Tang K., Smith R.D, Baker E.S.  2018.  Utilizing ion mobility spectrometry and mass spectrometry for the analysis of polycyclic aromatic hydrocarbons, polychlorinated biphenyls, polybrominated diphenyl ethers and their metabolites. Anal. Chim. Acta.
2017
Yi L., Piehowski P.D, Shi T., Smith R.D, Qian W.J.  2017.  Advances in microscale separations towards nanoproteomics applications. J Chromatogr A.
Dhondt I., Petyuk V.A, Bauer S., Brewer H.M, Smith R.D, Depuydt G., Braeckman B.P.  2017.  Changes of Protein Turnover in Aging Caenorhabditis elegans. Mol. Cell Proteomics.
Deng L., Garimella S.VB, Hamid A.M, Webb I.K, Attah I.K, Norheim R.V, Prost S.A, Zheng X., Sandoval J.A, Baker E.S et al..  2017.  Compression Ratio Ion Mobility Programming (CRIMP) Accumulation and Compression of Billions of Ions for Ion Mobility-Mass Spectrometry Using Traveling Waves in Structures for Lossless Ion Manipulations (SLIM). Anal. Chem..
Zheng X., Wojcik R., Zhang X., Ibrahim Y.M, Burnum-Johnson K.E, Orton D.J, Monroe M.E, Moore R.J, Smith R.D, Baker E.S.  2017.  Coupling Front-End Separations, Ion Mobility Spectrometry, and Mass Spectrometry For Enhanced Multidimensional Biological and Environmental Analyses. Annu Rev Anal Chem (Palo Alto Calif).
Nie S., Shi T., Fillmore T.L, Schepmoes A.A, Brewer H., Gao Y., Song E., Wang H., Rodland K.D, Qian W.J et al..  2017.  Deep-Dive Targeted Quantification for Ultrasensitive Analysis of Proteins in Nondepleted Human Blood Plasma/Serum and Tissues. Anal. Chem..
Garimella S.VB, Webb I.K, Prabhakaran A., Attah I.K, Ibrahim Y.M, Smith R.D.  2017.  Design of a TW-SLIM Module for Dual Polarity Confinement, Transport, and Reactions. J. Am. Soc. Mass Spectrom..
Zheng X., Deng L., Baker E.S, Ibrahim Y.M, Petyuk V.A, Smith R.D.  2017.  Distinguishing d- and l-aspartic and isoaspartic acids in amyloid β peptides with ultrahigh resolution ion mobility spectrometry. Chem. Commun. (Camb.).
Nielson C.M, Wiedrick J., Shen J., Jacobs J., Baker E.S, Baraff A., Piehowski P., Lee C.G, Baratt A., Petyuk V. et al..  2017.  Identification of Hip BMD Loss and Fracture Risk Markers Through Population-Based Serum Proteomics. J. Bone Miner. Res..
Park J., Piehowski P.D, Wilkins C., Zhou M., Mendoza J., Fujimoto G.M, Gibbons B.C, Shaw J.B, Shen Y., Shukla A.K et al..  2017.  Informed-Proteomics: open-source software package for top-down proteomics. Nat. Methods.
Park J., Piehowski P.D, Wilkins C., Zhou M., Mendoza J., Fujimoto G.M, Gibbons B.C, Shaw J.B, Shen Y., Shukla A.K et al..  2017.  Informed-Proteomics: Open-source Software Package for Top-down Proteomics. Nat. Methods.
Eisfeld A.J, Halfmann P.J, Wendler J.P, Kyle J.E, Burnum-Johnson K.E, Peralta Z., Maemura T., Walters K.B, Watanabe T., Fukuyama S. et al..  2017.  Multi-platform 'Omics Analysis of Human Ebola Virus Disease Pathogenesis. Cell Host Microbe.
Shi T., Quek S.I, Gao Y., Nicora C.D, Nie S., Fillmore T.L, Liu T., Rodland K.D, Smith R.D, Leach R.J et al..  2017.  Multiplexed targeted mass spectrometry assays for prostate cancer-associated urinary proteins. Oncotarget.
Lobanov A.V, Heaphy S.M, Turanov A.A, Gerashchenko M.V, Pucciarelli S., Devaraj R.R, Xie F., Petyuk V.A, Smith R.D, Klobutcher L.A et al..  2017.  Position-dependent termination and widespread obligatory frameshifting in Euplotes translation. Nat. Struct. Mol. Biol..
Zhou J.Y, Chen L., Zhang B., Tian Y., Liu T., Thomas S.N, Chen L., Schnaubelt M., Boja E., Hiltke T. et al..  2017.  Quality Assessments of Long-Term Quantitative Proteomic Analysis of Breast Cancer Xenograft Tissues. J. Proteome Res..
Wang S., Yang F., Petyuk V.A, Shukla A.K, Monroe M.E, Gritsenko M.A, Rodland K.D, Smith R.D, Qian W.J, Gong C.X et al..  2017.  Quantitative proteomics identifies altered O-GlcNAcylation of structural, synaptic and memory-associated proteins in Alzheimer's disease. J. Pathol..

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