Publications

Found 68 results
Filters: Keyword is Mass Spectrometry  [Clear All Filters]
2006
King NL, Deutsch EW, Ranish J, Nesvizhskii AI, Eddes JS, Mallick P, Eng J, Desiere F, Flory M, Martin DB et al..  2006.  Analysis of the Saccharomyces cerevisiae proteome with PeptideAtlas. Genome Biol. 7:R106.
Maccarana M, Olander B, Malmstrom J, Tiedemann K, Aebersold R, Lindahl U, Li JP, Malmstrom A.  2006.  Biosynthesis of dermatan sulfate: chondroitin-glucuronate C5-epimerase is identical to SART2. J Biol Chem. 281:11560-8.
Nesvizhskii AI, Roos FF, Grossmann J, Vogelzang M, Eddes JS, Gruissem W, Baginsky S, Aebersold R.  2006.  Dynamic spectrum quality assessment and iterative computational analysis of shotgun proteomic data: toward more efficient identification of post-translational modifications, sequence polymorphisms, and novel peptides. Mol Cell Proteomics. 5:652-70.
Rundle NT, Nelson J, Flory MR, Joseph J, Th'ng J, Aebersold R, Dasso M, Andersen RJ, Roberge M.  2006.  An ent-kaurene that inhibits mitotic chromosome movement and binds the kinetochore protein ran-binding protein 2. ACS Chem Biol. 1:443-50.
Schmidt A, Aebersold R.  2006.  High-accuracy proteome maps of human body fluids. Genome Biol. 7:242.
Malmstrom J, Lee H, Nesvizhskii AI, Shteynberg D, Mohanty S, Brunner E, Ye M, Weber G, Eckerskorn C, Aebersold R.  2006.  Optimized peptide separation and identification for mass spectrometry based proteomics via free-flow electrophoresis. J Proteome Res. 5:2241-9.
Desiere F, Deutsch EW, King NL, Nesvizhskii AI, Mallick P, Eng J, Chen S, Eddes J, Loevenich SN, Aebersold R.  2006.  The PeptideAtlas project. Nucleic Acids Res. 34:D655-8.
Gan RR, Yi EC, Chiu Y, Lee H, Kao YC, Wu TH, Aebersold R, Goodlett DR, Ng WV.  2006.  Proteome analysis of Halobacterium sp. NRC-1 facilitated by the biomodule analysis tool BMSorter. Mol Cell Proteomics. 5:987-97.
Hardwidge PR, Donohoe S, Aebersold R, Finlay BB.  2006.  Proteomic analysis of the binding partners to enteropathogenic Escherichia coli virulence proteins expressed in Saccharomyces cerevisiae. Proteomics. 6:2174-9.
Tian Q.  2006.  Proteomic exploration of the Wnt/beta-catenin pathway. Curr Opin Mol Ther. 8:191-7.
Chen R, Pan S, Yi EC, Donohoe S, Bronner MP, Potter JD, Goodlett DR, Aebersold R, Brentnall TA.  2006.  Quantitative proteomic profiling of pancreatic cancer juice. Proteomics. 6:3871-9.
Bradshaw RA, Burlingame AL, Carr S, Aebersold R.  2006.  Reporting protein identification data: the next generation of guidelines. Mol Cell Proteomics. 5:787-8.
Zhang H, Loriaux P, Eng J, Campbell D, Keller A, Moss P, Bonneau R, Zhang N, Zhou Y, Wollscheid B et al..  2006.  UniPep--a database for human N-linked glycosites: a resource for biomarker discovery. Genome Biol. 7:R73.
2005
Zhang H, Yi EC, Li XJ, Mallick P, Kelly-Spratt KS, Masselon CD, Camp, D. G. 2nd, Smith RD, Kemp CJ, Aebersold R.  2005.  High throughput quantitative analysis of serum proteins using glycopeptide capture and liquid chromatography mass spectrometry. Mol Cell Proteomics. 4:144-55.
Deutsch EW, Eng JK, Zhang H, King NL, Nesvizhskii AI, Lin B, Lee H, Yi EC, Ossola R, Aebersold R.  2005.  Human Plasma PeptideAtlas. Proteomics. 5:3497-500.
Toigo M, Donohoe S, Sperrazzo G, Jarrold B, Wang F, Hinkle R, Dolan E, Isfort RJ, Aebersold R.  2005.  ICAT-MS-MS time course analysis of atrophying mouse skeletal muscle cytosolic subproteome. Mol Biosyst. 1:229-41.
Yi EC, Li XJ, Cooke K, Lee H, Raught B, Page A, Aneliunas V, Hieter P, Goodlett DR, Aebersold R.  2005.  Increased quantitative proteome coverage with (13)C/(12)C-based, acid-cleavable isotope-coded affinity tag reagent and modified data acquisition scheme. Proteomics. 5:380-7.
Nesvizhskii AI, Aebersold R.  2005.  Interpretation of shotgun proteomic data: the protein inference problem. Mol Cell Proteomics. 4:1419-40.
Martin DB, Eng JK, Nesvizhskii AI, Gemmill A, Aebersold R.  2005.  Investigation of neutral loss during collision-induced dissociation of peptide ions. Anal Chem. 77:4870-82.
Chen R, Yi EC, Donohoe S, Pan S, Eng J, Cooke K, Crispin DA, Lane Z, Goodlett DR, Bronner MP et al..  2005.  Pancreatic cancer proteome: the proteins that underlie invasion, metastasis, and immunologic escape. Gastroenterology. 129:1187-97.
Bradshaw RA, Burlingame AL, Carr S, Aebersold R.  2005.  Protein identification: the good, the bad, and the ugly. Mol Cell Proteomics. 4:1221-2.
2001
Panigrahi AK, Gygi SP, Ernst NL, Igo, R. P. J., Palazzo SS, Schnaufer A, Weston DS, Carmean N, Salavati R, Aebersold R et al..  2001.  Association of two novel proteins, TbMP52 and TbMP48, with the Trypanosoma brucei RNA editing complex. Mol Cell Biol. 21:380-9.
Han MH, Han DK, Aebersold R, Glomset JA.  2001.  Effects of protein kinase CK2, extracellular signal-regulated kinase 2, and protein phosphatase 2A on a phosphatidic acid-preferring phospholipase A1. J Biol Chem. 276:27698-708.
Panigrahi AK, Schnaufer A, Carmean N, Igo, R. P. J., Gygi SP, Ernst NL, Palazzo SS, Weston DS, Aebersold R, Salavati R et al..  2001.  Four related proteins of the Trypanosoma brucei RNA editing complex. Mol Cell Biol. 21:6833-40.
Gingras AC, Raught B, Gygi SP, Niedzwiecka A, Miron M, Burley SK, Polakiewicz RD, Wyslouch-Cieszynska A, Aebersold R, Sonenberg N.  2001.  Hierarchical phosphorylation of the translation inhibitor 4E-BP1. Genes Dev. 15:2852-64.
Han DK, Eng J, Zhou H, Aebersold R.  2001.  Quantitative profiling of differentiation-induced microsomal proteins using isotope-coded affinity tags and mass spectrometry. Nat Biotechnol. 19:946-51.
Griffin TJ, Han DK, Gygi SP, Rist B, Lee H, Aebersold R, Parker KC.  2001.  Toward a high-throughput approach to quantitative proteomic analysis: expression-dependent protein identification by mass spectrometry. J Am Soc Mass Spectrom. 12:1238-46.
Liu Y, Ranish J, Aebersold R, Hahn S.  2001.  Yeast nuclear extract contains two major forms of RNA polymerase II mediator complexes. J Biol Chem. 276:7169-75.
2000
Mikheev AM, Mikheev SA, Zhang Y, Aebersold R, Zarbl H.  2000.  CArG binding factor A (CBF-A) is involved in transcriptional regulation of the rat Ha-ras promoter. Nucleic Acids Res. 28:3762-70.
Nelson PS, Han D, Rochon Y, Corthals GL, Lin B, Monson A, Nguyen V, Franza BR, Plymate SR, Aebersold R et al..  2000.  Comprehensive analyses of prostate gene expression: convergence of expressed sequence tag databases, transcript profiling and proteomics. Electrophoresis. 21:1823-31.
Gygi SP, Corthals GL, Zhang Y, Rochon Y, Aebersold R.  2000.  Evaluation of two-dimensional gel electrophoresis-based proteome analysis technology. Proc Natl Acad Sci U S A. 97:9390-5.
Timperman AT, Aebersold R.  2000.  Peptide electroextraction for direct coupling of in-gel digests with capillary LC-MS/MS for protein identification and sequencing. Anal Chem. 72:4115-21.
Ebrini I, Agnello D, Miller I, Villa P, Fratelli M, Ghezzi P, Gemeiner M, Chan J, Aebersold R, Gianazza E.  2000.  Proteins of rat serum V: adjuvant arthritis and its modulation by nonsteroidal anti-inflammatory drugs. Electrophoresis. 21:2170-9.
Raught B, Gingras AC, Gygi SP, Imataka H, Morino S, Gradi A, Aebersold R, Sonenberg N.  2000.  Serum-stimulated, rapamycin-sensitive phosphorylation sites in the eukaryotic translation initiation factor 4GI. EMBO J. 19:434-44.
Haynes PA, Aebersold R.  2000.  Simultaneous detection and identification of O-GlcNAc-modified glycoproteins using liquid chromatography-tandem mass spectrometry. Anal Chem. 72:5402-10.
Gygi SP, Aebersold R.  2000.  Using mass spectrometry for quantitative proteomics. Trends in Biotechnology. 18 (Supp. 1):31-36.