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Bibliography (31 total) : Review Only   Up

• 2009


• Iwasaki M, Masuda T, Tomita M, Ishihama Y (2009) Chemical cleavage-assisted tryptic digestion for membrane proteome analysis. J Proteome Res 8:3169-75



• Ramakrishnan SR, Vogel C, Prince JT, Li Z, Penalva LO, Myers M, Marcotte EM, Miranker DP, Wang R (2009) Integrating shotgun proteomics and mRNA expression data to improve protein identification. Bioinformatics 25:1397-403



• Zhou P, Tian F, Lv F, Shang Z (2009) Comprehensive comparison of eight statistical modelling methods used in quantitative structure-retention relationship studies for liquid chromatographic retention times of peptides generated by protease digestion of the Escherichia coli proteome. J Chromatogr A 1216:3107-16



• Tao D, Zhu G, Sun L, Ma J, Liang Z, Zhang W, Zhang L, Zhang Y (2009) Serially coupled microcolumn reversed phase liquid chromatography for shotgun proteomic analysis. Proteomics 9:2029-36



• Kramer G, Sprenger RR, Back J, Dekker HL, Nessen MA, van Maarseveen JH, de Koning LJ, Hellingwerf KJ, de Jong L, de Koster CG (2009) Identification and quantitation of newly synthesized proteins in E. coli by enrichment of azido homoalanine-labeled peptides with diagonal chromatography. Mol Cell Proteomics :



• Ahrends R, Pieper S, Neumann B, Scheler C, Linscheid MW (2009) Metal-Coded Affinity Tag Labeling: A Demonstration of Analytical Robustness and Suitability for Biological Applications. Anal Chem 81:2176-2184



• Eeltink S, Dolman S, Swart R, Ursem M, Schoenmakers PJ (2009) Optimizing the peak capacity per unit time in one-dimensional and off-line two-dimensional liquid chromatography for the separation of complex peptide samples. J Chromatogr A :



• Geromanos SJ, Vissers JP, Silva JC, Dorschel CA, Li GZ, Gorenstein MV, Bateman RH, Langridge JI (2009) The detection, correlation, and comparison of peptide precursor and product ions from data independent LC-MS with data dependant LC-MS/MS. Proteomics 9:1683-95



• Gharib M, Marcantonio M, Lehmann SG, Courcelles M, Meloche S, Verreault A, Thibault P (2009) Artifactual sulfation of silver-stained proteins: implications for the assignment of phosphorylation and sulfation sites. Mol Cell Proteomics 8:506-18



• Liu J, Huang TY, McLuckey SA (2009) Top-down protein identification/characterization of a priori unknown proteins via ion trap collision-induced dissociation and ion/ion reactions in a quadrupole/time-of-flight tandem mass spectrometer. Anal Chem 81:1433-41



• Haegler K, Mueller NS, Maccarrone G, Hunyadi-Gulyas E, Webhofer C, Filiou MD, Zhang Y, Turck CW (2009) QuantiSpec - Quantitative mass spectrometry data analysis of (15)N-metabolically labeled proteins. J Proteomics 71:601-8



• 2008


• Szájli E, Fehér T, Medzihradszky KF (2008) Investigating the quantitative nature of MALDI-TOF MS. Mol Cell Proteomics 7:2410-8



• Becker GW (2008) Stable isotopic labeling of proteins for quantitative proteomic applications. Brief Funct Genomic Proteomic 7:371-82 Review



• Dowell JA, Frost DC, Zhang J, Li L (2008) Comparison of two-dimensional fractionation techniques for shotgun proteomics. Anal Chem 80:6715-23



• Ramos Y, Gutierrez E, Machado Y, Sánchez A, Castellanos-Serra L, González LJ, Fernández-de-Cossio J, Pérez-Riverol Y, Betancourt L, Gil J, Padrón G, Besada V (2008) Proteomics based on peptide fractionation by SDS-free PAGE. J Proteome Res 7:2427-34



• Everley RA, Croley TR (2008) Ultra-performance liquid chromatography/mass spectrometry of intact proteins. J Chromatogr A 1192:239-47



• Bunger MK, Cargile BJ, Ngunjiri A, Bundy JL, Stephenson JL (2008) Automated proteomics of E. coli via top-down electron-transfer dissociation mass spectrometry. Anal Chem 80:1459-67



• Hauser NJ, Basile F (2008) Online microwave D-cleavage LC-ESI-MS/MS of intact proteins: site-specific cleavages at aspartic acid residues and disulfide bonds. J Proteome Res 7:1012-26



• Finney GL, Blackler AR, Hoopmann MR, Canterbury JD, Wu CC, MacCoss MJ (2008) Label-free comparative analysis of proteomics mixtures using chromatographic alignment of high-resolution muLC-MS data. Anal Chem 80:961-71



• Eboigbodin KE, Biggs CA (2008) Characterization of the extracellular polymeric substances produced by Escherichia coli using infrared spectroscopic, proteomic, and aggregation studies. Biomacromolecules 9:686-95



• Masuda T, Tomita M, Ishihama Y (2008) Phase transfer surfactant-aided trypsin digestion for membrane proteome analysis. J Proteome Res 7:731-40



• Ishihama Y, Schmidt T, Rappsilber J, Mann M, Hartl FU, Kerner MJ, Frishman D (2008) Protein abundance profiling of the Escherichia coli cytosol. BMC Genomics 9:102



• 2007


• Fälth M, Savitski MM, Nielsen ML, Kjeldsen F, Andren PE, Zubarev RA (2007) SwedCAD, a database of annotated high-mass accuracy MS/MS spectra of tryptic peptides. J Proteome Res 6:4063-7



• Lu CY, Wu CY, Lin CH (2007) Protein identification by syringe pump-driven reversed-phase LC-MS/MS. Anal Biochem 368:123-9



• Yang Y, Zhang S, Howe K, Wilson DB, Moser F, Irwin D, Thannhauser TW (2007) A comparison of nLC-ESI-MS/MS and nLC-MALDI-MS/MS for GeLC-based protein identification and iTRAQ-based shotgun quantitative proteomics. J Biomol Tech 18:226-37



• Matthiesen R (2007) Methods, algorithms and tools in computational proteomics: a practical point of view. Proteomics 7:2815-32 Review



• Tripet B, Renuka Jayadev M, Blow D, Nguyen C, Hodges R, Cios K (2007) Proteomic data mining using predicted peptide chromatographic retention times. Int J Bioinform Res Appl 3:431-45



• Yamaguchi M, Obama T, Kuyama H, Nakayama D, Ando E, Okamura TA, Ueyama N, Nakazawa T, Norioka S, Nishimura O, Tsunasawa S (2007) Specific isolation of N-terminal fragments from proteins and their high-fidelity de novo sequencing. Rapid Commun Mass Spectrom 21:3329-36



• 2004


• Noble WS (2004) Data hoarding is harming proteomics. Nat Biotechnol 22:1209; discussion 1209 Comment



• Prince JT, Carlson MW, Wang R, Lu P, Marcotte EM (2004) The need for a public proteomics repository. Nat Biotechnol 22:471-2



• 2002


• Reid GE, Shang H, Hogan JM, Lee GU, McLuckey SA (2002) Gas-phase concentration, purification, and identification of whole proteins from complex mixtures. J Am Chem Soc 124:7353-62