메뉴 건너뛰기




Volumn 10, Issue 2, 2010, Pages 337-342

A ubiquitin and ubiquitin-like protein spectral library

Author keywords

MS; Spectral matching; SpectraST; Technology Ubiquitin; Ubiquitin like protein

Indexed keywords

AUTOPHAGY RELATED PROTEIN 8; F ADJACENT TRANSCRIPT 10; INTERFERON STIMULATED GENE 15; MEMBRANE PROTEIN; NEDD8 PROTEIN; PEPTIDE LIBRARY; SUMO PROTEIN; UBIQUITIN; UBIQUITIN LIKE PROTEIN; UNCLASSIFIED DRUG;

EID: 76749169902     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.200900627     Document Type: Article
Times cited : (16)

References (25)
  • 1
    • 35848970747 scopus 로고    scopus 로고
    • Mapping protein post-translational modifications with mass spectrometry
    • Witze, E. S., Old, W. M., Resing, K. A., Ahn, N. G., Mapping protein post-translational modifications with mass spectrometry. Nat. Methods 2007, 4, 798-806.
    • (2007) Nat. Methods , vol.4 , pp. 798-806
    • Witze, E.S.1    Old, W.M.2    Resing, K.A.3    Ahn, N.G.4
  • 2
    • 0000857494 scopus 로고
    • An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
    • Eng, J. K., McCormack, A. L., Yates, J. R., III, An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database. J. Am. Soc. Mass Spectrom. 1994, 5, 976-989.
    • (1994) J. Am. Soc. Mass Spectrom , vol.5 , pp. 976-989
    • Eng, J.K.1    McCormack, A.L.2    Yates III, J.R.3
  • 3
    • 0033434080 scopus 로고    scopus 로고
    • Probability-based protein identification by searching sequence databases using mass spectrometry data
    • Perkins, D. N., Pappin, D. J., Creasy, D. M., Cottrell, J. S., Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis 1999, 20, 3551-3567.
    • (1999) Electrophoresis , vol.20 , pp. 3551-3567
    • Perkins, D.N.1    Pappin, D.J.2    Creasy, D.M.3    Cottrell, J.S.4
  • 4
    • 3142702204 scopus 로고    scopus 로고
    • matching proteins with tandem mass spectra
    • TANDEM
    • Craig, R., Beavis, R. C., TANDEM: matching proteins with tandem mass spectra. Bioinformatics 2004, 20, 1466-1467.
    • (2004) Bioinformatics , vol.20 , pp. 1466-1467
    • Craig, R.1    Beavis, R.C.2
  • 5
    • 3042538418 scopus 로고    scopus 로고
    • The ubiquitin system: From basic mechanisms to the patient bed
    • Ciechanover, A., Iwai, K., The ubiquitin system: from basic mechanisms to the patient bed. IUBMB Life 2004, 56, 193-201.
    • (2004) IUBMB Life , vol.56 , pp. 193-201
    • Ciechanover, A.1    Iwai, K.2
  • 6
    • 0041706156 scopus 로고    scopus 로고
    • A proteomics approach to understanding protein ubiquitination
    • Peng, J., Schwartz, D., Elias, J. E., Thoreen, C. C. et al., A proteomics approach to understanding protein ubiquitination. Nat. Biotechnol. 2003, 21, 921-926.
    • (2003) Nat. Biotechnol , vol.21 , pp. 921-926
    • Peng, J.1    Schwartz, D.2    Elias, J.E.3    Thoreen, C.C.4
  • 7
    • 61349200777 scopus 로고    scopus 로고
    • Using mass spectrometry to identify ubiquitin and ubiquitin-like protein conjugation sites
    • Jeram, S. M., Srikumar, T., Pedrioli, P. G., Raught, B., Using mass spectrometry to identify ubiquitin and ubiquitin-like protein conjugation sites. Proteomics 2009, 9, 922-934.
    • (2009) Proteomics , vol.9 , pp. 922-934
    • Jeram, S.M.1    Srikumar, T.2    Pedrioli, P.G.3    Raught, B.4
  • 8
    • 33745360876 scopus 로고    scopus 로고
    • Automated identification of SUMOylation sites using mass spectrometry and SUMmOn pattern recognition software
    • Pedrioli, P. G., Raught, B., Zhang, X. D., Rogers, R. et al., Automated identification of SUMOylation sites using mass spectrometry and SUMmOn pattern recognition software. Nat. Methods 2006, 3, 533-539.
    • (2006) Nat. Methods , vol.3 , pp. 533-539
    • Pedrioli, P.G.1    Raught, B.2    Zhang, X.D.3    Rogers, R.4
  • 9
    • 43349083804 scopus 로고    scopus 로고
    • Frewen, B., MacCoss, M. J., Using BiblioSpec for creating and searching tandem MS peptide libraries. Curr. Protoc. Bioinformatics 2007, Chapter 13, Unit 13-17.
    • Frewen, B., MacCoss, M. J., Using BiblioSpec for creating and searching tandem MS peptide libraries. Curr. Protoc. Bioinformatics 2007, Chapter 13, Unit 13-17.
  • 10
    • 33747170146 scopus 로고    scopus 로고
    • Using annotated peptide mass spectrum libraries for protein identification
    • Craig, R., Cortens, J. C., Fenyo, D., Beavis, R. C., Using annotated peptide mass spectrum libraries for protein identification. J. Proteome Res. 2006, 5, 1843-1849.
    • (2006) J. Proteome Res , vol.5 , pp. 1843-1849
    • Craig, R.1    Cortens, J.C.2    Fenyo, D.3    Beavis, R.C.4
  • 11
    • 33947366516 scopus 로고    scopus 로고
    • Development and validation of a spectral library searching method for peptide identification from MS/MS
    • Lam, H., Deutsch, E. W., Eddes, J. S., Eng, J. K. et al., Development and validation of a spectral library searching method for peptide identification from MS/MS. Proteomics 2007, 7, 655-667.
    • (2007) Proteomics , vol.7 , pp. 655-667
    • Lam, H.1    Deutsch, E.W.2    Eddes, J.S.3    Eng, J.K.4
  • 12
    • 53249098366 scopus 로고    scopus 로고
    • Building consensus spectral libraries for peptide identification in proteomics
    • Lam, H., Deutsch, E. W., Eddes, J. S., Eng, J. K. et al., Building consensus spectral libraries for peptide identification in proteomics. Nat. Methods 2008, 5, 873-875.
    • (2008) Nat. Methods , vol.5 , pp. 873-875
    • Lam, H.1    Deutsch, E.W.2    Eddes, J.S.3    Eng, J.K.4
  • 13
    • 33747626954 scopus 로고    scopus 로고
    • Analysis of peptide MS/MS spectra from large-scale proteomics experiments using spectrum libraries
    • Frewen, B. E., Merrihew, G. E., Wu, C. C., Noble, W. S., MacCoss, M. J., Analysis of peptide MS/MS spectra from large-scale proteomics experiments using spectrum libraries. Anal. Chem. 2006, 78, 5678-5684.
    • (2006) Anal. Chem , vol.78 , pp. 5678-5684
    • Frewen, B.E.1    Merrihew, G.E.2    Wu, C.C.3    Noble, W.S.4    MacCoss, M.J.5
  • 15
    • 33847699732 scopus 로고    scopus 로고
    • Analysis of the Saccharomyces cerevisiae proteome with PeptideAtlas
    • King, N. L., Deutsch, E. W., Ranish, J. A., Nesvizhskii, A. I. et al., Analysis of the Saccharomyces cerevisiae proteome with PeptideAtlas. Genome Biol. 2006, 7, R106.
    • (2006) Genome Biol , vol.7
    • King, N.L.1    Deutsch, E.W.2    Ranish, J.A.3    Nesvizhskii, A.I.4
  • 16
    • 0035929557 scopus 로고    scopus 로고
    • Polymeric chains of SUMO-2 and SUMO-3 are conjugated to protein substrates by SAE1/SAE2 and Ubc9
    • Tatham, M. H., Jaffray, E., Vaughan, O. A., Desterro, J. M. et al., Polymeric chains of SUMO-2 and SUMO-3 are conjugated to protein substrates by SAE1/SAE2 and Ubc9. J. Biol. Chem. 2001, 276, 35368-35374.
    • (2001) J. Biol. Chem , vol.276 , pp. 35368-35374
    • Tatham, M.H.1    Jaffray, E.2    Vaughan, O.A.3    Desterro, J.M.4
  • 17
    • 44449129585 scopus 로고    scopus 로고
    • A targeted proteomic analysis of the ubiquitin-like modifier nedd8 and associated proteins
    • Jones, J., Wu, K., Yang, Y., Guerrero, C. et al., A targeted proteomic analysis of the ubiquitin-like modifier nedd8 and associated proteins. J. Proteome Res. 2008, 7, 1274-1287.
    • (2008) J. Proteome Res , vol.7 , pp. 1274-1287
    • Jones, J.1    Wu, K.2    Yang, Y.3    Guerrero, C.4
  • 18
    • 44449108277 scopus 로고    scopus 로고
    • Iodoacetamide-induced artifact mimics ubiquitination in mass spectrometry
    • Nielsen, M. L., Vermeulen, M., Bonaldi, T., Cox, J. et al., Iodoacetamide-induced artifact mimics ubiquitination in mass spectrometry. Nat. Methods 2008, 5, 459-460.
    • (2008) Nat. Methods , vol.5 , pp. 459-460
    • Nielsen, M.L.1    Vermeulen, M.2    Bonaldi, T.3    Cox, J.4
  • 19
    • 33750979860 scopus 로고    scopus 로고
    • General framework for developing and evaluating database scoring algorithms using the TANDEM search engine
    • MacLean, B., Eng, J. K., Beavis, R. C., McIntosh, M., General framework for developing and evaluating database scoring algorithms using the TANDEM search engine. Bioinformatics 2006, 22, 2830-2832.
    • (2006) Bioinformatics , vol.22 , pp. 2830-2832
    • MacLean, B.1    Eng, J.K.2    Beavis, R.C.3    McIntosh, M.4
  • 20
    • 0037108887 scopus 로고    scopus 로고
    • Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search
    • Keller, A., Nesvizhskii, A. I., Kolker, E., Aebersold, R., Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search. Anal. Chem. 2002, 74, 5383-5392.
    • (2002) Anal. Chem , vol.74 , pp. 5383-5392
    • Keller, A.1    Nesvizhskii, A.I.2    Kolker, E.3    Aebersold, R.4
  • 21
    • 57149120085 scopus 로고    scopus 로고
    • Molecular basis of Pirh2-mediated p53 ubiquitylation
    • Sheng, Y., Laister, R. C., Lemak, A., Wu, B. et al., Molecular basis of Pirh2-mediated p53 ubiquitylation. Nat. Struct. Mol. Biol. 2008, 15, 1334-1342.
    • (2008) Nat. Struct. Mol. Biol , vol.15 , pp. 1334-1342
    • Sheng, Y.1    Laister, R.C.2    Lemak, A.3    Wu, B.4
  • 22
    • 0041529514 scopus 로고    scopus 로고
    • SUMO modification of STAT1 and its role in PIAS-mediated inhibition of gene activation
    • Rogers, R. S., Horvath, C. M., Matunis, M. J., SUMO modification of STAT1 and its role in PIAS-mediated inhibition of gene activation. J. Biol. Chem. 2003, 278, 30091-30097.
    • (2003) J. Biol. Chem , vol.278 , pp. 30091-30097
    • Rogers, R.S.1    Horvath, C.M.2    Matunis, M.J.3
  • 23
    • 53849109540 scopus 로고    scopus 로고
    • Novel substrates and functions for the ubiquitin-like molecule NEDD8
    • Xirodimas, D. P., Novel substrates and functions for the ubiquitin-like molecule NEDD8. Biochem. Soc. Trans. 2008, 36, 802-806.
    • (2008) Biochem. Soc. Trans , vol.36 , pp. 802-806
    • Xirodimas, D.P.1
  • 24
    • 33746930864 scopus 로고    scopus 로고
    • A uniform proteomics MS/MS analysis platform utilizing open XML file formats
    • Keller, A., Eng, J., Zhang, N., Li, X. J., Aebersold, R., A uniform proteomics MS/MS analysis platform utilizing open XML file formats. Mol. Syst. Biol. 2005, 1, 0017.
    • (2005) Mol. Syst. Biol , vol.1 , pp. 0017
    • Keller, A.1    Eng, J.2    Zhang, N.3    Li, X.J.4    Aebersold, R.5
  • 25
    • 70349974833 scopus 로고    scopus 로고
    • application to a membrane-enriched fraction from C2C12 mouse skeletal muscle cells
    • Peptide separations by on-line MudPIT compared to isoelectric focusing in an off-gel format
    • Elschenbroich, S., Ignatchenko, V., Sharma, P., Schmitt-Ulms, G. et al., Peptide separations by on-line MudPIT compared to isoelectric focusing in an off-gel format: application to a membrane-enriched fraction from C2C12 mouse skeletal muscle cells. J. Proteome Res. 2009, 8, 4860-4869.
    • (2009) J. Proteome Res , vol.8 , pp. 4860-4869
    • Elschenbroich, S.1    Ignatchenko, V.2    Sharma, P.3    Schmitt-Ulms, G.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.