-
1
-
-
0035106351
-
Large-scale analysis of the yeast proteome by multidimensional protein identification technology
-
Washburn M.P., Wolters D., Yates J.R. Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Nat Biotechnol 2001, 19:242-247.
-
(2001)
Nat Biotechnol
, vol.19
, pp. 242-247
-
-
Washburn, M.P.1
Wolters, D.2
Yates, J.R.3
-
2
-
-
38549117407
-
PRIDE: new developments and new datasets
-
Jones P., Cote R.G., Cho S.Y., Klie S., Martens L., Quinn A.F., et al. PRIDE: new developments and new datasets. Nucleic Acids Res 2008, 36:D878-D883.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Jones, P.1
Cote, R.G.2
Cho, S.Y.3
Klie, S.4
Martens, L.5
Quinn, A.F.6
-
3
-
-
0000857494
-
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
-
Eng J.K., McCormack A., Yates J.R. 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.2
Yates, J.R.3
-
4
-
-
0033434080
-
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
-
5
-
-
0032159387
-
Method to compare collision-induced dissociation spectra of peptides: potential for library searching and subtractive analysis
-
Yates J.R., Morgan S.F., Gatlin C.L., Griffin P.R., Eng J.K. Method to compare collision-induced dissociation spectra of peptides: potential for library searching and subtractive analysis. Anal Chem 1998, 70:3557-3565.
-
(1998)
Anal Chem
, vol.70
, pp. 3557-3565
-
-
Yates, J.R.1
Morgan, S.F.2
Gatlin, C.L.3
Griffin, P.R.4
Eng, J.K.5
-
6
-
-
0042338362
-
A statistical model for identifying proteins by tandem mass spectrometry
-
Nesvizhskii A.I., Keller A., Kolker E., Aebersold R. A statistical model for identifying proteins by tandem mass spectrometry. Anal Chem 2003, 75:4646-4658.
-
(2003)
Anal Chem
, vol.75
, pp. 4646-4658
-
-
Nesvizhskii, A.I.1
Keller, A.2
Kolker, E.3
Aebersold, R.4
-
7
-
-
2942568222
-
Unimod: protein modifications for mass spectrometry
-
Creasy D.M., Cottrell J.S. Unimod: protein modifications for mass spectrometry. Proteomics 2004, 4:1534-1536.
-
(2004)
Proteomics
, vol.4
, pp. 1534-1536
-
-
Creasy, D.M.1
Cottrell, J.S.2
-
8
-
-
70349157281
-
Dual-pressure linear ion trap mass spectrometer improving the analysis of complex protein mixtures
-
Second T.P., Blethrow J.D., Schwartz J.C., Merrihew G.E., MacCoss M.J., Swaney D.L., et al. Dual-pressure linear ion trap mass spectrometer improving the analysis of complex protein mixtures. Anal Chem 2009, 81:7757-7765.
-
(2009)
Anal Chem
, vol.81
, pp. 7757-7765
-
-
Second, T.P.1
Blethrow, J.D.2
Schwartz, J.C.3
Merrihew, G.E.4
MacCoss, M.J.5
Swaney, D.L.6
-
9
-
-
67049134015
-
Low cost, scalable proteomics data analysis using Amazon's cloud computing services and open source search algorithms
-
Halligan B.D., Geiger J.F., Vallejos A.K., Greene A.S., Twigger S.N. Low cost, scalable proteomics data analysis using Amazon's cloud computing services and open source search algorithms. J Proteome Res 2009, 8:3148-3153.
-
(2009)
J Proteome Res
, vol.8
, pp. 3148-3153
-
-
Halligan, B.D.1
Geiger, J.F.2
Vallejos, A.K.3
Greene, A.S.4
Twigger, S.N.5
-
10
-
-
63349110971
-
Identification of N-terminally arginylated proteins and peptides by mass spectrometry
-
Xu T., Wong C.C., Kashina A., Yates J.R. Identification of N-terminally arginylated proteins and peptides by mass spectrometry. Nat Protoc 2009, 4:325-332.
-
(2009)
Nat Protoc
, vol.4
, pp. 325-332
-
-
Xu, T.1
Wong, C.C.2
Kashina, A.3
Yates, J.R.4
-
11
-
-
53249098366
-
Building consensus spectral libraries for peptide identification in proteomics
-
Lam H., Deutsch E.W., Eddes J.S., Eng J.K., Stein S.E., Aebersold R. 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
Stein, S.E.5
Aebersold, R.6
-
12
-
-
33847630405
-
Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry
-
Elias J.E., Gygi S.P. Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry. Nat Methods 2007, 4:207-214.
-
(2007)
Nat Methods
, vol.4
, pp. 207-214
-
-
Elias, J.E.1
Gygi, S.P.2
-
13
-
-
20144381803
-
Integration with the human genome of peptide sequences obtained by high-throughput mass spectrometry
-
Desiere F., Deutsch E.W., Nesvizhskii A.I., Mallick P., King N.L., Eng J.K., et al. Integration with the human genome of peptide sequences obtained by high-throughput mass spectrometry. Genome Biol 2005, 6:R9.
-
(2005)
Genome Biol
, vol.6
-
-
Desiere, F.1
Deutsch, E.W.2
Nesvizhskii, A.I.3
Mallick, P.4
King, N.L.5
Eng, J.K.6
-
14
-
-
36749082830
-
Mammalian proteasome subpopulations with distinct molecular compositions and proteolytic activities
-
Drews O., Wildgruber R., Zong C., Sukop U., Nissum M., Weber G., et al. Mammalian proteasome subpopulations with distinct molecular compositions and proteolytic activities. Mol Cell Proteomics 2007, 6:2021-2031.
-
(2007)
Mol Cell Proteomics
, vol.6
, pp. 2021-2031
-
-
Drews, O.1
Wildgruber, R.2
Zong, C.3
Sukop, U.4
Nissum, M.5
Weber, G.6
-
15
-
-
61649083080
-
Contrasting proteome biology and functional heterogeneity of the 20S proteasome complexes in mammalian tissues
-
Gomes A.V., Young G.W., Wang Y., Zong C., Eghbali M., Drews O., et al. Contrasting proteome biology and functional heterogeneity of the 20S proteasome complexes in mammalian tissues. Mol Cell Proteomics 2009, 8:302-315.
-
(2009)
Mol Cell Proteomics
, vol.8
, pp. 302-315
-
-
Gomes, A.V.1
Young, G.W.2
Wang, Y.3
Zong, C.4
Eghbali, M.5
Drews, O.6
-
16
-
-
33747416363
-
Regulation of murine cardiac 20S proteasomes: role of associating partners
-
Zong C., Gomes A.V., Drews O., Li X., Young G.W., Berhane B., et al. Regulation of murine cardiac 20S proteasomes: role of associating partners. Circ Res 2006, 99:372-380.
-
(2006)
Circ Res
, vol.99
, pp. 372-380
-
-
Zong, C.1
Gomes, A.V.2
Drews, O.3
Li, X.4
Young, G.W.5
Berhane, B.6
-
17
-
-
33947380146
-
Mass spectrometric characterization of the affinity-purified human 26S proteasome complex
-
Wang X., Chen C.F., Baker P.R., Chen P.L., Kaiser P., Huang L. Mass spectrometric characterization of the affinity-purified human 26S proteasome complex. Biochemistry 2007, 46:3553-3565.
-
(2007)
Biochemistry
, vol.46
, pp. 3553-3565
-
-
Wang, X.1
Chen, C.F.2
Baker, P.R.3
Chen, P.L.4
Kaiser, P.5
Huang, L.6
-
18
-
-
33747429762
-
Mapping the murine cardiac 26S proteasome complexes
-
Gomes A.V., Zong C., Edmondson R.D., Li X., Stefani E., Zhang J., et al. Mapping the murine cardiac 26S proteasome complexes. Circ Res 2006, 99:362-371.
-
(2006)
Circ Res
, vol.99
, pp. 362-371
-
-
Gomes, A.V.1
Zong, C.2
Edmondson, R.D.3
Li, X.4
Stefani, E.5
Zhang, J.6
-
19
-
-
3042818018
-
The International Protein Index: an integrated database for proteomics experiments
-
Kersey P.J., Duarte J., Williams A., Karavidopoulou Y., Birney E., Apweiler R. The International Protein Index: an integrated database for proteomics experiments. Proteomics 2004, 4:1985-1988.
-
(2004)
Proteomics
, vol.4
, pp. 1985-1988
-
-
Kersey, P.J.1
Duarte, J.2
Williams, A.3
Karavidopoulou, Y.4
Birney, E.5
Apweiler, R.6
-
20
-
-
79955758519
-
Proteome dynamics and proteome function of cardiac 19S proteasomes
-
[M110 006122]
-
Wang D., Zong C., Koag M.C., Wang Y., Drews O., Fang C., et al. Proteome dynamics and proteome function of cardiac 19S proteasomes. Mol Cell Proteomics 2011, 10. [M110 006122].
-
(2011)
Mol Cell Proteomics
, vol.10
-
-
Wang, D.1
Zong, C.2
Koag, M.C.3
Wang, Y.4
Drews, O.5
Fang, C.6
-
21
-
-
33947366516
-
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., King N., Stein S.E., 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
King, N.5
Stein, S.E.6
-
22
-
-
48949104656
-
MzML: a single, unifying data format for mass spectrometer output
-
Deutsch E. mzML: a single, unifying data format for mass spectrometer output. Proteomics 2008, 8:2776-2777.
-
(2008)
Proteomics
, vol.8
, pp. 2776-2777
-
-
Deutsch, E.1
-
23
-
-
54949129419
-
ProteoWizard: open source software for rapid proteomics tools development
-
Kessner D., Chambers M., Burke R., Agus D., Mallick P. ProteoWizard: open source software for rapid proteomics tools development. Bioinformatics 2008, 24:2534-2536.
-
(2008)
Bioinformatics
, vol.24
, pp. 2534-2536
-
-
Kessner, D.1
Chambers, M.2
Burke, R.3
Agus, D.4
Mallick, P.5
-
24
-
-
77951965920
-
Skyline: an open source document editor for creating and analyzing targeted proteomics experiments
-
MacLean B., Tomazela D.M., Shulman N., Chambers M., Finney G.L., Frewen B., et al. Skyline: an open source document editor for creating and analyzing targeted proteomics experiments. Bioinformatics 2010, 26:966-968.
-
(2010)
Bioinformatics
, vol.26
, pp. 966-968
-
-
MacLean, B.1
Tomazela, D.M.2
Shulman, N.3
Chambers, M.4
Finney, G.L.5
Frewen, B.6
-
25
-
-
58149383900
-
High quality catalog of proteotypic peptides from human heart
-
Kline K.G., Frewen B., Bristow M.R., Maccoss M.J., Wu C.C. High quality catalog of proteotypic peptides from human heart. J Proteome Res 2008, 7:5055-5061.
-
(2008)
J Proteome Res
, vol.7
, pp. 5055-5061
-
-
Kline, K.G.1
Frewen, B.2
Bristow, M.R.3
Maccoss, M.J.4
Wu, C.C.5
-
26
-
-
33747626954
-
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
-
27
-
-
33747170146
-
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
-
28
-
-
33745576884
-
Recent developments in ion-trap mass spectrometry and related technologies
-
Brancia F.L. Recent developments in ion-trap mass spectrometry and related technologies. Expert Rev Proteomics 2006, 3:143-151.
-
(2006)
Expert Rev Proteomics
, vol.3
, pp. 143-151
-
-
Brancia, F.L.1
-
29
-
-
57249091714
-
Orbitrap mass spectrometry: instrumentation, ion motion and applications
-
Perry R.H., Cooks R.G., Noll R.J. Orbitrap mass spectrometry: instrumentation, ion motion and applications. Mass Spectrom Rev 2008, 27:661-699.
-
(2008)
Mass Spectrom Rev
, vol.27
, pp. 661-699
-
-
Perry, R.H.1
Cooks, R.G.2
Noll, R.J.3
-
30
-
-
84865235673
-
Mass spectrometry for translational proteomics: progress and clinical implications
-
Baker E.S., Liu T., Petyuk V.A., Burnum-Johnson K.E., Ibrahim Y.M., Anderson G.A., et al. Mass spectrometry for translational proteomics: progress and clinical implications. Genome Med 2012, 4:63.
-
(2012)
Genome Med
, vol.4
, pp. 63
-
-
Baker, E.S.1
Liu, T.2
Petyuk, V.A.3
Burnum-Johnson, K.E.4
Ibrahim, Y.M.5
Anderson, G.A.6
-
31
-
-
79851513271
-
Proteomics beyond proteomics: toward clinical applications
-
Plymoth A., Hainaut P. Proteomics beyond proteomics: toward clinical applications. Curr Opin Oncol 2011, 23:77-82.
-
(2011)
Curr Opin Oncol
, vol.23
, pp. 77-82
-
-
Plymoth, A.1
Hainaut, P.2
-
32
-
-
43049127826
-
PeptideAtlas: a resource for target selection for emerging targeted proteomics workflows
-
Deutsch E.W., Lam H., Aebersold R. PeptideAtlas: a resource for target selection for emerging targeted proteomics workflows. EMBO Rep 2008, 9:429-434.
-
(2008)
EMBO Rep
, vol.9
, pp. 429-434
-
-
Deutsch, E.W.1
Lam, H.2
Aebersold, R.3
-
33
-
-
43349089502
-
Validation of tandem mass spectrometry database search results using DTASelect
-
[Chapter 13:Unit 13 4]
-
Cociorva D., Tabb D.L., Yates J.R. Validation of tandem mass spectrometry database search results using DTASelect. Curr Protoc Bioinformatics 2007, [Chapter 13:Unit 13 4].
-
(2007)
Curr Protoc Bioinformatics
-
-
Cociorva, D.1
Tabb, D.L.2
Yates, J.R.3
|