-
1
-
-
79952285695
-
Understanding the improved sensitivity of spectral library searching over sequence database searching in proteomics data analysis
-
Zhang, X.; Li, Y.; Shao, W.; Lam, H. Understanding the improved sensitivity of spectral library searching over sequence database searching in proteomics data analysis Proteomics 2011, 11, 1075-1085
-
(2011)
Proteomics
, vol.11
, pp. 1075-1085
-
-
Zhang, X.1
Li, Y.2
Shao, W.3
Lam, H.4
-
2
-
-
0000881748
-
Optimization and testing of mass spectral library search algorithms for compound identification
-
Stein, S. E.; Scott, D. R. Optimization and testing of mass spectral library search algorithms for compound identification J. Am. Soc. Mass Spectrom. 1994, 5, 859-866
-
(1994)
J. Am. Soc. Mass Spectrom.
, vol.5
, pp. 859-866
-
-
Stein, S.E.1
Scott, D.R.2
-
3
-
-
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.; Aebersold, R. 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
Aebersold, R.7
-
4
-
-
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
-
5
-
-
67651155670
-
Using BiblioSpec for creating and searching tandem MS peptide libraries
-
Frewen, B.; MacCoss, M. J. Using BiblioSpec for creating and searching tandem MS peptide libraries Curr. Protoc. Bioinf. 2007, 20, 13.7.1-13.7.12
-
(2007)
Curr. Protoc. Bioinf.
, vol.20
, pp. 1371-13712
-
-
Frewen, B.1
Maccoss, M.J.2
-
6
-
-
33747170146
-
Using annotated peptide mass spectrum libraries for protein identification
-
Craig, R.; Cortens, J.; Fenyo, D.; Beavis, R. 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.2
Fenyo, D.3
Beavis, R.4
-
7
-
-
84857863377
-
Pepitome: Evaluating improved spectral library search for identification complementarity and quality assessment
-
Dasari, S.; Chambers, M. C.; Martinez, M. A.; Carpenter, K. L.; Ham, A.-J. L.; Vega-Montoto, L. J.; Tabb, D. L. Pepitome: evaluating improved spectral library search for identification complementarity and quality assessment J. Proteome Res. 2012, 11, 1686-1695
-
(2012)
J. Proteome Res.
, vol.11
, pp. 1686-1695
-
-
Dasari, S.1
Chambers, M.C.2
Martinez, M.A.3
Carpenter, K.L.4
Ham, A.-J.L.5
Vega-Montoto, L.J.6
Tabb, D.L.7
-
8
-
-
77954191980
-
Open MS/MS spectral library search to identify unanticipated post-translational modifications and increase spectral identification rate
-
Ye, D.; Fu, Y.; Sun, R.-X.; Wang, H.-P.; Yuan, Z.-F.; Chi, H.; He, S.-M. Open MS/MS spectral library search to identify unanticipated post-translational modifications and increase spectral identification rate Bioinformatics 2010, 26, i399-i406
-
(2010)
Bioinformatics
, vol.26
, pp. 399-i406
-
-
Ye, D.1
Fu, Y.2
Sun, R.-X.3
Wang, H.-P.4
Yuan, Z.-F.5
Chi, H.6
He, S.-M.7
-
9
-
-
79960196834
-
Spectrum-to-spectrum searching using a proteome-wide spectral library
-
Yen, C.-Y.; Houel, S.; Ahn, N. G.; Old, W. M. Spectrum-to-spectrum searching using a proteome-wide spectral library Mol. Cell. Proteomics 2011, 10, M111.007666
-
(2011)
Mol. Cell. Proteomics
, vol.10
, pp. 111007666
-
-
Yen, C.-Y.1
Houel, S.2
Ahn, N.G.3
Old, W.M.4
-
10
-
-
84877876586
-
A novel spectral library workflow to enhance protein identifications
-
Li, H.; Zong, N. C.; Liang, X.; Kim, A. K.; Choi, J. H.; Deng, N.; Zelaya, I.; Lam, M.; Duan, H.; Ping, P. A novel spectral library workflow to enhance protein identifications J. Proteomics 2013, 81, 173-184
-
(2013)
J. Proteomics
, vol.81
, pp. 173-184
-
-
Li, H.1
Zong, N.C.2
Liang, X.3
Kim, A.K.4
Choi, J.H.5
Deng, N.6
Zelaya, I.7
Lam, M.8
Duan, H.9
Ping, P.10
-
11
-
-
35948937578
-
HMMatch: Peptide identification by spectral matching of tandem mass spectra using hidden Markov models
-
Wu, X.; Tseng, C.-W.; Edwards, N. HMMatch: Peptide identification by spectral matching of tandem mass spectra using hidden Markov models J. Comput. Biol. 2007, 14, 1025-1043
-
(2007)
J. Comput. Biol.
, vol.14
, pp. 1025-1043
-
-
Wu, X.1
Tseng, C.-W.2
Edwards, N.3
-
12
-
-
84888064552
-
Refining similarity scoring to enable decoy-free validation in spectral library searching
-
Shao, W.; Zhu, K.; Lam, H. Refining similarity scoring to enable decoy-free validation in spectral library searching Proteomics 2013, 13, 3273-3283
-
(2013)
Proteomics
, vol.13
, pp. 3273-3283
-
-
Shao, W.1
Zhu, K.2
Lam, H.3
-
13
-
-
79958191849
-
Fast parallel tandem mass spectral library searching using GPU hardware acceleration
-
Baumgardner, L. A.; Shanmugam, A. K.; Lam, H.; Eng, J. K.; Martin, D. B. Fast parallel tandem mass spectral library searching using GPU hardware acceleration J. Proteome Res. 2011, 10, 2882-2888
-
(2011)
J. Proteome Res.
, vol.10
, pp. 2882-2888
-
-
Baumgardner, L.A.1
Shanmugam, A.K.2
Lam, H.3
Eng, J.K.4
Martin, D.B.5
-
14
-
-
38649109810
-
Clustering millions of tandem mass spectra
-
Frank, A. M.; Bandeira, N.; Shen, Z.; Tanner, S.; Briggs, S. P.; Smith, R. D.; Pevzner, P. A. Clustering millions of tandem mass spectra J. Proteome Res. 2008, 7, 113-122
-
(2008)
J. Proteome Res.
, vol.7
, pp. 113-122
-
-
Frank, A.M.1
Bandeira, N.2
Shen, Z.3
Tanner, S.4
Briggs, S.P.5
Smith, R.D.6
Pevzner, P.A.7
-
15
-
-
33746930864
-
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, E1-E8
-
(2005)
Mol. Syst. Biol.
, vol.1
, pp. 1-E8
-
-
Keller, A.1
Eng, J.2
Zhang, N.3
Li, J.X.4
Aebersold, R.5
-
16
-
-
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
-
17
-
-
79960124313
-
Using the human plasma PeptideAtlas to study human plasma proteins
-
Farrah, T.; Deutsch, E. W.; Aebersold, R. Using the human plasma PeptideAtlas to study human plasma proteins Methods Mol. Biol. 2011, 728, 349-374
-
(2011)
Methods Mol. Biol.
, vol.728
, pp. 349-374
-
-
Farrah, T.1
Deutsch, E.W.2
Aebersold, R.3
-
18
-
-
76149132007
-
Comparison of database search strategies for high precursor mass accuracy MS/MS data
-
Hsieh, E. J.; Hoopmann, M. R.; MacLean, B.; MacCoss, M. J. Comparison of database search strategies for high precursor mass accuracy MS/MS data J. Proteome Res. 2010, 9, 1138-1143
-
(2010)
J. Proteome Res.
, vol.9
, pp. 1138-1143
-
-
Hsieh, E.J.1
Hoopmann, M.R.2
Maclean, B.3
Maccoss, M.J.4
-
19
-
-
0037108887
-
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
|