-
1
-
-
0042972838
-
A new algorithm for the evaluation of shotgun peptide sequencing in proteomics: Support vector machine classification of peptide MS/MS spectra and SEQUEST scores
-
Anderson,D. C. et al. (2003) A new algorithm for the evaluation of shotgun peptide sequencing in proteomics: Support vector machine classification of peptide MS/MS spectra and SEQUEST scores. J. Proteome Res., 2, 137-146.
-
(2003)
J. Proteome Res
, vol.2
, pp. 137-146
-
-
Anderson, D.C.1
-
2
-
-
0005411613
-
-
Anderson,J.A. and B1air,V. (1982) Penalized maximum likelihood estimation in logistic regression and discrimination. Biometrika, 69, 123-136.
-
Anderson,J.A. and B1air,V. (1982) Penalized maximum likelihood estimation in logistic regression and discrimination. Biometrika, 69, 123-136.
-
-
-
-
3
-
-
0001677717
-
Controlling the false discovery rate: A practical and powerful approach to multiple testing
-
Benjamini,Y. and Hochberg,Y. (1995) Controlling the false discovery rate: A practical and powerful approach to multiple testing. J. R. Stat. Soc. B, 57, 289-300.
-
(1995)
J. R. Stat. Soc. B
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
4
-
-
33847234661
-
Lookup peaks: A hybrid de novo sequencing and database search for protein identification by tandem mass spectrometry
-
Bem,M. et al. (2007) Lookup peaks: A hybrid de novo sequencing and database search for protein identification by tandem mass spectrometry. Anal. Chem., 79, 1393-400.
-
(2007)
Anal. Chem
, vol.79
, pp. 1393-1400
-
-
Bem, M.1
-
5
-
-
38649125220
-
Semisupervised model-based validation of peptide identifications in mass spectrometry-based proteomics
-
Choi,H. and Nesvizhskii,A.I. (2008) Semisupervised model-based validation of peptide identifications in mass spectrometry-based proteomics. J. Proteome Res., 7, 254-265.
-
(2008)
J. Proteome Res
, vol.7
, pp. 254-265
-
-
Choi, H.1
Nesvizhskii, A.I.2
-
6
-
-
38649083116
-
Statistical validation of peptide identifications in large-scale proteomics using target-decoy database search strategy and flexible mixtute modeling
-
Choi,H. et al. (2008) Statistical validation of peptide identifications in large-scale proteomics using target-decoy database search strategy and flexible mixtute modeling. J. Proteome Res., 7, 286-292.
-
(2008)
J. Proteome Res
, vol.7
, pp. 286-292
-
-
Choi, H.1
-
7
-
-
0041358793
-
OLAV: Towards high-throughput tandem mass spectrometry data identification
-
Colinge,J. et al. (2003) OLAV: Towards high-throughput tandem mass spectrometry data identification. Proteomics, 3, 1454-1463.
-
(2003)
Proteomics
, vol.3
, pp. 1454-1463
-
-
Colinge, J.1
-
8
-
-
3142702204
-
Tandem: Matching proteins with tandem mass spectra
-
Craig,R. and Beavis,R.C. (2004) Tandem: Matching proteins with tandem mass spectra. Bioinformatics, 20, 1466-1467.
-
(2004)
Bioinformatics
, vol.20
, pp. 1466-1467
-
-
Craig, R.1
Beavis, R.C.2
-
9
-
-
1542784653
-
Empirical bayes analysis of a microarray experiment
-
Efron,B. et al. (2001) Empirical bayes analysis of a microarray experiment. J. Am. Stat. Assoc., 96, 1151-1161.
-
(2001)
J. Am. Stat. Assoc
, vol.96
, pp. 1151-1161
-
-
Efron, B.1
-
10
-
-
0742305695
-
Intensity-based protein identification by machine learning from a library of tandem mass spectra
-
Elias,J.E. et al. (2004) Intensity-based protein identification by machine learning from a library of tandem mass spectra. Nat. Biotechnol., 22, 214-219.
-
(2004)
Nat. Biotechnol
, vol.22
, pp. 214-219
-
-
Elias, J.E.1
-
11
-
-
0000857494
-
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
-
Eng,J.K. et al. (1994) An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database. J. Am. Soc. Mass Spectrom., 5, 976-989.
-
(1994)
J. Am. Soc. Mass Spectrom
, vol.5
, pp. 976-989
-
-
Eng, J.K.1
-
12
-
-
34548802987
-
Probability-based pattern recognition and statistical framework for randomization: Modeling tandem mass spectrum/ peptide sequence false match frequencies
-
Feng,J. et al. (2007) Probability-based pattern recognition and statistical framework for randomization: Modeling tandem mass spectrum/ peptide sequence false match frequencies. Bioinformatics, 23 2210-2217.
-
(2007)
Bioinformatics
, vol.23
, pp. 2210-2217
-
-
Feng, J.1
-
14
-
-
0000457666
-
Cross-validating non-gaussian data
-
Gu,C. (1992) Cross-validating non-gaussian data. J. Comput. Graph. Stat., 1, 169-179.
-
(1992)
J. Comput. Graph. Stat
, vol.1
, pp. 169-179
-
-
Gu, C.1
-
15
-
-
34249316472
-
Estimating the statistical sigrificance of peptide identifications from shotgun proteomics experiments
-
Higgs,R.E. et al. (2007) Estimating the statistical sigrificance of peptide identifications from shotgun proteomics experiments. J. Proteome Res., 6, 1758-1767.
-
(2007)
J. Proteome Res
, vol.6
, pp. 1758-1767
-
-
Higgs, R.E.1
-
16
-
-
35748972060
-
A semi-supervised machine learning technique for peptide identification from shotgun proteomics datasets
-
Käll,L. et al. (2007) A semi-supervised machine learning technique for peptide identification from shotgun proteomics datasets. Nat. Methods, 4, 923-925.
-
(2007)
Nat. Methods
, vol.4
, pp. 923-925
-
-
Käll, L.1
-
17
-
-
38649083118
-
Assigning significance to peptides identified by tandem mass spectrometry using decoy databases
-
Käll,L. et al. (2008) Assigning significance to peptides identified by tandem mass spectrometry using decoy databases. J. Proteome Res., 7, 29-34.
-
(2008)
J. Proteome Res
, vol.7
, pp. 29-34
-
-
Käll, L.1
-
18
-
-
0037108887
-
Empirical statistical model to estimate the accuracy of peptide identification made by MS/MS and database search
-
Keller,A. et al. (2002) Empirical statistical model to estimate the accuracy of peptide identification made by MS/MS and database search. Anal. Chem., 74, 5383-5392.
-
(2002)
Anal. Chem
, vol.74
, pp. 5383-5392
-
-
Keller, A.1
-
19
-
-
33644856320
-
Effects of modified digestion schemes on the identification of proteins from complex mixtures
-
Klammer,A.A. and MacCoss,M.J. (2006) Effects of modified digestion schemes on the identification of proteins from complex mixtures. J. Proteome Res., 5, 695-700.
-
(2006)
J. Proteome Res
, vol.5
, pp. 695-700
-
-
Klammer, A.A.1
MacCoss, M.J.2
-
21
-
-
0036209134
-
Qscore: An algorithm for evaluating SEQUEST database search results
-
Moore,R.E. et al. (2002) Qscore: An algorithm for evaluating SEQUEST database search results. J. Am. Soc. Mass Spectrom., 13 378-386.
-
(2002)
J. Am. Soc. Mass Spectrom
, vol.13
, pp. 378-386
-
-
Moore, R.E.1
-
22
-
-
0042338362
-
A statistical model for identifying proteins by tandem mass spectrometry
-
Nesvizhskii,A.I. et al. (2003) A statistical model for identifying proteins by tandem mass spectrometry. Anal. Chem., 75, 4646-4658.
-
(2003)
Anal. Chem
, vol.75
, pp. 4646-4658
-
-
Nesvizhskii, A.I.1
-
23
-
-
0033434080
-
Probability-based protein identification by searching sequence databases using mass spectrometry data
-
Perkins,D.N. et al. (1999) Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis, 20, 3551-3567.
-
(1999)
Electrophoresis
, vol.20
, pp. 3551-3567
-
-
Perkins, D.N.1
-
24
-
-
0000453490
-
Statistical discoveries and effect-size estimation
-
Soric,B. (1989) Statistical discoveries and effect-size estimation. J. Am. Stat. Assoc., 84, 608-610.
-
(1989)
J. Am. Stat. Assoc
, vol.84
, pp. 608-610
-
-
Soric, B.1
-
25
-
-
0036020892
-
A direct approach to false discovery rates
-
Storey,J.D. (2002) A direct approach to false discovery rates. J. R. Stat. Soc., 64, 479-498.
-
(2002)
J. R. Stat. Soc
, vol.64
, pp. 479-498
-
-
Storey, J.D.1
-
26
-
-
0042424602
-
Statistical significance for genome-wide studies
-
Storey,J.D. and Tibshirani,R. (2003) Statistical significance for genome-wide studies. Proc. Natl Acad. Sci. USA, 100, 9440-9445.
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 9440-9445
-
-
Storey, J.D.1
Tibshirani, R.2
-
27
-
-
23644434473
-
Multiple locus linkage analysis of genomewide expression in yeast
-
Storcy,J.D. et al. (2005) Multiple locus linkage analysis of genomewide expression in yeast. PLoS Biol., 3, 1380-1390.
-
(2005)
PLoS Biol
, vol.3
, pp. 1380-1390
-
-
Storcy, J.D.1
-
28
-
-
27544511899
-
InsPecT: Identification of posttranslationally modified peptides from tandem mass spectra
-
Tanner,S. et al. (2005) InsPecT: Identification of posttranslationally modified peptides from tandem mass spectra. Anal. Chem., 77, 4626-4639.
-
(2005)
Anal. Chem
, vol.77
, pp. 4626-4639
-
-
Tanner, S.1
-
29
-
-
0000939344
-
Bayesian "Confidence Intervals" for the cross-validated smoothing Spline
-
Wahba,G. (1983) Bayesian "Confidence Intervals" for the cross-validated smoothing Spline. J. R. Stat. Soc. B (Methodological) 45, 133-150.
-
(1983)
J. R. Stat. Soc. B (Methodological)
, vol.45
, pp. 133-150
-
-
Wahba, G.1
-
30
-
-
0035106351
-
Large-scale analysis of the yeast proteome by multidimensional protein identification technology
-
Washburn,M.P. et al. (2001) Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Nat. Biotechnol., 19, 242-247.
-
(2001)
Nat. Biotechnol
, vol.19
, pp. 242-247
-
-
Washburn, M.P.1
-
31
-
-
40749116092
-
A nonparametric model for quality control of database search results in shotgun proteomics
-
Zhang,J. et al. (2008) A nonparametric model for quality control of database search results in shotgun proteomics. BMC Bioinformatics 9, 29.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 29
-
-
Zhang, J.1
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