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Results: 1 to 20 of 28

1.

Machines that learn to segment images: a crucial technology for connectomics.

Jain V, Seung HS, Turaga SC.

Curr Opin Neurobiol. 2010 Oct;20(5):653-66. doi: 10.1016/j.conb.2010.07.004. Review.

PMID:
20801638
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

False discovery rates of protein identifications: a strike against the two-peptide rule.

Gupta N, Pevzner PA.

J Proteome Res. 2009 Sep;8(9):4173-81. doi: 10.1021/pr9004794.

PMID:
19627159
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Protein identification false discovery rates for very large proteomics data sets generated by tandem mass spectrometry.

Reiter L, Claassen M, Schrimpf SP, Jovanovic M, Schmidt A, Buhmann JM, Hengartner MO, Aebersold R.

Mol Cell Proteomics. 2009 Nov;8(11):2405-17. doi: 10.1074/mcp.M900317-MCP200. Epub 2009 Jul 16.

PMID:
19608599
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

IDPicker 2.0: Improved protein assembly with high discrimination peptide identification filtering.

Ma ZQ, Dasari S, Chambers MC, Litton MD, Sobecki SM, Zimmerman LJ, Halvey PJ, Schilling B, Drake PM, Gibson BW, Tabb DL.

J Proteome Res. 2009 Aug;8(8):3872-81. doi: 10.1021/pr900360j.

PMID:
19522537
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Improvements to the percolator algorithm for Peptide identification from shotgun proteomics data sets.

Spivak M, Weston J, Bottou L, Käll L, Noble WS.

J Proteome Res. 2009 Jul;8(7):3737-45. doi: 10.1021/pr801109k.

PMID:
19385687
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Rapid and accurate peptide identification from tandem mass spectra.

Park CY, Klammer AA, Käll L, MacCoss MJ, Noble WS.

J Proteome Res. 2008 Jul;7(7):3022-7. doi: 10.1021/pr800127y. Epub 2008 May 28.

PMID:
18505281
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Semisupervised model-based validation of peptide identifications in mass spectrometry-based proteomics.

Choi H, Nesvizhskii AI.

J Proteome Res. 2008 Jan;7(1):254-65. Epub 2007 Dec 27.

PMID:
18159924
[PubMed - indexed for MEDLINE]
8.

Statistical validation of peptide identifications in large-scale proteomics using the target-decoy database search strategy and flexible mixture modeling.

Choi H, Ghosh D, Nesvizhskii AI.

J Proteome Res. 2008 Jan;7(1):286-92. Epub 2007 Dec 14.

PMID:
18078310
[PubMed - indexed for MEDLINE]
9.

False discovery rates and related statistical concepts in mass spectrometry-based proteomics.

Choi H, Nesvizhskii AI.

J Proteome Res. 2008 Jan;7(1):47-50. Epub 2007 Dec 8.

PMID:
18067251
[PubMed - indexed for MEDLINE]
10.

Modes of inference for evaluating the confidence of peptide identifications.

Fitzgibbon M, Li Q, McIntosh M.

J Proteome Res. 2008 Jan;7(1):35-9. Epub 2007 Dec 8. Review.

PMID:
18067248
[PubMed - indexed for MEDLINE]
11.

Assigning significance to peptides identified by tandem mass spectrometry using decoy databases.

Käll L, Storey JD, MacCoss MJ, Noble WS.

J Proteome Res. 2008 Jan;7(1):29-34. Epub 2007 Dec 8. Review.

PMID:
18067246
[PubMed - indexed for MEDLINE]
12.

Advancement in protein inference from shotgun proteomics using peptide detectability.

Alves P, Arnold RJ, Novotny MV, Radivojac P, Reilly JP, Tang H.

Pac Symp Biocomput. 2007:409-20.

PMID:
17990506
[PubMed - indexed for MEDLINE]
Free Article
13.

Semi-supervised learning for peptide identification from shotgun proteomics datasets.

Käll L, Canterbury JD, Weston J, Noble WS, MacCoss MJ.

Nat Methods. 2007 Nov;4(11):923-5. Epub 2007 Oct 21.

PMID:
17952086
[PubMed - indexed for MEDLINE]
14.

Proteomic parsimony through bipartite graph analysis improves accuracy and transparency.

Zhang B, Chambers MC, Tabb DL.

J Proteome Res. 2007 Sep;6(9):3549-57. Epub 2007 Aug 4.

PMID:
17676885
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry.

Elias JE, Gygi SP.

Nat Methods. 2007 Mar;4(3):207-14.

PMID:
17327847
[PubMed - indexed for MEDLINE]
17.

Data management and preliminary data analysis in the pilot phase of the HUPO Plasma Proteome Project.

Adamski M, Blackwell T, Menon R, Martens L, Hermjakob H, Taylor C, Omenn GS, States DJ.

Proteomics. 2005 Aug;5(13):3246-61.

PMID:
16104057
[PubMed - indexed for MEDLINE]
18.

Open mass spectrometry search algorithm.

Geer LY, Markey SP, Kowalak JA, Wagner L, Xu M, Maynard DM, Yang X, Shi W, Bryant SH.

J Proteome Res. 2004 Sep-Oct;3(5):958-64.

PMID:
15473683
[PubMed - indexed for MEDLINE]
19.

Intensity-based protein identification by machine learning from a library of tandem mass spectra.

Elias JE, Gibbons FD, King OD, Roth FP, Gygi SP.

Nat Biotechnol. 2004 Feb;22(2):214-9. Epub 2004 Jan 18.

PMID:
14730315
[PubMed - indexed for MEDLINE]
20.

A statistical model for identifying proteins by tandem mass spectrometry.

Nesvizhskii AI, Keller A, Kolker E, Aebersold R.

Anal Chem. 2003 Sep 1;75(17):4646-58.

PMID:
14632076
[PubMed - indexed for MEDLINE]

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