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Items: 1 to 20 of 281

1.

An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database.

Eng JK, McCormack AL, Yates JR.

J Am Soc Mass Spectrom. 1994 Nov;5(11):976-89. doi: 10.1016/1044-0305(94)80016-2.

PMID:
24226387
2.

Optimization and testing of mass spectral library search algorithms for compound identification.

Stein SE, Scott DR.

J Am Soc Mass Spectrom. 1994 Sep;5(9):859-66. doi: 10.1016/1044-0305(94)87009-8.

PMID:
24222034
3.

Yeast proteomics and protein microarrays.

Chen R, Snyder M.

J Proteomics. 2010 Oct 10;73(11):2147-57. doi: 10.1016/j.jprot.2010.08.003. Epub 2010 Aug 20. Review.

4.

Efficient marginalization to compute protein posterior probabilities from shotgun mass spectrometry data.

Serang O, MacCoss MJ, Noble WS.

J Proteome Res. 2010 Oct 1;9(10):5346-57. doi: 10.1021/pr100594k.

5.

PeptideClassifier for protein inference and targeted quantitative proteomics.

Qeli E, Ahrens CH.

Nat Biotechnol. 2010 Jul;28(7):647-50. doi: 10.1038/nbt0710-647. No abstract available.

PMID:
20622826
6.

Proteomics data repositories: providing a safe haven for your data and acting as a springboard for further research.

Vizcaíno JA, Foster JM, Martens L.

J Proteomics. 2010 Oct 10;73(11):2136-46. doi: 10.1016/j.jprot.2010.06.008. Epub 2010 Jul 6. Review.

7.

Quantifying the impact of chimera MS/MS spectra on peptide identification in large-scale proteomics studies.

Houel S, Abernathy R, Renganathan K, Meyer-Arendt K, Ahn NG, Old WM.

J Proteome Res. 2010 Aug 6;9(8):4152-60. doi: 10.1021/pr1003856.

8.

MassSieve: panning MS/MS peptide data for proteins.

Slotta DJ, McFarland MA, Markey SP.

Proteomics. 2010 Aug;10(16):3035-9. doi: 10.1002/pmic.200900370.

9.

Protein and gene model inference based on statistical modeling in k-partite graphs.

Gerster S, Qeli E, Ahrens CH, Bühlmann P.

Proc Natl Acad Sci U S A. 2010 Jul 6;107(27):12101-6. doi: 10.1073/pnas.0907654107. Epub 2010 Jun 18.

10.

Open MS/MS spectral library search to identify unanticipated post-translational modifications and increase spectral identification rate.

Ye D, Fu Y, Sun RX, Wang HP, Yuan ZF, Chi H, He SM.

Bioinformatics. 2010 Jun 15;26(12):i399-406. doi: 10.1093/bioinformatics/btq185.

11.

Improving software performance for peptide electron transfer dissociation data analysis by implementation of charge state- and sequence-dependent scoring.

Baker PR, Medzihradszky KF, Chalkley RJ.

Mol Cell Proteomics. 2010 Sep;9(9):1795-803. doi: 10.1074/mcp.M110.000422. Epub 2010 May 31.

12.

Estimating the confidence of peptide identifications without decoy databases.

Renard BY, Timm W, Kirchner M, Steen JA, Hamprecht FA, Steen H.

Anal Chem. 2010 Jun 1;82(11):4314-8. doi: 10.1021/ac902892j.

PMID:
20455556
13.

MASPECTRAS 2: An integration and analysis platform for proteomic data.

Ubaida Mohien C, Hartler J, Breitwieser F, Rix U, Remsing Rix L, Winter GE, Thallinger GG, Bennett KL, Superti-Furga G, Trajanoski Z, Colinge J.

Proteomics. 2010 Jul;10(14):2719-22. doi: 10.1002/pmic.201000075.

PMID:
20455215
14.

Computational analysis of unassigned high-quality MS/MS spectra in proteomic data sets.

Ning K, Fermin D, Nesvizhskii AI.

Proteomics. 2010 Jul;10(14):2712-8. doi: 10.1002/pmic.200900473.

15.

Peptide identification from mixture tandem mass spectra.

Wang J, Pérez-Santiago J, Katz JE, Mallick P, Bandeira N.

Mol Cell Proteomics. 2010 Jul;9(7):1476-85. doi: 10.1074/mcp.M000136-MCP201. Epub 2010 Mar 27.

16.

pNovo: de novo peptide sequencing and identification using HCD spectra.

Chi H, Sun RX, Yang B, Song CQ, Wang LH, Liu C, Fu Y, Yuan ZF, Wang HP, He SM, Dong MQ.

J Proteome Res. 2010 May 7;9(5):2713-24. doi: 10.1021/pr100182k.

PMID:
20329752
17.

A high-throughput de novo sequencing approach for shotgun proteomics using high-resolution tandem mass spectrometry.

Pan C, Park BH, McDonald WH, Carey PA, Banfield JF, VerBerkmoes NC, Hettich RL, Samatova NF.

BMC Bioinformatics. 2010 Mar 5;11:118. doi: 10.1186/1471-2105-11-118.

18.

MUDE: a new approach for optimizing sensitivity in the target-decoy search strategy for large-scale peptide/protein identification.

Cerqueira FR, Graber A, Schwikowski B, Baumgartner C.

J Proteome Res. 2010 May 7;9(5):2265-77. doi: 10.1021/pr901023v.

PMID:
20199108
19.

OVNIp: an open source application facilitating the interpretation, the validation and the edition of proteomics data generated by MS analyses and de novo sequencing.

Tessier D, Yclon P, Jacquemin I, Larré C, Rogniaux H.

Proteomics. 2010 May;10(9):1794-801. doi: 10.1002/pmic.200800783.

PMID:
20198638
20.

Speeding up tandem mass spectrometry based database searching by peptide and spectrum indexing.

Li Y, Chi H, Wang LH, Wang HP, Fu Y, Yuan ZF, Li SJ, Liu YS, Sun RX, Zeng R, He SM.

Rapid Commun Mass Spectrom. 2010 Mar;24(6):807-14. doi: 10.1002/rcm.4448.

PMID:
20187083

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