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Items: 1 to 20 of 288

1.

Binomial probability distribution model-based protein identification algorithm for tandem mass spectrometry utilizing peak intensity information.

Xiao CL, Chen XZ, Du YL, Sun X, Zhang G, He QY.

J Proteome Res. 2013 Jan 4;12(1):328-35. doi: 10.1021/pr300781t. Epub 2012 Nov 29.

PMID:
23163785
2.

A dynamic wavelet-based algorithm for pre-processing tandem mass spectrometry data.

Wang P, Yang P, Arthur J, Yang JY.

Bioinformatics. 2010 Sep 15;26(18):2242-9. doi: 10.1093/bioinformatics/btq403. Epub 2010 Jul 13.

PMID:
20628072
3.

Comparative evaluation of tandem MS search algorithms using a target-decoy search strategy.

Balgley BM, Laudeman T, Yang L, Song T, Lee CS.

Mol Cell Proteomics. 2007 Sep;6(9):1599-608. Epub 2007 May 28.

4.

PI: an open-source software package for validation of the SEQUEST result and visualization of mass spectrum.

Qiao Y, Zhang H, Bu D, Sun S.

BMC Bioinformatics. 2011 Jun 15;12:234. doi: 10.1186/1471-2105-12-234.

5.

Properties of average score distributions of SEQUEST: the probability ratio method.

Martínez-Bartolomé S, Navarro P, Martín-Maroto F, López-Ferrer D, Ramos-Fernández A, Villar M, García-Ruiz JP, Vázquez J.

Mol Cell Proteomics. 2008 Jun;7(6):1135-45. doi: 10.1074/mcp.M700239-MCP200. Epub 2008 Feb 25.

6.

MassWiz: a novel scoring algorithm with target-decoy based analysis pipeline for tandem mass spectrometry.

Yadav AK, Kumar D, Dash D.

J Proteome Res. 2011 May 6;10(5):2154-60. doi: 10.1021/pr200031z. Epub 2011 Apr 5.

PMID:
21417338
7.

A Heuristic method for assigning a false-discovery rate for protein identifications from Mascot database search results.

Weatherly DB, Atwood JA 3rd, Minning TA, Cavola C, Tarleton RL, Orlando R.

Mol Cell Proteomics. 2005 Jun;4(6):762-72. Epub 2005 Feb 9.

8.

SQID: an intensity-incorporated protein identification algorithm for tandem mass spectrometry.

Li W, Ji L, Goya J, Tan G, Wysocki VH.

J Proteome Res. 2011 Apr 1;10(4):1593-602. doi: 10.1021/pr100959y. Epub 2011 Feb 23.

9.

Oscore: a combined score to reduce false negative rates for peptide identification in tandem mass spectrometry analysis.

Shao C, Sun W, Li F, Yang R, Zhang L, Gao Y.

J Mass Spectrom. 2009 Jan;44(1):25-31. doi: 10.1002/jms.1466.

PMID:
18698557
10.

The EIPeptiDi tool: enhancing peptide discovery in ICAT-based LC MS/MS experiments.

Cannataro M, Cuda G, Gaspari M, Greco S, Tradigo G, Veltri P.

BMC Bioinformatics. 2007 Jul 15;8:255.

11.

PepHMM: a hidden Markov model based scoring function for mass spectrometry database search.

Wan Y, Yang A, Chen T.

Anal Chem. 2006 Jan 15;78(2):432-7.

PMID:
16408924
12.

Identification of bacteria using tandem mass spectrometry combined with a proteome database and statistical scoring.

Dworzanski JP, Snyder AP, Chen R, Zhang H, Wishart D, Li L.

Anal Chem. 2004 Apr 15;76(8):2355-66.

PMID:
15080748
13.

Dispec: a novel peptide scoring algorithm based on peptide matching discriminability.

Xiao CL, Chen XZ, Du YL, Li ZF, Wei L, Zhang G, He QY.

PLoS One. 2013 May 13;8(5):e62724. doi: 10.1371/journal.pone.0062724. Print 2013.

14.

An algorithm for identifying multiply modified endogenous proteins using both full-scan and high-resolution tandem mass spectrometric data.

Mazur MT, Fyhr R.

Rapid Commun Mass Spectrom. 2011 Dec 15;25(23):3617-26. doi: 10.1002/rcm.5257.

PMID:
22095511
15.

[A novel approach for peptide identification by tandem mass spectrometry].

Sheng QH, Tang HX, Xie T, Wang LS, Ding DF.

Sheng Wu Hua Xue Yu Sheng Wu Wu Li Xue Bao (Shanghai). 2003 Aug;35(8):734-40. Chinese.

16.

Application of peptide LC retention time information in a discriminant function for peptide identification by tandem mass spectrometry.

Strittmatter EF, Kangas LJ, Petritis K, Mottaz HM, Anderson GA, Shen Y, Jacobs JM, Camp DG 2nd, Smith RD.

J Proteome Res. 2004 Jul-Aug;3(4):760-9.

PMID:
15359729
17.

MASPIC: intensity-based tandem mass spectrometry scoring scheme that improves peptide identification at high confidence.

Narasimhan C, Tabb DL, Verberkmoes NC, Thompson MR, Hettich RL, Uberbacher EC.

Anal Chem. 2005 Dec 1;77(23):7581-93.

PMID:
16316165
18.

Probability-based evaluation of peptide and protein identifications from tandem mass spectrometry and SEQUEST analysis: the human proteome.

Qian WJ, Liu T, Monroe ME, Strittmatter EF, Jacobs JM, Kangas LJ, Petritis K, Camp DG 2nd, Smith RD.

J Proteome Res. 2005 Jan-Feb;4(1):53-62.

PMID:
15707357
19.
20.

The probability distribution for a random match between an experimental-theoretical spectral pair in tandem mass spectrometry.

Fridman T, Razumovskaya J, Verberkmoes N, Hurst G, Protopopescu V, Xu Y.

J Bioinform Comput Biol. 2005 Apr;3(2):455-76.

PMID:
15852515

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