304 related articles for article (PubMed ID: 23666724)
1. Algorithms for database-dependent search of MS/MS data.
Matthiesen R
Methods Mol Biol; 2013; 1007():119-38. PubMed ID: 23666724
[TBL] [Abstract][Full Text] [Related]
2. In-depth analysis of protein inference algorithms using multiple search engines and well-defined metrics.
Audain E; Uszkoreit J; Sachsenberg T; Pfeuffer J; Liang X; Hermjakob H; Sanchez A; Eisenacher M; Reinert K; Tabb DL; Kohlbacher O; Perez-Riverol Y
J Proteomics; 2017 Jan; 150():170-182. PubMed ID: 27498275
[TBL] [Abstract][Full Text] [Related]
3. General framework for developing and evaluating database scoring algorithms using the TANDEM search engine.
MacLean B; Eng JK; Beavis RC; McIntosh M
Bioinformatics; 2006 Nov; 22(22):2830-2. PubMed ID: 16877754
[TBL] [Abstract][Full Text] [Related]
4. VEMS 3.0: algorithms and computational tools for tandem mass spectrometry based identification of post-translational modifications in proteins.
Matthiesen R; Trelle MB; Højrup P; Bunkenborg J; Jensen ON
J Proteome Res; 2005; 4(6):2338-47. PubMed ID: 16335983
[TBL] [Abstract][Full Text] [Related]
5. Protein identification by tandem mass spectrometry and sequence database searching.
Nesvizhskii AI
Methods Mol Biol; 2007; 367():87-119. PubMed ID: 17185772
[TBL] [Abstract][Full Text] [Related]
6. Virtual expert mass spectrometrist: iTRAQ tool for database-dependent search, quantitation and result storage.
Rodríguez-Suárez E; Gubb E; Alzueta IF; Falcón-Pérez JM; Amorim A; Elortza F; Matthiesen R
Proteomics; 2010 Apr; 10(8):1545-56. PubMed ID: 20140907
[TBL] [Abstract][Full Text] [Related]
7. Database Search Engines: Paradigms, Challenges and Solutions.
Verheggen K; Martens L; Berven FS; Barsnes H; Vaudel M
Adv Exp Med Biol; 2016; 919():147-156. PubMed ID: 27975215
[TBL] [Abstract][Full Text] [Related]
8. Improving sensitivity by probabilistically combining results from multiple MS/MS search methodologies.
Searle BC; Turner M; Nesvizhskii AI
J Proteome Res; 2008 Jan; 7(1):245-53. PubMed ID: 18173222
[TBL] [Abstract][Full Text] [Related]
9. Search and decoy: the automatic identification of mass spectra.
Eisenacher M; Kohl M; Turewicz M; Koch MH; Uszkoreit J; Stephan C
Methods Mol Biol; 2012; 893():445-88. PubMed ID: 22665317
[TBL] [Abstract][Full Text] [Related]
10. CHOMPER: a bioinformatic tool for rapid validation of tandem mass spectrometry search results associated with high-throughput proteomic strategies.
Eddes JS; Kapp EA; Frecklington DF; Connolly LM; Layton MJ; Moritz RL; Simpson RJ
Proteomics; 2002 Sep; 2(9):1097-103. PubMed ID: 12362328
[TBL] [Abstract][Full Text] [Related]
11. PIA: An Intuitive Protein Inference Engine with a Web-Based User Interface.
Uszkoreit J; Maerkens A; Perez-Riverol Y; Meyer HE; Marcus K; Stephan C; Kohlbacher O; Eisenacher M
J Proteome Res; 2015 Jul; 14(7):2988-97. PubMed ID: 25938255
[TBL] [Abstract][Full Text] [Related]
12. Hunting for unexpected post-translational modifications by spectral library searching with tier-wise scoring.
Ma CW; Lam H
J Proteome Res; 2014 May; 13(5):2262-71. PubMed ID: 24661115
[TBL] [Abstract][Full Text] [Related]
13. Interrogation of MS/MS search data with an pI Filter algorithm to increase protein identification success.
Uwaje NC; Mueller NS; Maccarrone G; Turck CW
Electrophoresis; 2007 Jun; 28(12):1867-74. PubMed ID: 17516581
[TBL] [Abstract][Full Text] [Related]
14. Fast tandem mass spectra-based protein identification regardless of the number of spectra or potential modifications examined.
Falkner J; Andrews P
Bioinformatics; 2005 May; 21(10):2177-84. PubMed ID: 15746284
[TBL] [Abstract][Full Text] [Related]
15. Database interrogation algorithms for identification of proteins in proteomic separations.
Palagi PM; Lisacek F; Appel RD
Methods Mol Biol; 2009; 519():515-31. PubMed ID: 19381607
[TBL] [Abstract][Full Text] [Related]
16. Protein identification from tandem mass spectra by database searching.
Edwards NJ
Methods Mol Biol; 2011; 694():119-38. PubMed ID: 21082432
[TBL] [Abstract][Full Text] [Related]
17. Comparative database search engine analysis on massive tandem mass spectra of pork-based food products for halal proteomics.
Amir SH; Yuswan MH; Aizat WM; Mansor MK; Desa MNM; Yusof YA; Song LK; Mustafa S
J Proteomics; 2021 Jun; 241():104240. PubMed ID: 33894373
[TBL] [Abstract][Full Text] [Related]
18. 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; 25(23):3617-26. PubMed ID: 22095511
[TBL] [Abstract][Full Text] [Related]
19. Maximizing the sensitivity and reliability of peptide identification in large-scale proteomic experiments by harnessing multiple search engines.
Yu W; Taylor JA; Davis MT; Bonilla LE; Lee KA; Auger PL; Farnsworth CC; Welcher AA; Patterson SD
Proteomics; 2010 Mar; 10(6):1172-89. PubMed ID: 20101609
[TBL] [Abstract][Full Text] [Related]
20. Methods and algorithms for quantitative proteomics by mass spectrometry.
Matthiesen R; Carvalho AS
Methods Mol Biol; 2013; 1007():183-217. PubMed ID: 23666727
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
