These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.
153 related articles for article (PubMed ID: 28965417)
1. Protein-Level Integration Strategy of Multiengine MS Spectra Search Results for Higher Confidence and Sequence Coverage. Zhao P; Zhong J; Liu W; Zhao J; Zhang G J Proteome Res; 2017 Dec; 16(12):4446-4454. PubMed ID: 28965417 [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. MSblender: A probabilistic approach for integrating peptide identifications from multiple database search engines. Kwon T; Choi H; Vogel C; Nesvizhskii AI; Marcotte EM J Proteome Res; 2011 Jul; 10(7):2949-58. PubMed ID: 21488652 [TBL] [Abstract][Full Text] [Related]
4. Optimal Settings of Mass Spectrometry Open Search Strategy for Higher Confidence. Li D; Lu S; Liu W; Zhao X; Mai Z; Zhang G J Proteome Res; 2018 Nov; 17(11):3719-3729. PubMed ID: 30265008 [TBL] [Abstract][Full Text] [Related]
5. 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]
6. Using the entrapment sequence method as a standard to evaluate key steps of proteomics data analysis process. Feng XD; Li LW; Zhang JH; Zhu YP; Chang C; Shu KX; Ma J BMC Genomics; 2017 Mar; 18(Suppl 2):143. PubMed ID: 28361671 [TBL] [Abstract][Full Text] [Related]
7. Optimization of Search Engines and Postprocessing Approaches to Maximize Peptide and Protein Identification for High-Resolution Mass Data. Tu C; Sheng Q; Li J; Ma D; Shen X; Wang X; Shyr Y; Yi Z; Qu J J Proteome Res; 2015 Nov; 14(11):4662-73. PubMed ID: 26390080 [TBL] [Abstract][Full Text] [Related]
8. 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]
9. PepArML: A Meta-Search Peptide Identification Platform for Tandem Mass Spectra. Edwards NJ Curr Protoc Bioinformatics; 2013 Dec; 44(1323):13.23.1-23. PubMed ID: 25663956 [TBL] [Abstract][Full Text] [Related]
10. Enhanced Missing Proteins Detection in NCI60 Cell Lines Using an Integrative Search Engine Approach. Guruceaga E; Garin-Muga A; Prieto G; Bejarano B; Marcilla M; Marín-Vicente C; Perez-Riverol Y; Casal JI; Vizcaíno JA; Corrales FJ; Segura V J Proteome Res; 2017 Dec; 16(12):4374-4390. PubMed ID: 28960077 [TBL] [Abstract][Full Text] [Related]
11. iProphet: multi-level integrative analysis of shotgun proteomic data improves peptide and protein identification rates and error estimates. Shteynberg D; Deutsch EW; Lam H; Eng JK; Sun Z; Tasman N; Mendoza L; Moritz RL; Aebersold R; Nesvizhskii AI Mol Cell Proteomics; 2011 Dec; 10(12):M111.007690. PubMed ID: 21876204 [TBL] [Abstract][Full Text] [Related]
12. Integrated Proteomic Pipeline Using Multiple Search Engines for a Proteogenomic Study with a Controlled Protein False Discovery Rate. Park GW; Hwang H; Kim KH; Lee JY; Lee HK; Park JY; Ji ES; Park SR; Yates JR; Kwon KH; Park YM; Lee HJ; Paik YK; Kim JY; Yoo JS J Proteome Res; 2016 Nov; 15(11):4082-4090. PubMed ID: 27537616 [TBL] [Abstract][Full Text] [Related]
13. False discovery rates in spectral identification. Jeong K; Kim S; Bandeira N BMC Bioinformatics; 2012; 13 Suppl 16(Suppl 16):S2. PubMed ID: 23176207 [TBL] [Abstract][Full Text] [Related]
14. Evaluation of proteomic search engines for the analysis of histone modifications. Yuan ZF; Lin S; Molden RC; Garcia BA J Proteome Res; 2014 Oct; 13(10):4470-8. PubMed ID: 25167464 [TBL] [Abstract][Full Text] [Related]
15. pValid 2: A deep learning based validation method for peptide identification in shotgun proteomics with increased discriminating power. Zhou WJ; Wei ZH; He SM; Chi H J Proteomics; 2022 Jan; 251():104414. PubMed ID: 34737111 [TBL] [Abstract][Full Text] [Related]
16. Bolt: a New Age Peptide Search Engine for Comprehensive MS/MS Sequencing Through Vast Protein Databases in Minutes. Prakash A; Ahmad S; Majumder S; Jenkins C; Orsburn B J Am Soc Mass Spectrom; 2019 Nov; 30(11):2408-2418. PubMed ID: 31452088 [TBL] [Abstract][Full Text] [Related]
17. Tailoring to Search Engines: Bottom-Up Proteomics with Collision Energies Optimized for Identification Confidence. Révész Á; Milley MG; Nagy K; Szabó D; Kalló G; Csősz É; Vékey K; Drahos L J Proteome Res; 2021 Jan; 20(1):474-484. PubMed ID: 33284634 [TBL] [Abstract][Full Text] [Related]
18. Anatomy and evolution of database search engines-a central component of mass spectrometry based proteomic workflows. Verheggen K; Raeder H; Berven FS; Martens L; Barsnes H; Vaudel M Mass Spectrom Rev; 2020 May; 39(3):292-306. PubMed ID: 28902424 [TBL] [Abstract][Full Text] [Related]
19. Origin of Disagreements in Tandem Mass Spectra Interpretation by Search Engines. Tessier D; Lollier V; Larré C; Rogniaux H J Proteome Res; 2016 Oct; 15(10):3481-3488. PubMed ID: 27571036 [TBL] [Abstract][Full Text] [Related]
20. IPeak: An open source tool to combine results from multiple MS/MS search engines. Wen B; Du C; Li G; Ghali F; Jones AR; Käll L; Xu S; Zhou R; Ren Z; Feng Q; Xu X; Wang J Proteomics; 2015 Sep; 15(17):2916-20. PubMed ID: 25951428 [TBL] [Abstract][Full Text] [Related] [Next] [New Search]