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14,170 results
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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. Choi H, et al. J Proteome Res. 2008 Jan;7(1):286-92. doi: 10.1021/pr7006818. Epub 2007 Dec 14. J Proteome Res. 2008. PMID: 18078310
ProHits-viz: a suite of web tools for visualizing interaction proteomics data.
Knight JDR, Choi H, Gupta GD, Pelletier L, Raught B, Nesvizhskii AI, Gingras AC. Knight JDR, et al. Among authors: choi h. Nat Methods. 2017 Jun 29;14(7):645-646. doi: 10.1038/nmeth.4330. Nat Methods. 2017. PMID: 28661499 Free PMC article. No abstract available.
SAINTexpress: improvements and additional features in Significance Analysis of INTeractome software.
Teo G, Liu G, Zhang J, Nesvizhskii AI, Gingras AC, Choi H. Teo G, et al. Among authors: choi h. J Proteomics. 2014 Apr 4;100:37-43. doi: 10.1016/j.jprot.2013.10.023. Epub 2013 Oct 26. J Proteomics. 2014. PMID: 24513533 Free PMC article.
PECA: a novel statistical tool for deconvoluting time-dependent gene expression regulation.
Teo G, Vogel C, Ghosh D, Kim S, Choi H. Teo G, et al. Among authors: choi h. J Proteome Res. 2014 Jan 3;13(1):29-37. doi: 10.1021/pr400855q. Epub 2013 Nov 26. J Proteome Res. 2014. PMID: 24229407
Proteomic analysis of Trypanosoma cruzi secretome: characterization of two populations of extracellular vesicles and soluble proteins.
Bayer-Santos E, Aguilar-Bonavides C, Rodrigues SP, Cordero EM, Marques AF, Varela-Ramirez A, Choi H, Yoshida N, da Silveira JF, Almeida IC. Bayer-Santos E, et al. Among authors: choi h. J Proteome Res. 2013 Feb 1;12(2):883-97. doi: 10.1021/pr300947g. Epub 2013 Jan 4. J Proteome Res. 2013. PMID: 23214914
MSblender: A probabilistic approach for integrating peptide identifications from multiple database search engines.
Kwon T, Choi H, Vogel C, Nesvizhskii AI, Marcotte EM. Kwon T, et al. Among authors: choi h. J Proteome Res. 2011 Jul 1;10(7):2949-58. doi: 10.1021/pr2002116. Epub 2011 Apr 29. J Proteome Res. 2011. PMID: 21488652 Free PMC article.
SAINT-MS1: protein-protein interaction scoring using label-free intensity data in affinity purification-mass spectrometry experiments.
Choi H, Glatter T, Gstaiger M, Nesvizhskii AI. Choi H, et al. J Proteome Res. 2012 Apr 6;11(4):2619-24. doi: 10.1021/pr201185r. Epub 2012 Mar 2. J Proteome Res. 2012. PMID: 22352807 Free PMC article.
Data Independent Acquisition analysis in ProHits 4.0.
Liu G, Knight JD, Zhang JP, Tsou CC, Wang J, Lambert JP, Larsen B, Tyers M, Raught B, Bandeira N, Nesvizhskii AI, Choi H, Gingras AC. Liu G, et al. Among authors: choi h. J Proteomics. 2016 Oct 21;149:64-68. doi: 10.1016/j.jprot.2016.04.042. Epub 2016 Apr 29. J Proteomics. 2016. PMID: 27132685 Free PMC article.
SAINTq: Scoring protein-protein interactions in affinity purification - mass spectrometry experiments with fragment or peptide intensity data.
Teo G, Koh H, Fermin D, Lambert JP, Knight JD, Gingras AC, Choi H. Teo G, et al. Among authors: choi h. Proteomics. 2016 Aug;16(15-16):2238-45. doi: 10.1002/pmic.201500499. Epub 2016 May 27. Proteomics. 2016. PMID: 27119218
mapDIA: Preprocessing and statistical analysis of quantitative proteomics data from data independent acquisition mass spectrometry.
Teo G, Kim S, Tsou CC, Collins B, Gingras AC, Nesvizhskii AI, Choi H. Teo G, et al. Among authors: choi h. J Proteomics. 2015 Nov 3;129:108-120. doi: 10.1016/j.jprot.2015.09.013. Epub 2015 Sep 15. J Proteomics. 2015. PMID: 26381204 Free PMC article.
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