2015
Development of a highly automated and multiplexed targeted proteome pipeline and assay for 112 rat brain synaptic proteins
Colangelo CM, Ivosev G, Chung L, Abbott T, Shifman M, Sakaue F, Cox D, Kitchen RR, Burton L, Tate SA, Gulcicek E, Bonner R, Rinehart J, Nairn AC, Williams KR. Development of a highly automated and multiplexed targeted proteome pipeline and assay for 112 rat brain synaptic proteins. Proteomics 2015, 15: 1202-1214. PMID: 25476245, PMCID: PMC4698340, DOI: 10.1002/pmic.201400353.Peer-Reviewed Original ResearchYPED: An Integrated Bioinformatics Suite and Database for Mass Spectrometry-Based Proteomics Research
Colangelo CM, Shifman M, Cheung KH, Stone KL, Carriero NJ, Gulcicek EE, Lam TT, Wu T, Bjornson RD, Bruce C, Nairn AC, Rinehart J, Miller PL, Williams KR. YPED: An Integrated Bioinformatics Suite and Database for Mass Spectrometry-Based Proteomics Research. Genomics Proteomics & Bioinformatics 2015, 13: 25-35. PMID: 25712262, PMCID: PMC4411476, DOI: 10.1016/j.gpb.2014.11.002.Peer-Reviewed Original ResearchMeSH KeywordsChromatography, LiquidComputational BiologyDatabases, ProteinHumansPeptide FragmentsProteomeProteomicsTandem Mass SpectrometryConceptsMultiple reaction monitoringPeptides/proteinsYale Protein Expression DatabaseReaction monitoringProteomics researchMass spectrometry-based proteomics researchMS/MSMass spectrometryDatabase search resultsPeptide identificationSpectral librarySite localizationProteomics communityGroup of laboratoriesSpectrometryProtein Expression DatabaseMS
2007
X!!Tandem, an Improved Method for Running X!Tandem in Parallel on Collections of Commodity Computers
Bjornson RD, Carriero NJ, Colangelo C, Shifman M, Cheung KH, Miller PL, Williams K. X!!Tandem, an Improved Method for Running X!Tandem in Parallel on Collections of Commodity Computers. Journal Of Proteome Research 2007, 7: 293-299. PMID: 17902638, PMCID: PMC3863625, DOI: 10.1021/pr0701198.Peer-Reviewed Original ResearchMeSH KeywordsDatabases, ProteinMethodsProtein Processing, Post-TranslationalProteinsSoftwareTandem Mass SpectrometryTime Factors