2015
Change-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data
Gupta NT, Vander Heiden JA, Uduman M, Gadala-Maria D, Yaari G, Kleinstein SH. Change-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data. Bioinformatics 2015, 31: 3356-3358. PMID: 26069265, PMCID: PMC4793929, DOI: 10.1093/bioinformatics/btv359.Peer-Reviewed Original ResearchConceptsHigh-throughput sequencing technologyB cell immunoglobulinLarge-scale characterizationLineage treesSpecialized computational methodsSelection pressureSequencing technologiesSomatic diversityClonal populationsIg repertoireSomatic hypermutationIg sequencesDiversityNon-commercial useSuite of utilitiesRepertoire diversityGermlineComputational methodsAllelesHypermutation
2011
Biomedical Model Fitting and Error Analysis
Costa KD, Kleinstein SH, Hershberg U. Biomedical Model Fitting and Error Analysis. Science Signaling 2011, 4: tr9. PMID: 21954296, PMCID: PMC3272496, DOI: 10.1126/scisignal.2001983.Peer-Reviewed Original ResearchConceptsMathematical modelAppropriate mathematical modelModel parametersError analysisFit parameter valuesLinearization schemeNonlinear modelGoodness of fitNonlinear dataModel fittingBest fitParameter valuesInverse modelingComputational methodsParticular applicationSuch constantsExperimental dataFittingBiomedical systemsProblemFitModelParametersConstantsSeries of measurements