Featured Publications
Differential abundance analysis for microbial marker-gene surveys
Paulson J, Stine O, Bravo H, Pop M. Differential abundance analysis for microbial marker-gene surveys. Nature Methods 2013, 10: 1200-1202. PMID: 24076764, PMCID: PMC4010126, DOI: 10.1038/nmeth.2658.Peer-Reviewed Original ResearchMeSH KeywordsAlgorithmsAnimalsArea Under CurveCluster AnalysisComputer SimulationDatabases, GeneticGene Expression ProfilingGenetic MarkersGenetic VariationHumansIntestinesMetagenomicsMiceMicrobiotaModels, GeneticModels, StatisticalNormal DistributionPhenotypeRNA, Ribosomal, 16SSequence Analysis, DNASoftware
2017
Smooth quantile normalization
Hicks S, Okrah K, Paulson J, Quackenbush J, Irizarry R, Bravo H. Smooth quantile normalization. Biostatistics 2017, 19: 185-198. PMID: 29036413, PMCID: PMC5862355, DOI: 10.1093/biostatistics/kxx028.Peer-Reviewed Original ResearchMeSH KeywordsBiostatisticsData Interpretation, StatisticalGenomicsHigh-Throughput Nucleotide SequencingHumansModels, StatisticalConceptsMonte Carlo simulation studyGlobal normalization methodsQuantile normalizationBias-variance tradeoffSimulation studyHigh-throughput datasetsSequencing read countsHigh-throughput dataGenomic data analysisSmooth quantile normalizationTechnical variationBetween-sample normalizationBiological conditionsGlobal propertiesStatistical distributionBiological groupsNormalizationReducing other formsGlobal differences