2017
Removal of batch effects using distribution-matching residual networks
Shaham U, Stanton KP, Zhao J, Li H, Raddassi K, Montgomery R, Kluger Y. Removal of batch effects using distribution-matching residual networks. Bioinformatics 2017, 33: 2539-2546. PMID: 28419223, PMCID: PMC5870543, DOI: 10.1093/bioinformatics/btx196.Peer-Reviewed Original ResearchMeSH KeywordsComputational BiologyCytophotometryData AccuracyHumansMachine LearningSequence Analysis, RNASingle-Cell AnalysisStatistics as TopicConceptsMeasurement errorNovel deep learning approachRandom measurement errorMultivariate distributionsResidual neural networkDeep learning approachNovel biological technologiesMaximum mean discrepancyPhysical phenomenaResidual networkNeural networkLearning approachSystematic componentSupplementary dataSystematic errorsMean discrepancyScRNA-seq datasetsBatch effectsErrorNetworkStatistical analysis
2013
Differential expression analysis for paired RNA-seq data
Chung LM, Ferguson JP, Zheng W, Qian F, Bruno V, Montgomery RR, Zhao H. Differential expression analysis for paired RNA-seq data. BMC Bioinformatics 2013, 14: 110. PMID: 23530607, PMCID: PMC3663822, DOI: 10.1186/1471-2105-14-110.Peer-Reviewed Original Research