Integrating pathway knowledge with deep neural networks to reduce the dimensionality in single-cell RNA-seq data

Olsen TK(2018)Introduction to single-cell RNA sequencing Curr Protoc Mol Biol 122 e57-63

Baryawno N(2009)RNA-Seq: a revolutionary tool for transcriptomics Nat Rev Genet 10 57-6151

Wang Z(2013)Development of strategies for SNP detection in RNA-seq data: application to lymphoblastoid cell lines and evaluation using 1000 genomes data PLoS One 8 e58815-1077

Gerstein M(2018)RNA-seq analysis identifies different transcriptomic types and developmental trajectories of primary melanomas Oncogene 37 6136-130

Snyder M(2017)Development of a RNA-Seq based prognostic signature in lung adenocarcinoma J Natl Cancer Inst 109 djw200-101

Quinn EM(2013)Genome-wide quantitative enhancer activity maps identified by STARR-seq Science 339 1074-8860

Cormican P(2013)Integrating GWAS and expression data for functional characterization of disease-associated SNPs: an application to follicular lymphoma Am J Hum Genet 92 126-91

Kenny EM(2009)Transcriptome sequencing to detect gene fusions in cancer Nature 458 97-1141

Hill M(2014)Single-cell RNA-seq: advances and future challenges Nucleic Acids Res 42 8845-7290

Anney R(2017)Single cells make big data: new challenges and opportunities in transcriptomics Curr Opin Syst Biol 4 85-10

Olsen TK(2018)Introduction to single-cell RNA sequencing Curr Protoc Mol Biol 122 e57-63

Baryawno N(2009)RNA-Seq: a revolutionary tool for transcriptomics Nat Rev Genet 10 57-6151

Wang Z(2013)Development of strategies for SNP detection in RNA-seq data: application to lymphoblastoid cell lines and evaluation using 1000 genomes data PLoS One 8 e58815-1077

Gerstein M(2018)RNA-seq analysis identifies different transcriptomic types and developmental trajectories of primary melanomas Oncogene 37 6136-130

Snyder M(2017)Development of a RNA-Seq based prognostic signature in lung adenocarcinoma J Natl Cancer Inst 109 djw200-101

Quinn EM(2013)Genome-wide quantitative enhancer activity maps identified by STARR-seq Science 339 1074-8860

Cormican P(2013)Integrating GWAS and expression data for functional characterization of disease-associated SNPs: an application to follicular lymphoma Am J Hum Genet 92 126-91

Kenny EM(2009)Transcriptome sequencing to detect gene fusions in cancer Nature 458 97-1141

Hill M(2014)Single-cell RNA-seq: advances and future challenges Nucleic Acids Res 42 8845-7290

Anney R(2017)Single cells make big data: new challenges and opportunities in transcriptomics Curr Opin Syst Biol 4 85-10