Optimizing expression quantitative trait locus mapping workflows for single-cell studies

[1] Robinson MD(2010)A scaling normalization method for differential expression analysis of RNA-seq data Genome Biol 11 R25-213

[2] Oshlack A(2017)Genetic effects on gene expression across human tissues Nature 550 204-511

[3] Kilpinen H(2017)Common genetic variation drives molecular heterogeneity in human iPSCs Nature 546 686-510

[4] Lappalainen T(2013)Transcriptome and genome sequencing uncovers functional variation in humans Nature 501 506-1723

[5] Fairfax BP(2012)Genetics of gene expression in primary immune cells identifies cell type-specific master regulators and roles of HLA alleles Nat Genet. 44 502-421

[6] Makino S(2008)Efficient control of population structure in model organism association mapping Genetics 178 1709-94

[7] Radhakrishnan J(2018)Power, false discovery rate and Winner’s Curse in eQTL studies Nucleic Acids Res 46 e133-497

[8] Plant K(2020)Cardelino: computational integration of somatic clonal substructure and single-cell transcriptomes Nat Methods 17 414-312

[9] Leslie S(2019)Vireo: Bayesian demultiplexing of pooled single-cell RNA-seq data without genotype reference Genome Biol 20 273-1186

[10] Dilthey A(2018)Multiplexed droplet single-cell RNA-sequencing using natural genetic variation Nat Biotechnol. 36 89-321

[1] Robinson MD(2010)A scaling normalization method for differential expression analysis of RNA-seq data Genome Biol 11 R25-213

[2] Oshlack A(2017)Genetic effects on gene expression across human tissues Nature 550 204-511

[3] Kilpinen H(2017)Common genetic variation drives molecular heterogeneity in human iPSCs Nature 546 686-510

[4] Lappalainen T(2013)Transcriptome and genome sequencing uncovers functional variation in humans Nature 501 506-1723

[5] Fairfax BP(2012)Genetics of gene expression in primary immune cells identifies cell type-specific master regulators and roles of HLA alleles Nat Genet. 44 502-421

[6] Makino S(2008)Efficient control of population structure in model organism association mapping Genetics 178 1709-94

[7] Radhakrishnan J(2018)Power, false discovery rate and Winner’s Curse in eQTL studies Nucleic Acids Res 46 e133-497

[8] Plant K(2020)Cardelino: computational integration of somatic clonal substructure and single-cell transcriptomes Nat Methods 17 414-312

[9] Leslie S(2019)Vireo: Bayesian demultiplexing of pooled single-cell RNA-seq data without genotype reference Genome Biol 20 273-1186

[10] Dilthey A(2018)Multiplexed droplet single-cell RNA-sequencing using natural genetic variation Nat Biotechnol. 36 89-321