From single-cell to cell-pool transcriptomes: stochasticity in gene expression and RNA splicing
GK Marinov, BA Williams, K McCue… - Genome …, 2014 - genome.cshlp.org
Single-cell RNA-seq mammalian transcriptome studies are at an early stage in uncovering
cell-to-cell variation in gene expression, transcript processing and editing, and regulatory …
cell-to-cell variation in gene expression, transcript processing and editing, and regulatory …
BRIE: transcriptome-wide splicing quantification in single cells
Y Huang, G Sanguinetti - Genome biology, 2017 - Springer
Single-cell RNA-seq (scRNA-seq) provides a comprehensive measurement of stochasticity
in transcription, but the limitations of the technology have prevented its application to dissect …
in transcription, but the limitations of the technology have prevented its application to dissect …
Characterizing noise structure in single-cell RNA-seq distinguishes genuine from technical stochastic allelic expression
JK Kim, AA Kolodziejczyk, T Ilicic… - Nature …, 2015 - nature.com
Single-cell RNA-sequencing (scRNA-seq) facilitates identification of new cell types and
gene regulatory networks as well as dissection of the kinetics of gene expression and …
gene regulatory networks as well as dissection of the kinetics of gene expression and …
Obstacles to detecting isoforms using full-length scRNA-seq data
J Westoby, P Artemov, M Hemberg, A Ferguson-Smith - Genome Biology, 2020 - Springer
Background Early single-cell RNA-seq (scRNA-seq) studies suggested that it was unusual
to see more than one isoform being produced from a gene in a single cell, even when …
to see more than one isoform being produced from a gene in a single cell, even when …
Universal alternative splicing of noncoding exons
The human transcriptome is so large, diverse, and dynamic that, even after a decade of
investigation by RNA sequencing (RNA-seq), we have yet to resolve its true dimensions …
investigation by RNA sequencing (RNA-seq), we have yet to resolve its true dimensions …
Deep sequencing reveals cell-type-specific patterns of single-cell transcriptome variation
H Dueck, M Khaladkar, TK Kim, JM Spaethling… - Genome biology, 2015 - Springer
Background Differentiation of metazoan cells requires execution of different gene
expression programs but recent single-cell transcriptome profiling has revealed …
expression programs but recent single-cell transcriptome profiling has revealed …
Effective detection of variation in single-cell transcriptomes using MATQ-seq
The quantification of transcriptional variation in single cells, particularly within the same cell
population, is currently limited by the low sensitivity and high technical noise of single-cell …
population, is currently limited by the low sensitivity and high technical noise of single-cell …
MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data
Single-cell transcriptomics reveals gene expression heterogeneity but suffers from
stochastic dropout and characteristic bimodal expression distributions in which expression is …
stochastic dropout and characteristic bimodal expression distributions in which expression is …
Single-cell RNAseq for the study of isoforms—how is that possible?
Á Arzalluz-Luque, A Conesa - Genome biology, 2018 - Springer
Single-cell RNAseq and alternative splicing studies have recently become two of the most
prominent applications of RNAseq. However, the combination of both is still challenging …
prominent applications of RNAseq. However, the combination of both is still challenging …
bigSCale: an analytical framework for big-scale single-cell data
Single-cell RNA sequencing (scRNA-seq) has significantly deepened our insights into
complex tissues, with the latest techniques capable of processing tens of thousands of cells …
complex tissues, with the latest techniques capable of processing tens of thousands of cells …