MBASED: allele-specific expression detection in cancer tissues and cell lines
O Mayba, HN Gilbert, J Liu, PM Haverty… - Genome biology, 2014 - Springer
Allele-specific gene expression, ASE, is an important aspect of gene regulation. We
developed a novel method MBASED, meta-analysis based allele-specific expression …
developed a novel method MBASED, meta-analysis based allele-specific expression …
ASEP: Gene-based detection of allele-specific expression across individuals in a population by RNA sequencing
Allele-specific expression (ASE) analysis, which quantifies the relative expression of two
alleles in a diploid individual, is a powerful tool for identifying cis-regulated gene expression …
alleles in a diploid individual, is a powerful tool for identifying cis-regulated gene expression …
A powerful and flexible statistical framework for testing hypotheses of allele-specific gene expression from RNA-seq data
DA Skelly, M Johansson, J Madeoy… - Genome …, 2011 - genome.cshlp.org
Variation in gene expression is thought to make a significant contribution to phenotypic
diversity among individuals within populations. Although high-throughput cDNA sequencing …
diversity among individuals within populations. Although high-throughput cDNA sequencing …
Hierarchical analysis of RNA-seq reads improves the accuracy of allele-specific expression
N Raghupathy, K Choi, MJ Vincent, GL Beane… - …, 2018 - academic.oup.com
Motivation Allele-specific expression (ASE) refers to the differential abundance of the allelic
copies of a transcript. RNA sequencing (RNA-seq) can provide quantitative estimates of ASE …
copies of a transcript. RNA sequencing (RNA-seq) can provide quantitative estimates of ASE …
A Bayesian mixture model for the analysis of allelic expression in single cells
Allele-specific expression (ASE) at single-cell resolution is a critical tool for understanding
the stochastic and dynamic features of gene expression. However, low read coverage and …
the stochastic and dynamic features of gene expression. However, low read coverage and …
Advances in the identification and analysis of allele-specific expression
Allele-specific expression (ASE) is essential for normal development and many cellular
processes but, if impaired, can result in disease. ASE is a feature of organisms with …
processes but, if impaired, can result in disease. ASE is a feature of organisms with …
Tools and best practices for data processing in allelic expression analysis
SE Castel, A Levy-Moonshine, P Mohammadi, E Banks… - Genome biology, 2015 - Springer
Allelic expression analysis has become important for integrating genome and transcriptome
data to characterize various biological phenomena such as cis-regulatory variation and …
data to characterize various biological phenomena such as cis-regulatory variation and …
ASEQ: fast allele-specific studies from next-generation sequencing data
Background Single base level information from next-generation sequencing (NGS) allows
for the quantitative assessment of biological phenomena such as mosaicism or allele …
for the quantitative assessment of biological phenomena such as mosaicism or allele …
GeneiASE: Detection of condition-dependent and static allele-specific expression from RNA-seq data without haplotype information
D Edsgärd, MJ Iglesias, SJ Reilly, A Hamsten… - Scientific reports, 2016 - nature.com
Allele-specific expression (ASE) is the imbalance in transcription between maternal and
paternal alleles at a locus and can be probed in single individuals using massively parallel …
paternal alleles at a locus and can be probed in single individuals using massively parallel …
A genome-wide study of allele-specific expression in colorectal cancer
Accumulating evidence from small-scale studies has suggested that allele-specific
expression (ASE) plays an important role in tumor initiation and progression. However, little …
expression (ASE) plays an important role in tumor initiation and progression. However, little …