Discover Community Create You

Loading publication...

Noodle always counts identifier-free feature events for service operation. With your permission, Google Analytics can also estimate audience and engagement. Search text, publication identifiers, cookies, IP addresses and browser fingerprints are never included in Noodle's first-party event counters.

Privacy details

Article

Effect of read-mapping biases on detecting allele-specific expression from RNA-sequencing data.

Bioinformatics (Oxford, England) - 15 Dec 2009

Degner Jacob F, Marioni John C, Pai Athma A, Pickrell Joseph K, Nkadori Everlyne, Gilad Yoav, Pritchard Jonathan K

Abstract excerpt

MOTIVATION: Next-generation sequencing has become an important tool for genome-wide quantification of DNA and RNA. However, a major technical hurdle lies in the need to map short sequence reads back to their correct locations in a reference genome. Here, we investigate the impact of SNP variation on the reliability of read-mapping in the context of detecting allele-specific expression (ASE). RESULTS: We generated...

Read the complete abstract on PubMed

Topics

Share this publication in a Topic to start or enrich a Post.

Share to Alleles
Share to Base Sequence

Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

Share to Computational Biology

Share to Gene Expression Profiling

Share to Genome, Human

Share to Polymorphism, Single Nucleotide

Share to Sequence Analysis, RNA

Share to Software

Source

Open in PubMed Open full text

Identifiers

PMID: 19808877
DOI: 10.1093/bioinformatics/btp579
PMCID: PMC2788925

Provenance

PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 7 Sept 2026. Manifest publication-graph-cohort-2026-09-07.1.

Source receipt: pubmed, retrieved 7 Sept 2026.

Related research

Semantic proximity does not establish scientific evidence.

Research trail→

Click a neighbor to travelStep 1 · 12 closest

Effect of read-mapping biases on detecting allele-specific expression from RNA-sequencing data.PMID 19808877Read ↗

A new strategy to reduce allelic bias in RNA-Seq readmapping.Semantic proximity Read ↗

A compendium of methods: Searching allele specific expression via RNA sequencing.Semantic proximity Read ↗

Hierarchical analysis of RNA-seq reads improves the accuracy of allele-specific expression.Semantic proximity Read ↗

Highly accurate quantification of allelic gene expression for population and disease genetics.Semantic proximity Read ↗

Genome-wide identification of allele-specific effects on gene expression for single and multiple individuals.Semantic proximity Read ↗

A haplotype-based normalization technique for the analysis and detection of allele specific expression.Semantic proximity Read ↗

Understanding mechanisms underlying human gene expression variation with RNA sequencing.Semantic proximity Read ↗

ASEP: Gene-based detection of allele-specific expression across individuals in a population by RNA sequencing.Semantic proximity Read ↗

Comparing computational methods for identification of allele-specific expression based on next generation sequencing data.Semantic proximity Read ↗

Allelic mapping bias in RNA-sequencing is not a major confounder in eQTL studies.Semantic proximity Read ↗

aScan: A Novel Method for the Study of Allele Specific Expression in Single Individuals.Semantic proximity Read ↗

A uniform survey of allele-specific binding and expression over 1000-Genomes-Project individuals.Semantic proximity Read ↗

⌁Select a neighboring publication to make it the new centre.