Fine-mapping cellular QTLs with RASQUAL and ATAC-seq (Q40222202)

18 September 2017

Fine-mapping cellular QTLs with RASQUAL and ATAC-seq (English)

1 reference

Erratum: Corrigendum: Fine-mapping cellular QTLs with RASQUAL and ATAC-seq

18 September 2017

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corrigendum / erratum

1 reference

12 July 2019

http://api.crossref.org/works?select=update-to&filter=doi:10.1038/NG0329-473E

Daniel J Gaffney

3

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author name string

Natsuhiko Kumasaka

series ordinal

1

1 reference

18 September 2017

Andrew J Knights

series ordinal

2

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18 September 2017

language of work or name

English

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publication date

14 December 2015

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18 September 2017

1 reference

18 September 2017

48

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18 September 2017

206-213

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18 September 2017

2

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https://scigraph.springernature.com/pub.10.1038/ng.3467

18 September 2017

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cites work

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Genetic conflict reflected in tissue-specific maps of genomic imprinting in human and mouse

22 September 2017

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Sensitive detection of chromatin-altering polymorphisms reveals autoimmune disease mechanisms

22 September 2017

1 reference

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Genetic variation in human DNA replication timing

22 September 2017

1 reference

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Quantitative genetics of CTCF binding reveal local sequence effects and different modes of X-chromosome association

22 September 2017

1 reference

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Allelic mapping bias in RNA-sequencing is not a major confounder in eQTL studies

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Methylation QTLs are associated with coordinated changes in transcription factor binding, histone modifications, and gene expression levels

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Determination and inference of eukaryotic transcription factor sequence specificity

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Genetics of rheumatoid arthritis contributes to biology and drug discovery

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

The NHGRI GWAS Catalog, a curated resource of SNP-trait associations

22 September 2017

1 reference

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Identification and removal of low-complexity sites in allele-specific analysis of ChIP-seq data

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Identification of genetic variants that affect histone modifications in human cells

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Extensive variation in chromatin states across humans

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Coordinated effects of sequence variation on DNA binding, chromatin structure, and transcription

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Characterizing the genetic basis of transcriptome diversity through RNA-sequencing of 922 individuals

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Transcriptome and genome sequencing uncovers functional variation in humans

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Genome-wide association study identifies multiple risk loci for chronic lymphocytic leukemia

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Genotype-based test in mapping cis-regulatory variants from allele-specific expression data

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Matrix eQTL: ultra fast eQTL analysis via large matrix operations

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Critical evaluation of imprinted gene expression by RNA-Seq: a new perspective

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Identification of allele-specific alternative mRNA processing via transcriptome sequencing

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Fast gapped-read alignment with Bowtie 2

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

DNase I sensitivity QTLs are a major determinant of human expression variation

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

A statistical framework for eQTL mapping using RNA-seq data

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

False positive peaks in ChIP-seq and other sequencing-based functional assays caused by unannotated high copy number regions

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Differential expression analysis for sequence count data

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Sex-specific parent-of-origin allelic expression in the mouse brain

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

High-resolution analysis of parent-of-origin allelic expression in the mouse brain

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Genome-wide allele-specific analysis: insights into regulatory variation

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Heritable individual-specific and allele-specific chromatin signatures in humans

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Variation in transcription factor binding among humans

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Understanding mechanisms underlying human gene expression variation with RNA sequencing

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Transcriptome genetics using second generation sequencing in a Caucasian population

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Genome-wide analysis of allelic expression imbalance in human primary cells by high-throughput transcriptome resequencing

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

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

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

A flexible and accurate genotype imputation method for the next generation of genome-wide association studies

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Fast and accurate short read alignment with Burrows-Wheeler transform

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Maximum likelihood inference of imprinting and allele-specific expression from EST data

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Characterization of human and mouse H19 regulatory sequences

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

An enhancer deletion affects both H19 and Igf2 expression

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

Putative cis-regulatory drivers in colorectal cancer.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5098600

20 August 2018

Identifiers

DOI

10.1038/NG.3467

1 reference

Dimensions Publication ID

18 September 2017

0 references

1 reference

18 September 2017

1 reference