BlackOPs: increasing confidence in variant detection through mappability filtering (Q37236777)

19 August 2017

BlackOPs: increasing confidence in variant detection through mappability filtering (English)

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19 August 2017

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8

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19 August 2017

Christopher R Cabanski

1

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19 August 2017

Matthew D Wilkerson

2

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19 August 2017

Matthew Soloway

3

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19 August 2017

Joel S Parker

4

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19 August 2017

Jinze Liu

5

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19 August 2017

Jan F Prins

6

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19 August 2017

J S Marron

7

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19 August 2017

D Neil Hayes

9

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19 August 2017

language of work or name

English

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publication date

8 August 2013

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19 August 2017

Nucleic Acids Research

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19 August 2017

41

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19 August 2017

e178

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19 August 2017

19

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Creative Commons Attribution 3.0 Unported

19 August 2017

start time

4 October 2016

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

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describes a project that uses

1 reference

10 June 2022

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pmc&rettype=xml&id=3799449

cites work

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9 September 2017

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TERT promoter mutations in familial and sporadic melanoma

9 September 2017

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Genomic landscape of non-small cell lung cancer in smokers and never-smokers

9 September 2017

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9 September 2017

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Genomic dark matter: the reliability of short read mapping illustrated by the genome mappability score

9 September 2017

1 reference

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Differential pathogenesis of lung adenocarcinoma subtypes involving sequence mutations, copy number, chromosomal instability, and methylation

9 September 2017

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Comprehensive analysis of RNA-Seq data reveals extensive RNA editing in a human transcriptome

9 September 2017

1 reference

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Fast computation and applications of genome mappability

9 September 2017

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Accurate identification of A-to-I RNA editing in human by transcriptome sequencing

9 September 2017

1 reference

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Comparative analysis of RNA-Seq alignment algorithms and the RNA-Seq unified mapper (RUM).

9 September 2017

1 reference

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A framework for variation discovery and genotyping using next-generation DNA sequencing data

9 September 2017

1 reference

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VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R

9 September 2017

1 reference

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Integrative genomics viewer

9 September 2017

1 reference

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From RNA-seq reads to differential expression results

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

The uniqueome: a mappability resource for short-tag sequencing

9 September 2017

1 reference

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COSMIC: mining complete cancer genomes in the Catalogue of Somatic Mutations in Cancer

9 September 2017

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MapSplice: accurate mapping of RNA-seq reads for splice junction discovery.

9 September 2017

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Screening the human exome: a comparison of whole genome and whole transcriptome sequencing

9 September 2017

1 reference

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U87MG decoded: the genomic sequence of a cytogenetically aberrant human cancer cell line

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

Single nucleotide differences (SNDs) in the dbSNP database may lead to errors in genotyping and haplotyping studies

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

Genetic diagnosis by whole exome capture and massively parallel DNA sequencing

9 September 2017

1 reference

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

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

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

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

Targeted capture and massively parallel sequencing of 12 human exomes

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

VarScan: variant detection in massively parallel sequencing of individual and pooled samples

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

EnsemblCompara GeneTrees: Complete, duplication-aware phylogenetic trees in vertebrates

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

Activating mutations in the epidermal growth factor receptor underlying responsiveness of non-small-cell lung cancer to gefitinib

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

Discrepancies in dbSNP confirmation rates and allele frequency distributions from varying genotyping error rates and patterns

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

dbSNP-database for single nucleotide polymorphisms and other classes of minor genetic variation

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

Comment on "Widespread RNA and DNA sequence differences in the human transcriptome".

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

Improving SNP discovery by base alignment quality

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

Comment on "Widespread RNA and DNA sequence differences in the human transcriptome".

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

3 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799449

Comment on "Widespread RNA and DNA sequence differences in the human transcriptome"

3 September 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23935067

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKT692

1 reference

19 August 2017

1 reference

19 August 2017

1 reference