VarDict: a novel and versatile variant caller for next-generation sequencing in cancer research (Q42598308)

3 November 2017

VarDict: a novel and versatile variant caller for next-generation sequencing in cancer research (English)

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3 November 2017

5

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3 November 2017

Miika Ahdesmaki

3

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author name string

Zhongwu Lai

1

1 reference

3 November 2017

Aleksandra Markovets

2

1 reference

3 November 2017

Brad Chapman

4

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3 November 2017

Robert McEwen

6

1 reference

3 November 2017

Justin Johnson

7

1 reference

3 November 2017

Brian Dougherty

8

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3 November 2017

J Carl Barrett

9

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3 November 2017

Jonathan R Dry

10

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3 November 2017

language of work or name

English

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publication date

7 April 2016

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3 November 2017

Nucleic Acids Research

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3 November 2017

44

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3 November 2017

e108

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3 November 2017

11

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Creative Commons Attribution-NonCommercial 4.0 International

3 November 2017

start time

11 November 2016

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April 2022 Public Data File from Crossref

copyright status

copyrighted

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cites work

Manta: rapid detection of structural variants and indels for germline and cancer sequencing applications.

1 reference

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An ensemble approach to accurately detect somatic mutations using SomaticSeq

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Acquired EGFR C797S mutation mediates resistance to AZD9291 in non-small cell lung cancer harboring EGFR T790M.

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

COSMIC: exploring the world's knowledge of somatic mutations in human cancer

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Accurate de novo and transmitted indel detection in exome-capture data using microassembly

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Comprehensive molecular profiling of lung adenocarcinoma

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

LUMPY: a probabilistic framework for structural variant discovery.

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Evaluation of ultra-deep targeted sequencing for personalized breast cancer care

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Integrative analysis of complex cancer genomics and clinical profiles using the cBioPortal

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

STAR: ultrafast universal RNA-seq aligner

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Identifying and targeting ROS1 gene fusions in non-small cell lung cancer

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Clinical significance of large rearrangements in BRCA1 and BRCA2.

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Fast gapped-read alignment with Bowtie 2

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

ART: a next-generation sequencing read simulator.

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Integrated genomic analyses of ovarian carcinoma

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Integrative genomics viewer

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Molecular mechanisms of resistance to cetuximab and panitumumab in colorectal cancer

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Fast and accurate short read alignment with Burrows-Wheeler transform

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

TopHat: discovering splice junctions with RNA-Seq

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

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

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

K-ras mutations and benefit from cetuximab in advanced colorectal cancer.

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Identification of the transforming EML4-ALK fusion gene in non-small-cell lung cancer

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

EGF receptor gene mutations are common in lung cancers from "never smokers" and are associated with sensitivity of tumors to gefitinib and erlotinib

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

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

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Early Prediction of Response to Tyrosine Kinase Inhibitors by Quantification of EGFR Mutations in Plasma of NSCLC Patients.

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Next-generation sequencing in the clinic.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

Development and validation of a clinical cancer genomic profiling test based on massively parallel DNA sequencing.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4914105

A defining decade in DNA sequencing.

16 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FNAR%2FGKW227

Olaparib Maintenance Therapy in Platinum-Sensitive Relapsed Ovarian Cancer

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FNAR%2FGKW227

21 January 2018

Identifiers

DOI

10.1093/NAR/GKW227

1 reference

3 November 2017

1 reference

3 November 2017

1 reference