VAReporter: variant reporter for cancer research of massive parallel sequencing

BMC Genomics
Po-Jung HuangPetrus Tang

Abstract

High throughput sequencing technologies have been an increasingly critical aspect of precision medicine owing to a better identification of disease targets, which contributes to improved health care cost and clinical outcomes. In particular, disease-oriented targeted enrichment sequencing is becoming a widely-accepted application for diagnostic purposes, which can interrogate known diagnostic variants as well as identify novel biomarkers from panels of entire human coding exome or disease-associated genes. We introduce a workflow named VAReporter to facilitate the management of variant assessment in disease-targeted sequencing, the identification of pathogenic variants, the interpretation of biological effects and the prioritization of clinically actionable targets. State-of-art algorithms that account for mutation phenotypes are used to rank the importance of mutated genes through visual analytic strategies. We established an extensive annotation source by integrating a wide variety of biomedical databases and followed the American College of Medical Genetics and Genomics (ACMG) guidelines for interpretation and reporting of sequence variations. In summary, VAReporter is the first web server designed to provide a "one-stop" re...Continue Reading

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Citations

Jul 13, 2019·BMC Medical Genomics·Po-Jung HuangPei-Chien Tsai

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Methods Mentioned

BETA
PCR

Software Mentioned

Google Chrome
Annotate
Anntools
OncoPrint
KGGSeq
TREAT
Shiny
Internet Explorer
cBioPortal
DataTables

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