ArticleBriefings in bioinformatics2017
BrowseVCF: a web-based application and workflow to quickly prioritize disease-causative variants in VCF files.
Article in Briefings in bioinformatics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
22 citing papers in PubMed.
- Variant graph craft (VGC): a comprehensive tool for analyzing genetic variation and identifying disease-causing variants.BMC bioinformatics · 2024Article
- VCF observer: a user-friendly software tool for preliminary VCF file analysis and comparison.BMC bioinformatics · 2024Article
- 123VCF: an intuitive and efficient tool for filtering VCF files.BMC bioinformatics · 2024Article
- Var∣Decrypt: a novel and user-friendly tool to explore and prioritize variants in whole-exome sequencing data.Epigenetics & chromatin · 2023Article
- The personalized cancer network explorer (PeCaX) as a visual analytics tool to support molecular tumor boards.BMC bioinformatics · 2023Article
- VCFshiny: an R/Shiny application for interactively analyzing and visualizing genetic variants.Bioinformatics advances · 2023Article
- PhenGenVar: A User-Friendly Genetic Variant Detection and Visualization Tool for Precision Medicine.Journal of personalized medicine · 2022Article
- Cutevariant: a standalone GUI-based desktop application to explore genetic variations from an annotated VCF file.Bioinformatics advances · 2022Article
- Article
- Decreased ATM Function Causes Delayed DNA Repair and Apoptosis in Common Variable Immunodeficiency Disorders.Journal of clinical immunology · 2021Article
- Comprehensive comparative genomic and microsatellite analysis of SARS, MERS, BAT-SARS, and COVID-19 coronaviruses.Journal of medical virology · 2021Article
- re-Searcher: GUI-based bioinformatics tool for simplified genomics data mining of VCF files.PeerJ · 2021Article
- Genomic diversity affects the accuracy of bacterial single-nucleotide polymorphism-calling pipelines.GigaScience · 2020Article
- VCF/Plotein: visualization and prioritization of genomic variants from human exome sequencing projects.Bioinformatics (Oxford, England) · 2019Article
- VIVA (VIsualization of VAriants): A VCF File Visualization Tool.Scientific reports · 2019Article
- VCF-Server: A web-based visualization tool for high-throughput variant data mining and management.Molecular genetics & genomic medicine · 2019Article
- GenESysV: a fast, intuitive and scalable genome exploration open source tool for variants generated from high-throughput sequencing projects.BMC bioinformatics · 2019Article
- D3Oncoprint: Stand-Alone Software to Visualize and Dynamically Explore Annotated Genomic Mutation Files.JCO clinical cancer informatics · 2018Article
- VCF.Filter: interactive prioritization of disease-linked genetic variants from sequencing data.Nucleic acids research · 2017Article
- Mendel,MD: A user-friendly open-source web tool for analyzing WES and WGS in the diagnosis of patients with Mendelian disorders.PLoS computational biology · 2017Article
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
Following variant calling and annotation, accurate variant filtering is a crucial step to extract meaningful information from sequencing data and to investigate disease aetiology. However, the variant call format (VCF) used to store this information is not easy to handle for non-bioinformaticians. We present BrowseVCF, a flexible and intuitive software to enable researchers to browse and filter millions of variants in a few seconds. Key features include querying user-defined gene lists, grouping samples for family or tumour/normal studies and exporting results in spreadsheet format. BrowseVCF's significant advantages over most existing tools include the ability to process data from any DNA sequencing experiment (exome, whole-genome and amplicons) and to correctly parse files annotated with Variant Effect Predictor. BrowseVCF can be used either locally on personal computers or as part of automated pipelines. Its user interface has been carefully designed to minimize tunable parameters. BrowseVCF is freely available from https://github.com/BSGOxford/BrowseVCF/releases/latest.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.