ArticleGigaScience2019
Gigwa v2-Extended and improved genotype investigator.
Article in GigaScience, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Early Response QTLs and DEGs Underlying Oil Palm Resistance toMicroorganisms · 2026Article
- CottonGen 2025: a knowledgebase for cotton genomics, genetics, and breeding research.Genetics · 2026Article
- Genome Database for Vaccinium: a knowledgebase for genetics, genomics, and breeding research.Genetics · 2026Article
- Article
- GenMasterTable: a user-friendly desktop application for filtering, summarising, and visualising large-scale annotated genetic variants.BMC bioinformatics · 2025Article
- BrAPI v2: real-world applications for data integration and collaboration in the breeding and genetics community.Database : the journal of biological databases and curation · 2025Article
- Article
- CannSeek? Yes we Can! An open-source single nucleotide polymorphism database and analysis portal forGigaByte (Hong Kong, China) · 2024Article
- Article
- DivBrowse-interactive visualization and exploratory data analysis of variant call matrices.GigaScience · 2022Article
- Genomic and Bioinformatic Resources for Perennial Fruit Species.Current genomics · 2022Review
- The banana genome hub: a community database for genomics in the Musaceae.Horticulture research · 2022Article
- Hybridization, missing wild ancestors and the domestication of cultivated diploid bananas.Frontiers in plant science · 2022Article
- Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic and breeding databases.Briefings in bioinformatics · 2021Article
- metaXplor: an interactive viral and microbial metagenomic data manager.GigaScience · 2021Article
- SnpHub: an easy-to-set-up web server framework for exploring large-scale genomic variation data in the post-genomic era with applications in wheat.GigaScience · 2020Article
- Allele mining unlocks the identification of RYMV resistance genes and alleles in African cultivated rice.BMC plant biology · 2020Article
- Gigwa v2-Extended and improved genotype investigator.GigaScience · 2019Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe study of genetic variations is the basis of many research domains in biology. From genome structure to population dynamics, many applications involve the use of genetic variants. The advent of next-generation sequencing technologies led to such a flood of data that the daily work of scientists is often more focused on data management than data analysis. This mass of genotyping data poses several computational challenges in terms of storage, search, sharing, analysis, and visualization. While existing tools try to solve these challenges, few of them offer a comprehensive and scalable solution.
resultsGigwa v2 is an easy-to-use, species-agnostic web application for managing and exploring high-density genotyping data. It can handle multiple databases and may be installed on a local computer or deployed as an online data portal. It supports various standard import and export formats, provides advanced filtering options, and offers means to visualize density charts or push selected data into various stand-alone or online tools. It implements 2 standard RESTful application programming interfaces, GA4GH, which is health-oriented, and BrAPI, which is breeding-oriented, thus offering wide possibilities of interaction with third-party applications. The project home page provides a list of live instances allowing users to test the system on public data (or reasonably sized user-provided data).
conclusionsThis new version of Gigwa provides a more intuitive and more powerful way to explore large amounts of genotyping data by offering a scalable solution to search for genotype patterns, functional annotations, or more complex filtering. Furthermore, its user-friendliness and interoperability make it widely accessible to the life science community.
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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.