ArticleBioinformatics (Oxford, England)2018
G2S: a web-service for annotating genomic variants on 3D protein structures.
Article in Bioinformatics (Oxford, England), 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed, 11 citations in OpenAlex.
- Prediction of protein stability changes upon single-point variant using 3D structure profile.Computational and structural biotechnology journal · 2023Article
- Genome Nexus: A Comprehensive Resource for the Annotation and Interpretation of Genomic Variants in Cancer.JCO clinical cancer informatics · 2022Article
- Conformational Changes of Glutamine 5'-Phosphoribosylpyrophosphate Amidotransferase for Two Substrates Analogue Binding: Insight from Conventional Molecular Dynamics and Accelerated Molecular Dynamics Simulations.Frontiers in chemistry · 2021Article
- MusiteDeep: a deep-learning based webserver for protein post-translational modification site prediction and visualization.Nucleic acids research · 2020Article
- TGPred: a tumor gene prediction webserver for analyzing structural and functional impacts of variants.Journal of molecular cell biology · 2020Article
- PhyreRisk: A Dynamic Web Application to Bridge Genomics, Proteomics and 3D Structural Data to Guide Interpretation of Human Genetic Variants.Journal of molecular biology · 2019Article
- BioJava 5: A community driven open-source bioinformatics library.PLoS computational biology · 2019Article
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
Abstract
Motivation: Accurately mapping and annotating genomic locations on 3D protein structures is a key step in structure-based analysis of genomic variants detected by recent large-scale sequencing efforts. There are several mapping resources currently available, but none of them provides a web API (Application Programming Interface) that supports programmatic access. Results: We present G2S, a real-time web API that provides automated mapping of genomic variants on 3D protein structures. G2S can align genomic locations of variants, protein locations, or protein sequences to protein structures and retrieve the mapped residues from structures. G2S API uses REST-inspired design and it can be used by various clients such as web browsers, command terminals, programming languages and other bioinformatics tools for bringing 3D structures into genomic variant analysis. Availability and implementation: The webserver and source codes are freely available at https://g2s.genomenexus.org. Contact: g2s@genomenexus.org. Supplementary information: Supplementary data are available at Bioinformatics online.
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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.