VEuPathDB: the eukaryotic pathogen, vector and host bioinformatics resource center in 2023.

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Alvarez-Jarreta, Jorge, Amos, Beatrice, Aurrecoechea, Cristina, Bah, Saikou, Barba, Matthieu, Barreto, Ana, Basenko, Evelina Y ORCID: 0000-0001-8611-5447, Belnap, Robert, Blevins, Ann, Böhme, Ulrike et al (show 51 more authors) , Brestelli, John, Brown, Stuart, Callan, Danielle, Campbell, Lahcen I, Christophides, George K, Crouch, Kathryn, Davison, Helen R, DeBarry, Jeremy D, Demko, Richard, Doherty, Ryan, Duan, Yikun, Dundore, Walter, Dyer, Sarah, Falke, Dave, Fischer, Steve, Gajria, Bindu, Galdi, Daniel, Giraldo-Calderón, Gloria I, Harb, Omar S, Harper, Elizabeth, Helb, Danica, Howington, Connor, Hu, Sufen, Humphrey, Jay, Iodice, John, Jones, Andrew ORCID: 0000-0001-6118-9327, Judkins, John, Kelly, Sarah A, Kissinger, Jessica C, Kittur, Nupur, Kwon, Dae Kun, Lamoureux, Kristopher, Li, Wei, Lodha, Disha, MacCallum, Robert M, Maslen, Gareth, McDowell, Mary Ann, Myers, Jeremy, Nural, Mustafa Veysi, Roos, David S, Rund, Samuel SC, Shanmugasundram, Achchuthan, Sitnik, Vasily, Spruill, Drew, Starns, David ORCID: 0000-0001-6583-9067, Tomko, Sheena Shah, Wang, Haiming, Warrenfeltz, Susanne, Wieck, Robert, Wilkinson, Paul A ORCID: 0000-0002-8836-5439 and Zheng, Jie (2023) VEuPathDB: the eukaryotic pathogen, vector and host bioinformatics resource center in 2023. Nucleic acids research, 52 (D1). gkad1003-gkad1003.

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Abstract

The Eukaryotic Pathogen, Vector and Host Informatics Resource (VEuPathDB, https://veupathdb.org) is a Bioinformatics Resource Center funded by the National Institutes of Health with additional funding from the Wellcome Trust. VEuPathDB supports >600 organisms that comprise invertebrate vectors, eukaryotic pathogens (protists and fungi) and relevant free-living or non-pathogenic species or hosts. Since 2004, VEuPathDB has analyzed omics data from the public domain using contemporary bioinformatic workflows, including orthology predictions via OrthoMCL, and integrated the analysis results with analysis tools, visualizations, and advanced search capabilities. The unique data mining platform coupled with >3000 pre-analyzed data sets facilitates the exploration of pertinent omics data in support of hypothesis driven research. Comparisons are easily made across data sets, data types and organisms. A Galaxy workspace offers the opportunity for the analysis of private large-scale datasets and for porting to VEuPathDB for comparisons with integrated data. The MapVEu tool provides a platform for exploration of spatially resolved data such as vector surveillance and insecticide resistance monitoring. To address the growing body of omics data and advances in laboratory techniques, VEuPathDB has added several new data types, searches and features, improved the Galaxy workspace environment, redesigned the MapVEu interface and updated the infrastructure to accommodate these changes.

Item Type:	Article
Uncontrolled Keywords:	Animals, Invertebrates, Computational Biology, Databases, Factual, Eukaryota
Divisions:	Faculty of Health and Life Sciences Faculty of Health and Life Sciences > Institute of Systems, Molecular and Integrative Biology
Depositing User:	Symplectic Admin
Date Deposited:	20 Nov 2023 08:46
Last Modified:	27 Jan 2024 14:27
DOI:	10.1093/nar/gkad1003
Related URLs:	Author Publisher
URI:	https://livrepository.liverpool.ac.uk/id/eprint/3176892