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Hymenoptera Genome Database: new genomes and annotation datasets for improved go enrichment and orthologue analyses

We report an update of the Hymenoptera Genome Database (HGD; http://HymenopteraGenome.org), a genomic database of hymenopteran insect species. The number of species represented in HGD has nearly tripled, with fifty-eight hymenopteran species, including twenty bees, twenty-three ants, eleven wasps an...

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Autores principales: Walsh, Amy T, Triant, Deborah A, Le Tourneau, Justin J, Shamimuzzaman, Md, Elsik, Christine G
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8728238/
https://www.ncbi.nlm.nih.gov/pubmed/34747465
http://dx.doi.org/10.1093/nar/gkab1018
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author Walsh, Amy T
Triant, Deborah A
Le Tourneau, Justin J
Shamimuzzaman, Md
Elsik, Christine G
author_facet Walsh, Amy T
Triant, Deborah A
Le Tourneau, Justin J
Shamimuzzaman, Md
Elsik, Christine G
author_sort Walsh, Amy T
collection PubMed
description We report an update of the Hymenoptera Genome Database (HGD; http://HymenopteraGenome.org), a genomic database of hymenopteran insect species. The number of species represented in HGD has nearly tripled, with fifty-eight hymenopteran species, including twenty bees, twenty-three ants, eleven wasps and four sawflies. With a reorganized website, HGD continues to provide the HymenopteraMine genomic data mining warehouse and JBrowse/Apollo genome browsers integrated with BLAST. We have computed Gene Ontology (GO) annotations for all species, greatly enhancing the GO annotation data gathered from UniProt with more than a ten-fold increase in the number of GO-annotated genes. We have also generated orthology datasets that encompass all HGD species and provide orthologue clusters for fourteen taxonomic groups. The new GO annotation and orthology data are available for searching in HymenopteraMine, and as bulk file downloads.
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spelling pubmed-87282382022-01-05 Hymenoptera Genome Database: new genomes and annotation datasets for improved go enrichment and orthologue analyses Walsh, Amy T Triant, Deborah A Le Tourneau, Justin J Shamimuzzaman, Md Elsik, Christine G Nucleic Acids Res Database Issue We report an update of the Hymenoptera Genome Database (HGD; http://HymenopteraGenome.org), a genomic database of hymenopteran insect species. The number of species represented in HGD has nearly tripled, with fifty-eight hymenopteran species, including twenty bees, twenty-three ants, eleven wasps and four sawflies. With a reorganized website, HGD continues to provide the HymenopteraMine genomic data mining warehouse and JBrowse/Apollo genome browsers integrated with BLAST. We have computed Gene Ontology (GO) annotations for all species, greatly enhancing the GO annotation data gathered from UniProt with more than a ten-fold increase in the number of GO-annotated genes. We have also generated orthology datasets that encompass all HGD species and provide orthologue clusters for fourteen taxonomic groups. The new GO annotation and orthology data are available for searching in HymenopteraMine, and as bulk file downloads. Oxford University Press 2021-11-08 /pmc/articles/PMC8728238/ /pubmed/34747465 http://dx.doi.org/10.1093/nar/gkab1018 Text en © The Author(s) 2021. Published by Oxford University Press on behalf of Nucleic Acids Research. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Database Issue
Walsh, Amy T
Triant, Deborah A
Le Tourneau, Justin J
Shamimuzzaman, Md
Elsik, Christine G
Hymenoptera Genome Database: new genomes and annotation datasets for improved go enrichment and orthologue analyses
title Hymenoptera Genome Database: new genomes and annotation datasets for improved go enrichment and orthologue analyses
title_full Hymenoptera Genome Database: new genomes and annotation datasets for improved go enrichment and orthologue analyses
title_fullStr Hymenoptera Genome Database: new genomes and annotation datasets for improved go enrichment and orthologue analyses
title_full_unstemmed Hymenoptera Genome Database: new genomes and annotation datasets for improved go enrichment and orthologue analyses
title_short Hymenoptera Genome Database: new genomes and annotation datasets for improved go enrichment and orthologue analyses
title_sort hymenoptera genome database: new genomes and annotation datasets for improved go enrichment and orthologue analyses
topic Database Issue
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8728238/
https://www.ncbi.nlm.nih.gov/pubmed/34747465
http://dx.doi.org/10.1093/nar/gkab1018
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