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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...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2021
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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. |
format | Online Article Text |
id | pubmed-8728238 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
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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