An update of KAIKObase, the silkworm genome database

KAIKObase was established in 2009 as the genome database of the domesticated silkworm Bombyx mori. It provides several gene sets and genetic maps as well as genome annotation obtained from the sequencing project of the International Silkworm Genome Consortium in 2008. KAIKObase has been used widely...

Descripción completa

Detalles Bibliográficos
Autores principales: Yang, Ching-chia, Yokoi, Kakeru, Yamamoto, Kimiko, Jouraku, Akiya
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2021
Materias:
Database Update
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7918157/
https://www.ncbi.nlm.nih.gov/pubmed/33645624
http://dx.doi.org/10.1093/database/baaa099
_version_ 1783657864473083904
author Yang, Ching-chia
Yokoi, Kakeru
Yamamoto, Kimiko
Jouraku, Akiya
author_facet Yang, Ching-chia
Yokoi, Kakeru
Yamamoto, Kimiko
Jouraku, Akiya
author_sort Yang, Ching-chia
collection PubMed
description KAIKObase was established in 2009 as the genome database of the domesticated silkworm Bombyx mori. It provides several gene sets and genetic maps as well as genome annotation obtained from the sequencing project of the International Silkworm Genome Consortium in 2008. KAIKObase has been used widely for silkworm and insect studies even though there are some erroneous predicted genes due to misassembly and gaps in the genome. In 2019, we released a new silkworm genome assembly, showing improvements in gap closure and covering more and longer gene models. Therefore, there is a need to include new genome and new gene models to KAIKObase. In this article, we present the updated contents of KAIKObase and the methods to generate, integrate and analyze the data sets. Database URL: https://kaikobase.dna.affrc.go.jp
format Online
Article
Text
id pubmed-7918157
institution National Center for Biotechnology Information
language English
publishDate 2021
publisher Oxford University Press
record_format MEDLINE/PubMed
spelling pubmed-79181572021-03-04 An update of KAIKObase, the silkworm genome database Yang, Ching-chia Yokoi, Kakeru Yamamoto, Kimiko Jouraku, Akiya Database (Oxford) Database Update KAIKObase was established in 2009 as the genome database of the domesticated silkworm Bombyx mori. It provides several gene sets and genetic maps as well as genome annotation obtained from the sequencing project of the International Silkworm Genome Consortium in 2008. KAIKObase has been used widely for silkworm and insect studies even though there are some erroneous predicted genes due to misassembly and gaps in the genome. In 2019, we released a new silkworm genome assembly, showing improvements in gap closure and covering more and longer gene models. Therefore, there is a need to include new genome and new gene models to KAIKObase. In this article, we present the updated contents of KAIKObase and the methods to generate, integrate and analyze the data sets. Database URL: https://kaikobase.dna.affrc.go.jp Oxford University Press 2021-02-27 /pmc/articles/PMC7918157/ /pubmed/33645624 http://dx.doi.org/10.1093/database/baaa099 Text en © The Author(s) 2021. Published by Oxford University Press. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://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 Update
Yang, Ching-chia
Yokoi, Kakeru
Yamamoto, Kimiko
Jouraku, Akiya
An update of KAIKObase, the silkworm genome database
title An update of KAIKObase, the silkworm genome database
title_full An update of KAIKObase, the silkworm genome database
title_fullStr An update of KAIKObase, the silkworm genome database
title_full_unstemmed An update of KAIKObase, the silkworm genome database
title_short An update of KAIKObase, the silkworm genome database
title_sort update of kaikobase, the silkworm genome database
topic Database Update
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7918157/
https://www.ncbi.nlm.nih.gov/pubmed/33645624
http://dx.doi.org/10.1093/database/baaa099
work_keys_str_mv AT yangchingchia anupdateofkaikobasethesilkwormgenomedatabase
AT yokoikakeru anupdateofkaikobasethesilkwormgenomedatabase
AT yamamotokimiko anupdateofkaikobasethesilkwormgenomedatabase
AT jourakuakiya anupdateofkaikobasethesilkwormgenomedatabase
AT yangchingchia updateofkaikobasethesilkwormgenomedatabase
AT yokoikakeru updateofkaikobasethesilkwormgenomedatabase
AT yamamotokimiko updateofkaikobasethesilkwormgenomedatabase
AT jourakuakiya updateofkaikobasethesilkwormgenomedatabase

Ejemplares similares