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JaponicusDB: rapid deployment of a model organism database for an emerging model species

The fission yeast Schizosaccharomyces japonicus has recently emerged as a powerful system for studying the evolution of essential cellular processes, drawing on similarities as well as key differences between S. japonicus and the related, well-established model Schizosaccharomyces pombe. We have dep...

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Autores principales: Rutherford, Kim M, Harris, Midori A, Oliferenko, Snezhana, Wood, Valerie
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9209809/
https://www.ncbi.nlm.nih.gov/pubmed/35380656
http://dx.doi.org/10.1093/genetics/iyab223
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author Rutherford, Kim M
Harris, Midori A
Oliferenko, Snezhana
Wood, Valerie
author_facet Rutherford, Kim M
Harris, Midori A
Oliferenko, Snezhana
Wood, Valerie
author_sort Rutherford, Kim M
collection PubMed
description The fission yeast Schizosaccharomyces japonicus has recently emerged as a powerful system for studying the evolution of essential cellular processes, drawing on similarities as well as key differences between S. japonicus and the related, well-established model Schizosaccharomyces pombe. We have deployed the open-source, modular code and tools originally developed for PomBase, the S. pombe model organism database (MOD), to create JaponicusDB (www.japonicusdb.org), a new MOD dedicated to S. japonicus. By providing a central resource with ready access to a growing body of experimental data, ontology-based curation, seamless browsing and querying, and the ability to integrate new data with existing knowledge, JaponicusDB supports fission yeast biologists to a far greater extent than any other source of S. japonicus data. JaponicusDB thus enables S. japonicus researchers to realize the full potential of studying a newly emerging model species and illustrates the widely applicable power and utility of harnessing reusable PomBase code to build a comprehensive, community-maintainable repository of species-relevant knowledge.
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spelling pubmed-92098092022-06-21 JaponicusDB: rapid deployment of a model organism database for an emerging model species Rutherford, Kim M Harris, Midori A Oliferenko, Snezhana Wood, Valerie Genetics Knowledgebase and Database Resources The fission yeast Schizosaccharomyces japonicus has recently emerged as a powerful system for studying the evolution of essential cellular processes, drawing on similarities as well as key differences between S. japonicus and the related, well-established model Schizosaccharomyces pombe. We have deployed the open-source, modular code and tools originally developed for PomBase, the S. pombe model organism database (MOD), to create JaponicusDB (www.japonicusdb.org), a new MOD dedicated to S. japonicus. By providing a central resource with ready access to a growing body of experimental data, ontology-based curation, seamless browsing and querying, and the ability to integrate new data with existing knowledge, JaponicusDB supports fission yeast biologists to a far greater extent than any other source of S. japonicus data. JaponicusDB thus enables S. japonicus researchers to realize the full potential of studying a newly emerging model species and illustrates the widely applicable power and utility of harnessing reusable PomBase code to build a comprehensive, community-maintainable repository of species-relevant knowledge. Oxford University Press 2021-12-23 /pmc/articles/PMC9209809/ /pubmed/35380656 http://dx.doi.org/10.1093/genetics/iyab223 Text en © The Author(s) 2021. Published by Oxford University Press on behalf of Genetics Society of America. 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 Knowledgebase and Database Resources
Rutherford, Kim M
Harris, Midori A
Oliferenko, Snezhana
Wood, Valerie
JaponicusDB: rapid deployment of a model organism database for an emerging model species
title JaponicusDB: rapid deployment of a model organism database for an emerging model species
title_full JaponicusDB: rapid deployment of a model organism database for an emerging model species
title_fullStr JaponicusDB: rapid deployment of a model organism database for an emerging model species
title_full_unstemmed JaponicusDB: rapid deployment of a model organism database for an emerging model species
title_short JaponicusDB: rapid deployment of a model organism database for an emerging model species
title_sort japonicusdb: rapid deployment of a model organism database for an emerging model species
topic Knowledgebase and Database Resources
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9209809/
https://www.ncbi.nlm.nih.gov/pubmed/35380656
http://dx.doi.org/10.1093/genetics/iyab223
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