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FusoBase: an online Fusobacterium comparative genomic analysis platform
Fusobacterium are anaerobic gram-negative bacteria that have been associated with a wide spectrum of human infections and diseases. As the biology of Fusobacterium is still not well understood, comparative genomic analysis on members of this species will provide further insights on their taxonomy, p...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2014
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4141642/ https://www.ncbi.nlm.nih.gov/pubmed/25149689 http://dx.doi.org/10.1093/database/bau082 |
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author | Ang, Mia Yang Heydari, Hamed Jakubovics, Nick S. Mahmud, Mahafizul Imran Dutta, Avirup Wee, Wei Yee Wong, Guat Jah Mutha, Naresh V.R. Tan, Shi Yang Choo, Siew Woh |
author_facet | Ang, Mia Yang Heydari, Hamed Jakubovics, Nick S. Mahmud, Mahafizul Imran Dutta, Avirup Wee, Wei Yee Wong, Guat Jah Mutha, Naresh V.R. Tan, Shi Yang Choo, Siew Woh |
author_sort | Ang, Mia Yang |
collection | PubMed |
description | Fusobacterium are anaerobic gram-negative bacteria that have been associated with a wide spectrum of human infections and diseases. As the biology of Fusobacterium is still not well understood, comparative genomic analysis on members of this species will provide further insights on their taxonomy, phylogeny, pathogenicity and other information that may contribute to better management of infections and diseases. To facilitate the ongoing genomic research on Fusobacterium, a specialized database with easy-to-use analysis tools is necessary. Here we present FusoBase, an online database providing access to genome-wide annotated sequences of Fusobacterium strains as well as bioinformatics tools, to support the expanding scientific community. Using our custom-developed Pairwise Genome Comparison tool, we demonstrate how differences between two user-defined genomes and how insertion of putative prophages can be identified. In addition, Pathogenomics Profiling Tool is capable of clustering predicted genes across Fusobacterium strains and visualizing the results in the form of a heat map with dendrogram. Database URL: http://fusobacterium.um.edu.my. |
format | Online Article Text |
id | pubmed-4141642 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-41416422014-08-28 FusoBase: an online Fusobacterium comparative genomic analysis platform Ang, Mia Yang Heydari, Hamed Jakubovics, Nick S. Mahmud, Mahafizul Imran Dutta, Avirup Wee, Wei Yee Wong, Guat Jah Mutha, Naresh V.R. Tan, Shi Yang Choo, Siew Woh Database (Oxford) Original Article Fusobacterium are anaerobic gram-negative bacteria that have been associated with a wide spectrum of human infections and diseases. As the biology of Fusobacterium is still not well understood, comparative genomic analysis on members of this species will provide further insights on their taxonomy, phylogeny, pathogenicity and other information that may contribute to better management of infections and diseases. To facilitate the ongoing genomic research on Fusobacterium, a specialized database with easy-to-use analysis tools is necessary. Here we present FusoBase, an online database providing access to genome-wide annotated sequences of Fusobacterium strains as well as bioinformatics tools, to support the expanding scientific community. Using our custom-developed Pairwise Genome Comparison tool, we demonstrate how differences between two user-defined genomes and how insertion of putative prophages can be identified. In addition, Pathogenomics Profiling Tool is capable of clustering predicted genes across Fusobacterium strains and visualizing the results in the form of a heat map with dendrogram. Database URL: http://fusobacterium.um.edu.my. Oxford University Press 2014-08-22 /pmc/articles/PMC4141642/ /pubmed/25149689 http://dx.doi.org/10.1093/database/bau082 Text en © The Author(s) 2014. 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 | Original Article Ang, Mia Yang Heydari, Hamed Jakubovics, Nick S. Mahmud, Mahafizul Imran Dutta, Avirup Wee, Wei Yee Wong, Guat Jah Mutha, Naresh V.R. Tan, Shi Yang Choo, Siew Woh FusoBase: an online Fusobacterium comparative genomic analysis platform |
title | FusoBase: an online Fusobacterium comparative genomic analysis platform |
title_full | FusoBase: an online Fusobacterium comparative genomic analysis platform |
title_fullStr | FusoBase: an online Fusobacterium comparative genomic analysis platform |
title_full_unstemmed | FusoBase: an online Fusobacterium comparative genomic analysis platform |
title_short | FusoBase: an online Fusobacterium comparative genomic analysis platform |
title_sort | fusobase: an online fusobacterium comparative genomic analysis platform |
topic | Original Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4141642/ https://www.ncbi.nlm.nih.gov/pubmed/25149689 http://dx.doi.org/10.1093/database/bau082 |
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