FungiDB: an integrated functional genomics database for fungi

FungiDB (http://FungiDB.org) is a functional genomic resource for pan-fungal genomes that was developed in partnership with the Eukaryotic Pathogen Bioinformatic resource center (http://EuPathDB.org). FungiDB uses the same infrastructure and user interface as EuPathDB, which allows for sophisticated...

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Main Authors:	Stajich, Jason E., Harris, Todd, Brunk, Brian P., Brestelli, John, Fischer, Steve, Harb, Omar S., Kissinger, Jessica C., Li, Wei, Nayak, Vishal, Pinney, Deborah F., Stoeckert, Chris J., Roos, David S.
Format:	Online
Language:	English
Published:	Oxford University Press 2012
Online Access:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245123/

id	pubmed-3245123
recordtype	oai_dc
spelling	pubmed-32451232012-01-10 FungiDB: an integrated functional genomics database for fungi Stajich, Jason E. Harris, Todd Brunk, Brian P. Brestelli, John Fischer, Steve Harb, Omar S. Kissinger, Jessica C. Li, Wei Nayak, Vishal Pinney, Deborah F. Stoeckert, Chris J. Roos, David S. Articles FungiDB (http://FungiDB.org) is a functional genomic resource for pan-fungal genomes that was developed in partnership with the Eukaryotic Pathogen Bioinformatic resource center (http://EuPathDB.org). FungiDB uses the same infrastructure and user interface as EuPathDB, which allows for sophisticated and integrated searches to be performed using an intuitive graphical system. The current release of FungiDB contains genome sequence and annotation from 18 species spanning several fungal classes, including the Ascomycota classes, Eurotiomycetes, Sordariomycetes, Saccharomycetes and the Basidiomycota orders, Pucciniomycetes and Tremellomycetes, and the basal ‘Zygomycete’ lineage Mucormycotina. Additionally, FungiDB contains cell cycle microarray data, hyphal growth RNA-sequence data and yeast two hybrid interaction data. The underlying genomic sequence and annotation combined with functional data, additional data from the FungiDB standard analysis pipeline and the ability to leverage orthology provides a powerful resource for in silico experimentation. Oxford University Press 2012-01 2011-11-07 /pmc/articles/PMC3245123/ /pubmed/22064857 http://dx.doi.org/10.1093/nar/gkr918 Text en © The Author(s) 2011. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/3.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
repository_type	Open Access Journal
institution_category	Foreign Institution
institution	US National Center for Biotechnology Information
building	NCBI PubMed
collection	Online Access
language	English
format	Online
author	Stajich, Jason E. Harris, Todd Brunk, Brian P. Brestelli, John Fischer, Steve Harb, Omar S. Kissinger, Jessica C. Li, Wei Nayak, Vishal Pinney, Deborah F. Stoeckert, Chris J. Roos, David S.
spellingShingle	Stajich, Jason E. Harris, Todd Brunk, Brian P. Brestelli, John Fischer, Steve Harb, Omar S. Kissinger, Jessica C. Li, Wei Nayak, Vishal Pinney, Deborah F. Stoeckert, Chris J. Roos, David S. FungiDB: an integrated functional genomics database for fungi
author_facet	Stajich, Jason E. Harris, Todd Brunk, Brian P. Brestelli, John Fischer, Steve Harb, Omar S. Kissinger, Jessica C. Li, Wei Nayak, Vishal Pinney, Deborah F. Stoeckert, Chris J. Roos, David S.
author_sort	Stajich, Jason E.
title	FungiDB: an integrated functional genomics database for fungi
title_short	FungiDB: an integrated functional genomics database for fungi
title_full	FungiDB: an integrated functional genomics database for fungi
title_fullStr	FungiDB: an integrated functional genomics database for fungi
title_full_unstemmed	FungiDB: an integrated functional genomics database for fungi
title_sort	fungidb: an integrated functional genomics database for fungi
description	FungiDB (http://FungiDB.org) is a functional genomic resource for pan-fungal genomes that was developed in partnership with the Eukaryotic Pathogen Bioinformatic resource center (http://EuPathDB.org). FungiDB uses the same infrastructure and user interface as EuPathDB, which allows for sophisticated and integrated searches to be performed using an intuitive graphical system. The current release of FungiDB contains genome sequence and annotation from 18 species spanning several fungal classes, including the Ascomycota classes, Eurotiomycetes, Sordariomycetes, Saccharomycetes and the Basidiomycota orders, Pucciniomycetes and Tremellomycetes, and the basal ‘Zygomycete’ lineage Mucormycotina. Additionally, FungiDB contains cell cycle microarray data, hyphal growth RNA-sequence data and yeast two hybrid interaction data. The underlying genomic sequence and annotation combined with functional data, additional data from the FungiDB standard analysis pipeline and the ability to leverage orthology provides a powerful resource for in silico experimentation.
publisher	Oxford University Press
publishDate	2012
url	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245123/
_version_	1611496254609555456

FungiDB: an integrated functional genomics database for fungi

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