CoryneBase: Corynebacterium genomic resources and analysis tools at your fingertips.
Corynebacteria are used for a wide variety of industrial purposes but some species are associated with human diseases. With increasing number of corynebacterial genomes having been sequenced, comparative analysis of these strains may provide better understanding of their biology, phylogeny, virulence and taxonomy that may lead to the discoveries of beneficial industrial strains or contribute to better management of diseases. To facilitate the ongoing research of corynebacteria, a specialized central repository and analysis platform for the corynebacterial research community is needed to host the fast-growing amount of genomic data and facilitate the analysis of these data. Here we present CoryneBase, a genomic database for Corynebacterium with diverse functionality for the analysis of genomes aimed to provide: (1) annotated genome sequences of Corynebacterium where 165,918 coding sequences and 4,180 RNAs can be found in 27 species; (2) access to comprehensive Corynebacterium data through the use of advanced web technologies for interactive web interfaces; and (3) advanced bioinformatic analysis tools consisting of standard BLAST for homology search, VFDB BLAST for sequence homology search against the Virulence Factor Database (VFDB), Pairwise Genome Comparison (PGC) tool for comparative genomic analysis, and a newly designed Pathogenomics Profiling Tool (PathoProT) for comparative pathogenomic analysis. CoryneBase offers the access of a range of Corynebacterium genomic resources as well as analysis tools for comparative genomics and pathogenomics. It is publicly available at http://corynebacterium.um.edu.my/.
Genome Informatics Research Laboratory, HIR Building, University of Malaya, Kuala Lumpur, Malaysia ; Department of Software Engineering, Faculty of Computer Science and Information Technology, University of Malaya, Kuala Lumpur, Malaysia.
Hamed
H
Heydari
Genome Informatics Research Laboratory, HIR Building, University of Malaya, Kuala Lumpur, Malaysia.
Cheuk Chuen
CC
Siow
Genome Informatics Research Laboratory, HIR Building, University of Malaya, Kuala Lumpur, Malaysia.
Mui Fern
MF
Tan
Centre for Oral Health Research, School of Dental Sciences, Newcastle University, Framlington Place, Newcastle upon Tyne, United Kingdom.
Nick S
NS
Jakubovics
Genome Informatics Research Laboratory, HIR Building, University of Malaya, Kuala Lumpur, Malaysia ; Department of Oral Biology and Biomedical Sciences, Faculty of Dentistry, University of Malaya, Kuala Lumpur, Malaysia.
Wei Yee
WY
Wee
Genome Informatics Research Laboratory, HIR Building, University of Malaya, Kuala Lumpur, Malaysia.
Naresh V R
NV
Mutha
Genome Informatics Research Laboratory, HIR Building, University of Malaya, Kuala Lumpur, Malaysia ; Department of Oral Biology and Biomedical Sciences, Faculty of Dentistry, University of Malaya, Kuala Lumpur, Malaysia.
Guat Jah
GJ
Wong
Genome Informatics Research Laboratory, HIR Building, University of Malaya, Kuala Lumpur, Malaysia ; Department of Oral Biology and Biomedical Sciences, Faculty of Dentistry, University of Malaya, Kuala Lumpur, Malaysia.
Mia Yang
MY
Ang
Genome Informatics Research Laboratory, HIR Building, University of Malaya, Kuala Lumpur, Malaysia ; Department of Computer System & Technology, Faculty of Computer Science and Information Technology, University of Malaya, Kuala Lumpur, Malaysia.
Amir Hessam
AH
Yazdi
Genome Informatics Research Laboratory, HIR Building, University of Malaya, Kuala Lumpur, Malaysia ; Department of Oral Biology and Biomedical Sciences, Faculty of Dentistry, University of Malaya, Kuala Lumpur, Malaysia.
Siew Woh
SW
Choo
D003352:Corynebacterium / Q000235:genetics*; D030541:Databases, Genetic; D016680:Genome, Bacterial / Q000235:genetics*; D023281:Genomics / Q000379:methods*; D006801:Humans; D020407:Internet; D057386:Search Engine; D014584:User-Computer Interface