u-Genome: a database on genome design in unicellular genomes.
Unicellular eukaryotes were among the first ones to be selected for complete genome sequencing because of the small size of their genomes and their interactions with humans and a broad range of animals and plants. Currently, ten completely sequenced unicellular genome sequences have been publicly released and as the number of available unicellular genomes increases, comparative genomics analysis within this group of organisms becomes more and more instructive. However, such an analysis is difficult to carry out without a suitable platform gathering not only the original annotations but also relevant information available in public databases or obtained by applying common bioinformatics methods. With the aim of solving these difficulties, we have developed a web-accessible database named u-Genome, the unicellular genome design database. The database is unique in featuring three datasets namely (1) orthologous proteins (2) paralogous proteins and (3) statistical distributions on exons, introns, intergenic DNA and correlations between them. A tool, Uniview, designed to visualize the gene structures for individual genes in the genome is also integrated. This database is of importance in understanding unicellular genome design and architecture and evolution related studies. The database is available through a web interface at http://sege.ntu.edu.sg/wester/ugenome.
Sakharkar
Kishore Ramaji
KR
National University Medical Institutes, Yong Loo Lin School of Medicine, National University of Singapore, Singapore.
Chaturvedi
Iti
I
Chow
Vincent T K
VT
Kwoh
Chee Keong
CK
Kangueane
Pandjassarame
P
Sakharkar
Meena Kishore
MK
D000818:Animals; D019295:Computational Biology; D030541:Databases, Genetic; D005057:Eukaryotic Cells; D016678:Genome; D023281:Genomics / Q000706:statistics & numerical data*; D020407:Internet