title: A new database (GCD) on genome composition for eukaryote and prokaryote genome sequences and their initial analyses.
abstract: Eukaryote genomes contain many noncoding regions, and they are quite complex. To understand these complexities, we constructed a database, Genome Composition Database, for the whole genome composition statistics for 101 eukaryote genome data, as well as more than 1,000 prokaryote genomes. Frequencies of all possible one to ten oligonucleotides were counted for each genome, and these observed values were compared with expected values computed under observed oligonucleotide frequencies of length 1-4. Deviations from expected values were much larger for eukaryotes than prokaryotes, except for fungal genomes. Mammalian genomes showed the largest deviation among animals. The results of comparison are available online at http://esper.lab.nig.ac.jp/genome-composition-database/.
authors.affiliation: Division of Population Genetics, National Institute of Genetics, Mishima, Japan.
authors.forename: Kirill
authors.initials: K
authors.lastname: Kryukov
authors.forename: Kenta
authors.initials: K
authors.lastname: Sumiyama
authors.forename: Kazuho
authors.initials: K
authors.lastname: Ikeo
authors.forename: Takashi
authors.initials: T
authors.lastname: Gojobori
authors.forename: Naruya
authors.initials: N
authors.lastname: Saitou
mesh_terms: D000818:Animals; D001105:Archaea / Q000235:genetics*; D001419:Bacteria / Q000235:genetics*; D030541:Databases, Genetic; D056890:Eukaryota / Q000235:genetics*; D019143:Evolution, Molecular; D005658:Fungi / Q000235:genetics*; D016678:Genome; D020745:Genome, Archaeal; D016680:Genome, Bacterial; D016681:Genome, Fungal; D006801:Humans; D017422:Sequence Analysis, DNA