Evola : Ortholog database of all human genes in H-InvDB with manual curation of phylogenetic trees
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概要
- 論文の詳細を見る
Orthologs are genes in different species that evolved from a common ancestral gene by speciation.Currently, with the rapid growth of transcriptomedata of various species, more reliable orthology information is prerequisite for further studies. However, detection of orthologs could be erroneous if pairwise distance-based methods, such as reciprocal BLAST searches, are utilized. Thus, as a sub-database of H-InvDB, an integrated database of annotated human genes (http://h-invitational.jp/), we constructed a fully curated database of evolutionary features of human genes, called ‘Evola’. In the process of the ortholog detection, computational analysis based on conserved genome synteny and transcript sequencesimilarity was followed by manual curation byresearchers examining phylogenetic trees. In total,18 968 human genes have orthologs among 11 vertebrates (chimpanzee, mouse, cow, chicken, zebrafish, etc.), either computationally detected or manually curated orthologs. Evola provides amino acid sequence alignments and phylogenetic trees of orthologs and homologs. In ‘dN/dS view’, natural selection on genes can be analyzed between human and other species. In ‘Locus maps’, all transcript variants and their exon/intron structures can be compared among orthologous gene loci. We expect the Evola to serve as a comprehensive and reliable database to be utilized in comparative analyses for obtaining new knowledge about human genes. Evola is available at http://www.h-invitational.jp/ evola/.
- Oxford University Pressの論文
著者
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Suzuki Yoichi
Department Of Medical Genetics Tohoku University School Of Medicine
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Sakata Yoshiyuki
Department Of Medical Genetics Tohoku University School Of Medicine
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Suzuki Y
Department Of Medical Genetics Tohoku University School Of Medicine
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SUZUKI Yasuyo
Department of Clinical Genetics, Medical Institute of Bioregulation, Kyushu University
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Hanada Kouichi
Departoment Of Neurology And Geriatrics Kagoshima University Graduate School Of Medical And Dental S
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Hashimoto Katsuyuki
Division Of Genetic Resources National Institute Of Infectious Diseases
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