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Protocols

Evola specifications

Information


Unique identifier OMICS_21037
Name Evola
Alternative name Database of Evolutionary Features of Human Genes
Restrictions to use Academic or non-commercial use
Community driven No
Data access File download, Browse
User data submission Not allowed
Version 7.5
Maintained Yes

Maintainer


  • person_outline Ryuichi Sakate

Additional information


http://www.h-invitational.jp/hinv/help/help_Evola.html

Publication for Database of Evolutionary Features of Human Genes

Evola citations

 (7)
library_books

A novel rare variant R292H in RTN4R affects growth cone formation and possibly contributes to schizophrenia susceptibility

2017
PMCID: 5611737
PMID: 28892071
DOI: 10.1038/tp.2017.170

[…] unctional domain or motif of the protein was based on the Human Protein Reference Database (http://www.hprd.org/indexhtml) and existing literature; (2) evolutionary conservation was assessed with the Evola var. 7.5 (http://www.h-invitational.jp/evola/search.html); and (3) prediction of deleterious effects was performed by in silico analytic methods (Polyphen-2[ref. ](http://genetics.bwh.harvard.ed […]

library_books

Identification of a Novel De Novo Variant in the PAX3 Gene in Waardenburg Syndrome by Diagnostic Exome Sequencing: The First Molecular Diagnosis in South Korea

2015
PMCID: 4390707
PMID: 25932447
DOI: 10.3343/alm.2015.35.3.362

[…] lgorithms were used to predict the effects of the missense variants on protein function. Nucleotide conservation between mammalian species was evaluated by using the Evolutionary Annotation Database (Evola version 7.5, http://www.h-invitational.jp/evola/). The candidate variant identified by DES was confirmed by using conventional Sanger sequencing.A mean coverage of 105.49× was achieved, and 95.2 […]

library_books

Profiling and annotation of human kidney glomerulus proteome

2013
Proteome Sci
PMCID: 3639854
PMID: 23566277
DOI: 10.1186/1477-5956-11-13

[…] an ortholog table of human and mouse genes and converted the mouse gene symbols to corresponding human ortholog gene symbols. The ortholog table of human and mouse genes was constructed based on an “Evola ortholog list” (version 7.5) in the Human-Invitational Database (H-Inv DB) []. To construct an Evola ortholog list in the H-Inv DB, a list of human genes was created via the mapping of all human […]

library_books

Revealing Mammalian Evolutionary Relationships by Comparative Analysis of Gene Clusters

2012
Genome Biol Evol
PMCID: 3342878
PMID: 22454131
DOI: 10.1093/gbe/evs032

[…] AST (), INPARANOID (), eggNOG (), and OrthoDB (). The other is to construct phylogenetic trees, as in HOGENOM (), PhyOP (), OrthologID (), TreeFam (), LOFT (), SYNERGY (), PhylomeDB (), Mestortho (), Evola (), PHOG (), EnsemblCompara (), and PANTHER ().These methods usually assign orthologs using genomic content as a guide (e.g., ; ; ) and thus are most similar to our N-orthology paradigm, at leas […]

call_split

Sexy gene conversions: locating gene conversions on the X chromosome

2009
Nucleic Acids Res
PMCID: 2724270
PMID: 19487239
DOI: 10.1093/nar/gkp421
call_split See protocol

[…] ethod of establishing orthology is by examining genes that are in the same subfamily in another species (this is limited to mouse and rat genes). The second method utilized listings of orthologs from Evola (), HomoloGene (), and Ensembl (), which allowed us to include chimpanzee and rhesus monkey genes. The third method was through selection of genes that have the same name as those original human […]

call_split

Low conservation and species specific evolution of alternative splicing in humans and mice: comparative genomics analysis using well annotated full length cDNAs

2008
Nucleic Acids Res
PMCID: 2582632
PMID: 18838389
DOI: 10.1093/nar/gkn677
call_split See protocol

[…] nt were removed using reciprocal best hits. This method was originally used to construct two satellite databases of H-InvDB: the comparative genomics database G-compass () and the orthologue database Evola (). […]

Citations

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Evola institution(s)
Integrated Database Group, Japan Biological Information Research Center, Japan Biological Informatics Consortium, Japan; Government & Public Corporation Information Systems, Hitachi, Co., Ltd, Japan; Integrated Database Group, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, Tokyo, Japan; Graduate School of Information Science and Technology, Hokkaido University, Hokkaido, Japan; C’s Lab Co., Ltd., Hokkaido, Japan; DYNACOM Co., Ltd, Chiba, Japan; BioResource Center, RIKEN, Ibaraki, Japan; Institute of Bioinformatics, University of Muenster, Muenster, Germany; Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Shizuoka, Japan; Department of Biomedical Resources, National Institute of Biomedical Innovation, Osaka, Japan; International Research and Educational Institute for Integrated Medical Sciences, Tokyo Women’s Medical University, Tokyo, Japan; Kagawa University, Kagawa, Japan; Department of Population Genetics, National Institute of Genetics, Shizuoka, Japan; Division of Genome and Biodiversity Research, National Institute of Agrobiological Sciences, Ibaraki, Japan
Evola funding source(s)
Supported by the Ministry of Economy, Trade and Industry of Japan (METI) and the Japan Biological Informatics Consortium (JBIC).

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