GeVab: Genome Variation Analysis Browsing Server

GeVab is a genome browser for individual diploid genome sequence data. GeVab is meant to provide browsing capability for SNP, SV(structural variation), and indels. As the first genome data, KOREF is used that was publicized in December 2008. GeVab uses NCBI's reference genome to do comparison analyses. Users can find assembled consensus sequences, sequenced short reads, genetic variations, and relationships between genotype and phenotypes.

♠ KOREF is the first Korean genome published in May 26th 2009 (Genome Research). paper

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- Genetic Variation Browser (http://koreagenome.kobic.re.kr/cgi-bin/gbrowse/kgenome)

Genetic variation map shows KOREF genome and variant information on each chromosome. Now, we provide SNP information such as 5-UTR, 3UTR, and CDS regions. The information was analyzed by 1) comparing other individual genome information and 2) integrating the SNP genotype data from the HapMap project. There are previously published genomic information such as Caucasian (Craig Venter and James Watson) and Chinese (YH). In addition, we integrated genetic information from the NCBI database build 36.1 and ENSEMBL database onto our genetic variation map. Utilizing this map, we provide genetic variation and disease-related information which can occur to Koreans caused by genetic variants. The genetic variation map was developed using the GBrowse GMOD (http://www.gmod.org).


- Genome Map Browser (http://koreagenome.kobic.re.kr/pgp/)

This browser enables access to the mapping information by comparing KOREF and NCBI reference genome. Violet bars are anomalous paired-end Illumina reads; green bars are normal read pairs; grey bars are normal paired-end read tracks mapped with Smith Waterman algorithm in MAQ and red bars are singletons (read without mate pair). This browser was developed by Korean BioInformation Center (KOBIC).