Thoroughbred Horse Single Nucleotide Polymorphism and Expression Database: HSDB
2014
Joon-Ho Lee | Taeheon Lee | Hak-Kyo Lee | Byung-Wook Cho | Dong-Hyun Shin | Kyoung-Tag Do | Samsun Sung | Woori Kwak | Hyeon Jeong Kim | Heebal Kim | Seoae Cho | Kyung-Do Park
Genetics is important for breeding and selection of horses but there is a lack of well-established horse-related browsers or databases. In order to better understand horses, more variants and other integrated information are needed. Thus, we construct a horse genomic variants database including expression and other information. Horse Single Nucleotide Polymorphism and Expression Database (HSDB) (http://snugenome2.snu.ac.kr/HSDB) provides the number of unexplored genomic variants still remaining to be identified in the horse genome including rare variants by using population genome sequences of eighteen horses and RNA-seq of four horses. The identified single nucleotide polymorphisms (SNPs) were confirmed by comparing them with SNP chip data and variants of RNA-seq, which showed a concordance level of 99.02% and 96.6%, respectively. Moreover, the database provides the genomic variants with their corresponding transcriptional profiles from the same individuals to help understand the functional aspects of these variants. The database will contribute to genetic improvement and breeding strategies of Thoroughbreds.
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