Database construction for Vietnamese catfish genome

Authors

  • Nguyen Hoang Vu Viện Nghiên cứu hệ gen, Viện Hàn lâm Khoa học và Công nghệ Việt Nam
  • Nguyen Thanh Phuong Viện Nghiên cứu hệ gen, Viện Hàn lâm Khoa học và Công nghệ Việt Nam
  • Le Thi Nguyen Binh Viện Nghiên cứu hệ gen, Viện Hàn lâm Khoa học và Công nghệ Việt Nam
  • Kim Thi Phuong Oanh Viện Nghiên cứu hệ gen, Viện Hàn lâm Khoa học và Công nghệ Việt Nam

DOI:

https://doi.org/10.15625/1811-4989/17/3/13603

Keywords:

bioinformatics, database, genome, JBrowse, Pangasianodon hypophthalmus

Abstract

Molecular biological research plays an important role in aquaculture, contributes to the improvement of
broodstocks efficiently. Recently, with the development of next-generation sequencing (NGS) technology,
genomic studies have been rapidly increased, in which data organisation and management hold a crucial
position. After obtaining NGS sequencing data of Vietnamese catfish (Pangasianodon hypophthalmus), we
have analysed and annotated the catfish genome, from which we have constructed a database for efficient
usage. The database is built upon open source software following a three-layer model (interface, Web service
and database) with a convenient interface through Web browsers. Users can look up sequence and annotation
data as well as visualize sequences through the Jbrowse genome browser. This database is important resource
for functional genome and genetic improvement of the catfish.

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Published

2020-11-28

Issue

Section

Articles