Application of target capture sequencing of exons and conserved non-coding sequences to 20 inbred rat strains

Minako Yoshihara; Tetsuya Sato; Daisuke Saito; Osamu Ohara; Takashi Kuramoto; Mikita Suyama

doi:10.1016/j.gdata.2016.11.010

Genomics Data (Dec 2016)

Application of target capture sequencing of exons and conserved non-coding sequences to 20 inbred rat strains

Minako Yoshihara,
Tetsuya Sato,
Daisuke Saito,
Osamu Ohara,
Takashi Kuramoto,
Mikita Suyama

Affiliations

Minako Yoshihara: Medical Institute of Bioregulation, Kyushu University, Maidashi 3-1-1, Higashi-ku, Fukuoka 812-8582, Japan
Tetsuya Sato: Medical Institute of Bioregulation, Kyushu University, Maidashi 3-1-1, Higashi-ku, Fukuoka 812-8582, Japan
Daisuke Saito: Medical Institute of Bioregulation, Kyushu University, Maidashi 3-1-1, Higashi-ku, Fukuoka 812-8582, Japan
Osamu Ohara: Department of Technology Development, Kazusa DNA Research Institute, Kisarazu, Chiba 292-0818, Japan
Takashi Kuramoto: Institute of Laboratory Animals, Graduate School of Medicine, Kyoto University, Kyoto 606-8501, Japan
Mikita Suyama: Medical Institute of Bioregulation, Kyushu University, Maidashi 3-1-1, Higashi-ku, Fukuoka 812-8582, Japan

DOI: https://doi.org/10.1016/j.gdata.2016.11.010
Journal volume & issue: Vol. 10, no. C
pp. 155 – 157

Abstract

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We report sequence data obtained by our recently devised target capture method TargetEC applied to 20 inbred rat strains. This method encompasses not only all annotated exons but also highly conserved non-coding sequences shared among vertebrates. The total length of the target regions covers 146.8 Mb. On an average, we obtained 31.7× depth of target coverage and identified 154,330 SNVs and 24,368 INDELs for each strain. This corresponds to 470,037 unique SNVs and 68,652 unique INDELs among the 20 strains. The sequence data can be accessed at DDBJ/EMBL/GenBank under accession number PRJDB4648, and the identified variants have been deposited at http://bioinfo.sls.kyushu-u.ac.jp/rat_target_capture/20_strains.vcf.gz.

Published in Genomics Data

ISSN: 2213-5960 (Online)
Publisher: Elsevier
Country of publisher: United States
LCC subjects: Science: Biology (General): Genetics
Website: http://www.journals.elsevier.com/genomics-data/

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