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

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

Research output: Contribution to journal › Article › peer-review

Abstract

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.

Original language	English
Pages (from-to)	155-157
Number of pages	3
Journal	Genomics Data
Volume	10
DOIs	https://doi.org/10.1016/j.gdata.2016.11.010
Publication status	Published - Dec 2016

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

abstract = "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.",

author = "Minako Yoshihara and Tetsuya Sato and Daisuke Saito and Osamu Ohara and Takashi Kuramoto and Mikita Suyama",

year = "2016",

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doi = "10.1016/j.gdata.2016.11.010",

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volume = "10",

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journal = "Genomics Data",

issn = "2213-5960",

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T1 - Application of target capture sequencing of exons and conserved non-coding sequences to 20 inbred rat strains

AU - Yoshihara, Minako

AU - Sato, Tetsuya

AU - Saito, Daisuke

AU - Ohara, Osamu

AU - Kuramoto, Takashi

AU - Suyama, Mikita

PY - 2016/12

Y1 - 2016/12

N2 - 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.

AB - 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.

U2 - 10.1016/j.gdata.2016.11.010

DO - 10.1016/j.gdata.2016.11.010

M3 - Article

C2 - 27882299

SN - 2213-5960

VL - 10

SP - 155

EP - 157

JO - Genomics Data

JF - Genomics Data

ER -

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

Abstract

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