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

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

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 ...

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Main Authors: Yoshihara, Minako, Sato, Tetsuya, Saito, Daisuke, Ohara, Osamu, Kuramoto, Takashi, Suyama, Mikita
Format: Online
Language:English
Published: Elsevier 2016
Online Access:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5114524/
id pubmed-5114524
recordtype oai_dc
spelling pubmed-51145242016-11-23 Application of target capture sequencing of exons and conserved non-coding sequences to 20 inbred rat strains Yoshihara, Minako Sato, Tetsuya Saito, Daisuke Ohara, Osamu Kuramoto, Takashi Suyama, Mikita Data in Brief 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. Elsevier 2016-11-14 /pmc/articles/PMC5114524/ /pubmed/27882299 http://dx.doi.org/10.1016/j.gdata.2016.11.010 Text en © 2016 Stellenbosch University http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
repository_type Open Access Journal
institution_category Foreign Institution
institution US National Center for Biotechnology Information
building NCBI PubMed
collection Online Access
language English
format Online
author Yoshihara, Minako
Sato, Tetsuya
Saito, Daisuke
Ohara, Osamu
Kuramoto, Takashi
Suyama, Mikita
spellingShingle Yoshihara, Minako
Sato, Tetsuya
Saito, Daisuke
Ohara, Osamu
Kuramoto, Takashi
Suyama, Mikita
Application of target capture sequencing of exons and conserved non-coding sequences to 20 inbred rat strains
author_facet Yoshihara, Minako
Sato, Tetsuya
Saito, Daisuke
Ohara, Osamu
Kuramoto, Takashi
Suyama, Mikita
author_sort Yoshihara, Minako
title Application of target capture sequencing of exons and conserved non-coding sequences to 20 inbred rat strains
title_short Application of target capture sequencing of exons and conserved non-coding sequences to 20 inbred rat strains
title_full Application of target capture sequencing of exons and conserved non-coding sequences to 20 inbred rat strains
title_fullStr Application of target capture sequencing of exons and conserved non-coding sequences to 20 inbred rat strains
title_full_unstemmed Application of target capture sequencing of exons and conserved non-coding sequences to 20 inbred rat strains
title_sort application of target capture sequencing of exons and conserved non-coding sequences to 20 inbred rat strains
description 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.
publisher Elsevier
publishDate 2016
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5114524/
_version_ 1613732129877786624

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