EPITREE project - WGS SNPs Oak

DOI

In the EPITREE project (https://www6.inrae.fr/epitree-project/Le-projet-EPITREE) we aim at studying the distribution of methylation sites in 10 oak (Q. petraea) genomes. To do so, we had to discriminate between true C/T SNPs and C>T substitutions caused by bisulfite conversion which can lead to misidentified unmethylated Cs. Thus, we performed a global SNPs detection and considered three SNP calling algorithms: bcfTools , FreeBayes and GATK. In order to accuratly identify polymorphisms in these 10 genomes, we selected SNPs identified by the three calling algorithms. We ended up with 15,727,742 SNPs. These SNPs are placed on the 1408 oak scafflods.

Identifier
DOI https://doi.org/10.15454/W4XFPF
Metadata Access https://entrepot.recherche.data.gouv.fr/oai?verb=GetRecord&metadataPrefix=oai_datacite&identifier=doi:10.15454/W4XFPF
Provenance
Creator Lesur Kupin, Isabelle
Publisher Recherche Data Gouv
Contributor Lesur Kupin, Isabelle
Publication Year 2020
Rights etalab 2.0; info:eu-repo/semantics/openAccess; https://spdx.org/licenses/etalab-2.0.html
OpenAccess true
Contact Lesur Kupin, Isabelle (INRA - Institut National de la Recherche Agronomique)
Representation
Resource Type Dataset
Format text/plain
Size 332558646
Version 1.0
Discipline Geosciences; Life Sciences; Ecology; General Genetics