Catalogue PIGMA
SNPs for thornback ray Raja clavata used for identifying sex-linked SNPs and carrying out sex assignment
We genotyped 1680 thornback ray Raja clavata sampled in the Bay of Biscay using a DNA chip described in Le Cam et al. (2019). After quality control 4604 SNPs were retained for identifying potential sex-linked SNPs using three methods: i) identification of excess of heterozygotes in one sex, ii) FST outlier analysis between the two sexes and iii) neuronal net modelling. Genotype coding: 0 homozygous for major allele, 1 heterozygous, 2 homozygous for minor allele.
Flanking DNA sequences of SNPs identified with methods i) and ii) are also provided.
Simple
- Date (Publication)
- 2020
- Date (Revision)
- 2022-01-28
- Other citation details
- Trenkel Verena, Lorance Pascal (2020). SNPs for thornback ray Raja clavata used for identifying sex-linked SNPs and carrying out sex assignment. SEANOE. https://doi.org/10.17882/74390
- Credit
- The creation of this data set was funded by the French “Agence Nationale de la Recherche” (ANR) under the GenoPopTaille project (ANR-14-CE02-0006-01) and by the European Union's Horizon 2020 research and innovation programme under the grant agreement No. 773713.
- Theme
-
- Raja clavata
- Single nucleotide polymorphism
- Bay of Biscay
- Biological oceanography
- Fisheries and aquaculture
- project
-
- H2020 PANDORA (Agreement: 773713)
- Use limitation
- CC-BY-NC-SA (Creative Commons - Attribution, No commercial usage, Sharing under the same conditions)
- Use constraints
- Other restrictions
- Date (Publication)
- 2022
- Unique resource identifier
- 10.1093/icesjms/fsac002
- Association Type
- Cross reference
- Initiative Type
- Study
- Date (Publication)
- 2020
- Unique resource identifier
- 10.1111/1755-0998.13225
- Association Type
- Cross reference
- Initiative Type
- Study
- Date (Publication)
- 2019
- Unique resource identifier
- 10.17882/70546
- Association Type
- Cross reference
- Initiative Type
- dataset
- Unique resource identifier
- 10.18142/8
- Association Type
- Cross reference
- Initiative Type
- Platform
- Unique resource identifier
- 10.17600/17006200
- Association Type
- Cross reference
- Initiative Type
- Platform
- Metadata language
- English
- Topic category
-
- Oceans
))
- Distribution format
-
-
CSV
(
)
-
CSV
(
)
- OnLine resource
-
Quality controlled data
(
WWW:DOWNLOAD-1.0-link--download
)
Genotype data for individuals - 218 MB
- OnLine resource
-
Processed data
(
WWW:DOWNLOAD-1.0-link--download
)
Flanking sequences for putative sex-linked SNPs - 4 KB
- OnLine resource
- DOI of the product ( WWW:LINK-1.0-http--metadata-URL )
- OnLine resource
- Seanoe ( rel-canonical )
- Hierarchy level
- Dataset
- File identifier
- seanoe:74390 XML
- Metadata language
- English
- Character set
- UTF8
- Hierarchy level
- Dataset
- Date stamp
- 2022-01-28
- Metadata standard name
- ISO 19115:2003/19139
- Metadata standard version
- 1.0
Overviews
Spatial extent
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