Data · dataset · 2024
Called genotypes (chromosome 1) from Illumina whole-genome sequencing of an Indica x Japonica rice F2 population
Listed in DataSuds
Motivation: Genotyping of bi-parental populations can be performed with low-coverage next-generation sequencing (LC-NGS).
Description
This allows the creation of highly saturated genetic maps at reasonable cost, precisely localized recombination breakpoints (i.e., the crossovers), and minimized mapping intervals for quantitative-trait locus analysis. LC-NGS data usually need to be imputed.
Here we present imputed genotypes for rice chromosome 1 obtained from Illumina whole-genome low-coverage sequencing of an Indica x Japonica rice F2 bi-parental population (n = 222). The parents are IR64 (indica) and Azucena (tropical japonica). The genotypes were called with FreeBayes, using a SnakeMake pipeline.
Links
Where it is published
- Dataverse dataset page dataverse.ird.fr/dataset.xhtml?persistentId=doi%3A10.23708%2F8FXUNC ↗
landing page · from dataverse ird fr
- DOI doi.org/10.23708/8fxunc ↗
DOI / persistent id · from dataverse ird fr
Catalogue records · 1
- Dataverse API dataverse.ird.fr/api/datasets/:persistentId/?persistentId=doi%3A10.23708%2F8FXU… ↗
metadata API · from dataverse ird fr
Topics
- Stated by source
- Agricultural Sciences
- From keywords
- Life Sciences · Social Science
- Inferred from text
- Genetics 71% · Genome sequencing 65% · Sequencing 75%
Provenance · 1 source records, 12 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| DataSuds | doi:10.23708/8FXUNC | 13 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| concepts[field].anzsrc:group:3105 | enrichment · dataverse ird fr | taxonomy-embedding@1.1.0 | title+keywords+description (71%) |
| concepts[field].dataverse_subject:agricultural-sciences | source · dataverse ird fr | connector:dataverse_ird_fr@1.0.0 | /subjects |
| concepts[field].local:field:life-sciences | mapping · dataverse ird fr | connector:dataverse_ird_fr@1.0.0 | /subjects |
| concepts[field].local:field:social-science | mapping · dataverse ird fr | connector:dataverse_ird_fr@1.0.0 | /subjects |
| concepts[modality].local:modality:genome-sequencing | enrichment · dataverse ird fr | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[modality].local:modality:sequencing | enrichment · dataverse ird fr | keyword-concept-rules@1.0.0 | title+description (75%) |
| created_date | source · dataverse ird fr | connector:dataverse_ird_fr@1.0.0 | |
| description | source · dataverse ird fr | connector:dataverse_ird_fr@1.0.0 | /description |
| publication_date | source · dataverse ird fr | connector:dataverse_ird_fr@1.0.0 | |
| title | source · dataverse ird fr | connector:dataverse_ird_fr@1.0.0 | /name |
| updated_date | source · dataverse ird fr | connector:dataverse_ird_fr@1.0.0 | |
| version_label | source · dataverse ird fr | connector:dataverse_ird_fr@1.0.0 |