Data · dataset · 2026
ddRAD-seq derived SNP dataset for Allium chinense from 60 germplasm resources
Listed in ScienceDB
Dataset Title: ddRAD-seq derived SNP dataset for Allium chinense from 60 germplasm resourcesDataset Description:This dataset comprises the processed genotype data (SNPs) from a population genomic analysis of Allium chinense (Chinese onion).
Description
We performed double-digest restriction-site associated DNA sequencing (ddRAD-seq) on 60 individuals collected from multiple populations in Hunan and Sichuan provinces, China.The raw sequencing reads have been deposited in the NCBI Sequence Read Archive (SRA) under BioProject accession number PRJNA1468552.
This submission contains the primary processed output: the populations.snps file generated using the Stacks v2.5 pipeline. This file is in VCF (Variant Call Format) v4.2 and includes genome-wide single nucleotide polymorphisms (SNPs) for the 60 samples. The file can be viewed and analyzed using standard bioinformatics tools such as VCFtools, PLINK, or R packages like vcfR and adegenet.This dataset supports the findings of the manuscript "Population Genomic Analysis of Genetic Diversity in Allium chinense via ddRAD" (Submission ID: 11f46505-8beb-4131-a1bf-69618a56b44e) and is intended for population genetics, diversity analysis, and conservation research.
Links
Where it is published
- DOI doi.org/10.57760/sciencedb.38342 ↗
DOI / persistent id · from scidb cn
Catalogue records · 1
- OAI-PMH record scidb.cn/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=10.57760%2… ↗
metadata API · from scidb cn
Topics
- From keywords
- Earth & Environmental Science · Engineering · Humanities · Life Sciences · Social Science
- Inferred from text
- Genetics 70% · Sequencing 75%
Provenance · 1 source records, 12 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| ScienceDB | 10.57760/sciencedb.38342 | 10 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].anzsrc:group:3105 | enrichment · scidb cn | taxonomy-embedding@1.0.0 | title+keywords+description (70%) |
| concepts[field].local:field:earth-environmental | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:engineering | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:humanities | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:social-science | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[modality].local:modality:sequencing | enrichment · scidb cn | keyword-concept-rules@1.0.0 | title+description (75%) |
| description | source · scidb cn | connector:scidb_cn@1.0.0 | /metadata/dc/description |
| license | source · scidb cn | connector:scidb_cn@1.0.0 | /metadata/dc/rights |
| publication_date | source · scidb cn | connector:scidb_cn@1.0.0 | |
| title | source · scidb cn | connector:scidb_cn@1.0.0 | /metadata/dc/title |