Data · dataset · 2025
Chromosome-scale haploid genome sequence and annotation dataset of the durian cultivar 'Kan Yao'
Listed in ScienceDB
This dataset includes the sequence files and gene annotation files for two haplotype genomes of the durian cultivar 'Kan Yao', assembled using HiFi, ONT, Hi-C, and second-generation sequencing data.
Description
The core software used for genome assembly includes Hifiasm (0.19.5), 3D-DNA (190716), and AssemblyMapper (1.0.3). Gene structure annotation employed three distinct strategies: de novo annotation, homology-based annotation, and transcriptome-based annotation.
For de novo annotation, Braker software was used to construct models based on Arabidopsis protein sequences (arabidopsis_pep_20101214.fa) and all merged Illumina transcriptome data to predict gene structures. Homology-based annotation was conducted using GenomeThreader software, referencing the protein annotation file of the Durian genome (GCF_002303985.1_Duzib1.0_protein.faa). Transcriptome-based annotation was performed using PASA software, utilizing all merged Iso-Seq transcriptome sequencing data.
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Subsequently, the annotation files from these strategies were merged using EVM software and updated with PASA software to incorporate UTR and alternative splicing information, resulting in the final annotation file. Non-coding gene annotation was performed using Infernal software.
Links
Where it is published
- DOI doi.org/10.57760/sciencedb.agriculture.00013 ↗
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
- Bioinformatics and computational biology 72% · RNA sequencing 65% · Sequencing 75%
Provenance · 1 source records, 13 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| ScienceDB | 10.57760/sciencedb.agriculture.00013 | 11 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].anzsrc:group:3102 | enrichment · scidb cn | taxonomy-embedding@1.0.0 | title+keywords+description (72%) |
| 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:rna-seq | enrichment · scidb cn | keyword-concept-rules@1.0.0 | title+description (65%) |
| 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 |