Integrated biological records
Genes, mRNAs, proteins, organisms, genomic coordinates, sequences, and feature relationships are organized through Tripal and Chado.
About the resource
An integrated avocado genomics platform
PerseaDB brings genome assemblies, structural annotation, biological records, sequence search, and interactive genome exploration together in one public resource.
- 3
- genome collections
- 133,540
- gene records
- 145,740
- transcripts
Our purpose
Make avocado genome data easier to explore and reuse
The database integrates three independently maintained avocado genome collections: the published Hass chromosome-scale assembly, a 12-chromosome West Indian T2T assembly, and the Anise chromosome-scale assembly with 50,469 annotated genes. It also provides a read-only comparative-genomics resource built from completed analyses: 21,990 core Orthogroups and 17,730 coordinate-resolved one-to-one anchors can be explored alongside precomputed chromosome-synteny and structural-variation results. These comparative results are presented as reproducible result browsing, not as a service that reruns whole-genome alignment online.
Search and sequence analysis
Researchers can search record identifiers, query genes in all three genome collections by functional annotation, follow Gene–mRNA–protein relationships, and compare sequences using BLAST.
Interactive genome exploration
JBrowse provides assembly navigation for Hass, West Indian T2T, and Anise with structural-annotation tracks.
Analysis and enrichment
Cultivar-specific transcriptomics pages organize analysis figures, while genome-level GO enrichment is enabled wherever validated gene-to-GO mappings are available.
Comparative genomics
Precomputed orthogroups, chromosome synteny, structural variation, and conserved one-to-one gene relationships can be explored without rerunning the underlying whole-genome analyses.
Technology
Built on an open scientific data stack
Drupal provides content management, Tripal connects biological content with controlled vocabularies, Chado stores normalized genomic relationships in PostgreSQL, and JBrowse and BLAST provide interactive analysis tools.
Contact and collaboration
wy1806548281@163.com 