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Welcome to Animal Omics Database

The omics data (including de novo assemblies, genomic variations, spatiotemporal gene expression, epigenetic modifications, etc.) for many livestock and poultry species is growing exponentially. However, the lack of proper integration present an obstacle to in-depth exploration and interpretation of these massive data. We are aimed to integrate available omics data for human and domestic animals, and build user friendly web interface for scientific communities to use.

Comparative genome
Database
Pan-genome
Database
Variation
Database



The AOD project


  Ruminant genome database

Ruminants have great significance in agriculture, environment adaptation, animal conservation, and biomedicine. We launched the Ruminant Genome Project (RGP) that newly de novo assembled 47 ruminant genomes and developed this database.

Resources & Tools:

  1.  55 ruminant genomes and annotation
  2.  Synteny blocks and orthologous genes
  3.  Epigenomics signals
  4.  Gene expression
  5.  QTL data
  6.  UCSC Genome Browser
  7.  Blat & Blast

  Animal variation database

The animal variation database is a data repository that focuses on the variation information (SNPs, Indels, and structural variations (SVs)) and selection signatures. The distribution of population allele frequency is shown on the world map.

Resources & Tools:

  1.  SNPs, Indels and SVs
  2.  Selection signatures
  3.  Epigenomics signals
  4.  Gene expression
  5.  QTL data
  6.  UCSC Genome Browser
  7.  Blat & Blast

  Animal pan-genome database

The pan-genome is supposed to contain the 'whole' genomic contents of one species and thus is merging as an alternate to the current reference genomes. We construct pan-genomes and databases to help communities easily use the improved genomes.

Resources & Tools:

  1.  Pan-sequences and annotation
  2.  Pan-sequences location
  3.  Copy number variations
  4.  Gene expression
  5.  UCSC Genome Browser
  6.  Blat & Blast

  Publications

  1. Large-scale ruminant genome sequencing provides insights into their evolution and distinct traits[J]. Science, 2019, 364(6446): eaav6202.
  2. Building a sequence map of the pig pan-genome from multiple de novo assemblies and Hi-C data[J]. Science China. Life sciences, 63, 5, 750-763(2020).
  3. Towards the Complete Goat Pan-Genome by Recovering Missing Genomic Segments From the Reference Genome[J]. Frontiers in Genetics, 2019, 10: 1169.
  4. BGVD: An Integrated Database for Bovine Sequencing Variations and Selective Signatures[J]. Genomics, Proteomics & Bioinformatics, 2020, 18(2): 186-193.
  5. GGVD: a goat genome variation database for tracking the dynamic evolutionary process of selective signatures and ancient introgressions. Journal of Genetics and Genomics, 2021 (accepted)