Latest updates
- The Broad transcriptome assemblies have been aligned to their respective genome assemblies using GMAP and are available as tracks in GBrowse.
- Genome browsers are now available for Tilapia (anchored), Astatotilapia burtoni, Pundamilia nyererei, Metriaclima zebra and Neolamprologus brichardi.
- Assemblies of Astatotilapia burtoni, Pundamilia nyererei, Metriaclima zebra and Neolamprologus brichardi are now available from the Broad ftp site.
- Broad Institute tilapia genome assembly v.1 The Broad Institute has released version 1 of the Tilapia genome!
- Illumina transcriptome RNA from Tilapia testis has been analyzed via Illumina RNA-seq, assembled into transcripts and aligned to stickleback.
- Tilapia ESTs Kocher's lab has generated 116,899 Sanger ESTs from 17 normalized and two non-normalized cDNA libraries representing 16 tissues. The ESTs were assembled into 20,190 contigs and 36,028 singletons for a total of 56,218 unique sequences and a total assembled length of 35,169,981bp. The publication describing this work can be found at PMID:20433739
- BAC end sequences The Broad Institute has sequenced 156,216 BAC-end sequences from the VMRC-44 Tilapia BAC library using Sanger sequencing technology. The sequences have been mapped to stickleback, tetraodon and medaka and are viewable in GBrowse.
- A. burtoni linkage map Axel Meyer's lab has constructed a genetic map of Astatotilapia burtoni consisting of 25 linkage groups spanning 1249.3 cM with an average marker spacing of 6.12 cM.
Cichlid-specific resources
FIsh genomes
General comparative tools
- Genomicus - Navigate genomes in several dimensions: linearly along chromosome axes, transversely across different species, and chronologically along evolutionary time.
- Synteny database Automated identification of conserved synteny after whole genome duplication.
- Gene Indices Gene index progect at Dana Farber Cancer Institute.
- PhyloVista Interactive tool for analyzing multiple DNA sequence alignments.
|
