Resources

Listed here are datasets and resources produced by the laboratory. Some are open access; others are password-protected for use by members of the research group and collaborators.

DATABASES

• HomeoDB2: a searchable, BLASTable and downloadable database of homeobox sequences http://homeodb.zoo.ox.ac.uk/

GENOMIC AND TRANSCRIPTOMIC DATASETS

(1) Darwin Tree of Life: high quality genome sequences

• We are actively collecting, identifying and preserving arthropods for genome sequencing from Wytham Woods near Oxford. These will be very high quality complete genome assmblies. Draft genome data are available at: https://www.darwintreeoflife.org/interim-data

(2) Low coverage genome skims for insects plus microRNA and transcriptome data

• Sample genome assemblies for five Lepidoptera and one Trichoptera https://databank.ora.ox.ac.uk/general/datasets/GenomeAssembliesOrangeSwi...
• Raw Illumina DNA sequence data for genomes of five Lepidoptera and one Trichoptera http://www.ncbi.nlm.nih.gov/bioproject/241175
• Short-read RNA sequence data for miRNA study in Cameraria and Pararge http://www.ncbi.nlm.nih.gov/bioproject/268522
• Short-read RNA sequence data for miRNA study in Pararge aegeria ovary http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE72090
• mRNA transcriptome assembly for Pararge aegeria ovary GEO Accession viewer http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE72090
• BLAST database for Lepidoptera genomes and transcriptomes http://zoo-animalia.zoo.ox.ac.uk/blastseq02/

(3) Mammals

• Transcripts and proteins from sand rat Psammomys obesus https://ora.ox.ac.uk/objects/uuid:54a81d9b-c493-48ba-bda1-23e14ec3ae7a with key to files at https://academic.oup.com/mbe/article/37/8/2197/5805392#206121405
• BLAST database for mammalian genomes, exomes and transcriptomes http://zoo-animalia.zoo.ox.ac.uk/blastseq01/
• RNAseq datasets for ectopic expression of mammalian PRD class genes https://www.ncbi.nlm.nih.gov/bioproject/318494

(4) Fish

• BLAST database for Osteoglossomorpha genomes and transcriptomes http://zoo-animalia.zoo.ox.ac.uk/blastseq05

• Illumina DNA sequence for Pantodon https://www.ncbi.nlm.nih.gov/bioproject/293272

• Illumina DNA sequence for Chitala, Osteoglossum, Gnathonemus https://www.ncbi.nlm.nih.gov/bioproject/347616

• Sample genome assemblies for osteoglossomorph fish https://ora.ox.ac.uk/objects/uuid:7ec56917-16b5-4637-bc88-2d6113b55633