Genome Reference Consortium
The Genome Reference Consortium (GRC) was founded in 2007 to improve the reference genome assemblies of human, mouse and zebrafish. One of the first tasks was to modernise the assembly model to make sure that complex variation within a species can be captured and represented. The GRC also guarantees INSDC submission and long term maintenance of all produced assemblies. All this is achieved through genome analysis and additional sequencing and collection of other data, for instance optical mapping. We collaborate with major players in the respective communties to obtain additional data helping us to identify and correct issues in the existing genome assemblies.
The GRC genome annotations are available as a trackhub at http://ngs.sanger.ac.uk/production/grit/track_hub/hub.txt and can also be viewed in the genome evalution browser gEVAL. We provide a blog and an announcement list. You can report genome issues for review, or search regions under review, e.g. here.
The GRC is a collaboration between the The Wellcome Trust Sanger Institute, represented by the Genome Reference Informatics Team, the McDonnell Genome Institute at Washington University (MGI), the European Bioinformatics Institute (EBI) and the The National Center for Biotechnology Information (NCBI). The NCBI hosts the GRC homepages.
- FASTA format sequences for a genome assembly in a package convenient for use by various Next Generation Sequence read alignment pipelines. The sequence names, sequence order, and format of the sequence definition lines, were developed in consultation with several developers and major users of alignment pipelines and include masking of e.g. the PAR region and the EBV sequence. Index files generated by BWA, Samtools and Bowtie are also provided. The set is available with (full assembly) and without (primary assembly only) alternate locus sequences.
The zebrafish reference genome sequence and its relationship to the human genome.
Modernizing reference genome assemblies.
PLoS biology 2011;9;7;e1001091