[ensembl-dev] coordinate-system 'group' versus 'chromosome'

[PATERSON Trevor]

Could someone clarify the significance of naming a top-level coordinate-system as 'group' rather than 'chromosome'?

There is one species (stickleback) in Ensembl that has a top-ranked coordinate system called 'group', rather than 'chromosome'.

There is a karyotype page for stickleback and these 'groups' are described as chromosomes: there is no indication of what significance the name 'group' has.

I cannot find any other coordinate system called 'group', but in EnsemblGenomes the top ranked coord-system of  Drosophila pseudoobscura is named 'chr-group' but these do not seem to treated as chromosomes/karyotypes by the web interface.

I don't think there is an enumeration of allowed coordinate-system names, with definitions  - maybe there could be?

cheers

trevor

Trevor Paterson PhD
trevor.paterson at roslin.ed.ac.uk<mailto:trevor.paterson at roslin.ed.ac.uk>
Bioinformatics
The Roslin Institute
Royal (Dick) School of Veterinary Studies
University of Edinburgh
Easter Bush
Midlothian
EH25 9RG
Scotland UK

phone +44 (0)131 651 9157

http://bioinformatics.roslin.ed.ac.uk/

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