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Renaming a gene
Val Wood edited this page Sep 2, 2022
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3 revisions
- In Artemis, fix the primary_name and make the old name a /synonym.
- In Artemis, fix the label on any antisense gene names and make the old name a synonym.
- Fix deletion allele names in Canto, making the old name a synonym (other alleles using the previous gene name do not need to be changed). Ensure that the deletion alleles are fixed for both genes if the previous name is now the primary name for another gene.
- Fix or remove any deletion allele names from PHAFs files (the primary name is a non-mandatory column, so removing is fine). Ensure that the deletion alleles are fixed for both genes if the previous name is now the primary name for another gene.
- Check after the next update that no alleles remain (It is easy to miss those in multi-allele genotypes)
- Check that the gene name is not used in any annotation extensions
Add a new term to the bottom of https://github.com/pombase/fypo/blob/master/fyeco.obo
'id' should be the next number after the latest entry.
Definition and grouping term can be copied and adapted from a similar term.
The initials used must be the initials used in Protege.
For example
[Term]
id: FYECO:0000454
name: + tetracycline
def: "An experimental condition in which tetracycline was added to the medium or assay buffer in excess compared to standard medium or assay buffers." [PomBase:pc]
is_a: FYECO:0000109 ! grouping excess
created_by: pc
creation_date: 2024-06-27T09:58:01Z