Gene name in result list and variant details can differ

[stolpeo]

Describe the bug
For example for the gene HGNC:25322 - result list displays C12orf29 (previous symbol) while the official name is RLIG1

https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:25322

[stolpeo]

RCA

The annotation of the gene for the variant in the variant details comes from annonars. In the result list, it is joined via the postgres query coming from the RefseqToGeneSymbol/EnsemblToGeneSymbol table. These tables are not up-to-date.

varfish-server/backend/variants/queries.py

Line 291 in 1f6608d

class ExtendQueryPartsGeneSymbolJoin(ExtendQueryPartsBase):

Solution

1. Either we wait for the next-generation annotation step with mehari.
2. or we substitute the join of the table with a call to annonars.