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Matching Kcat Based on Gene names

Open HossFir opened this issue 1 year ago • 0 comments

Description of the new feature:

I built two ecGEMs for my organism. One is reconstructed in a way that only contains genes id and the other is the BiGG model which has gene annotations ({'sbo', 'ncbigi', 'refseq_name', 'refseq_orf_id'}). It seems that GECKO 2.0 only matched the Kcat and UniProt Database based on the gene id. This would cause missing a lot of Kcat for those GEMs which are reconstructed by only gene names like the BiGG model. So I would be appreciated it if is possible to consider this in the GECKO 3.0, that the Kcat could also be matched by the gene names, probably searching for the 'refseq_orf_id' for the BiGG Model.

HossFir avatar Nov 11 '22 16:11 HossFir