Hey, I need to assign transcripts to their respective genes. For ucsc transcripts I am retrieving the gene name from kgXref.geneSymbol, for Ensemble from ensemblToGeneName.value and
for RefSeq from refFlat.geneName. (In the latter case I am not entirely sure that I am using the right table because kgXref also has a field refseq (?) which however doesn't have a geneSymbol for every RefSeq transcript) For c. elegans (ce6) sangerGene transcripts I have a problem. I am getting a geneid from sangerGeneToWBGeneID.WBGeneID. However there doesn't seem to be a WBGeneID for every transcript. (Y95B8A.12d for example, wormbase itself has an ID there) Are those just missing in the system or am I linking to the wrong table to get genes for the wormbase transcripts? Thanks a lot for help :-) Greetz _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
