Just came across with this comprehensive post by Thomas Maurel (BiomaRt or how to access the Ensembl data from R). Although it's based on Ensembl (not Ensembl Fungi), it can be useful to you. From The biomaRt user's guide you can connect to other databases than Ensembl. The example given in there is Wormbase.
Find Corresponding GO ID of Gene name in YORF format in R
I need to find the corresponding GO ID for the gene name YORF format.
For example: Gene name "YGL013C" . I need to find the corresponding annotated gene GO ID "GO:0042493" and the evidence code of this annotation.
I need to mapping using R. Please help.
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Denise CS
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animesh_10kuet •
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animesh_10kuet •
1 answer
Ensembl Fungi has got the mapping of YORFs to GO IDs. You can retrieve that data with the web interface of BioMart in addition to biomaRt, the R version in Bioconductor.
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