Get SYMBOL using mapIds with T2T genome ?
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9 days ago
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Hi I use to retrieve symbol from ENSEMBL id using this function:

 resOrdered$symbol <- mapIds(org.Hs.eg.db,
                     keys=row.names(resOrdered),
                     column="SYMBOL",
                     keytype="ENSEMBL",
                     multiVals="first")

but it only works with the hg38 genome. Is there an alternative with the T2T genome and annotation ?

t2t • 194 views
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Is there an alternative with the T2T genome and annotation ?

T2T assembly is available via Ensembl rapid release, if you need Ensembl ID: https://rapid.ensembl.org/Homo_sapiens_GCA_009914755.4/Info/Index

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So the only way is to write a script that extract the symbol from the gtf file ?

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