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Error in change Affymetrix transcript cluster id to Gene Symbol in microarray
annotLookup <- select(hugene20sttranscriptcluster.db, keys = "TC1000011370.hg.1" , keytype = "ENTREZID",
                      columns = c( "ENSEMBL", "SYMBOL", "ENTREZID"))

Error in .testForValidKeys(x, keys, keytype, fks) : 
  None of the keys entered are valid keys for 'ENTREZID'. Please use the keys method to see a listing of valid arguments

what can i do for change Affymetrix transcript cluster id to Gene Symbol? Affymetrix transcript cluster id like "TC1000011370.hg.1"

microarray id cluster affymetrix transcript

Looks like these ID's are from Clariom arrays, which are now part of Thermo Fisher.

GEO platform annotation may have the info you are looking for: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL23126

This file from Broad institute seems to have the annotations.

Probe Set ID    Gene Symbol Gene Title
TC1700007645.hg.1   MRM1    mitochondrial rRNA methyltransferase 1
TC0500009224.hg.1   LSM11   LSM11, U7 small nuclear RNA associated
TC0900008337.hg.1   ZNF462  zinc finger protein 462
TC0800010410.hg.1   PXDNL   peroxidasin-like

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