Genes IDs of RNA_Seq results
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Entering edit mode
12 weeks ago
hashim.a50 • 0

I have a table of RNA_Seq results of human samples, and I need to apply DEGs analysis with a specific tool, my problem is the gene IDs in the table are like that:

Hsap38.chr1.100259758.100261128.-
Hsap38.chr1.100599636.100600481.-
Hsap38.chr1.100634215.100634631.-
Hsap38.chr1.100664917.100665960.-
Hsap38.chr1.100678814.100679335.-
Hsap38.chr1.100688541.100689254.-
Hsap38.chr1.100815523.100816218.+ 

With these IDs I can't do my analysis, I need to convert them to other ID like symbols or Ensembl ID, or any method that I can download the same list of these human genes but with symbols for example and after that I replace it in the table. Thanks...

gene format genome fasta conversion • 185 views
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Entering edit mode

You should be able to convert your data intervals to BED format. Then you could use BEDOPS (A: Is There A Easy Way To Find The Gene Annotations For Features In Bed File? ) or BedTools (https://www.biostars.org/p/474007/ )

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