HTSEQ results format when using refseq hg19

narges · 10-28-2012, 08:44 AM

Hi,
I think I am not familiar with gene id representations so I am confused about the results I found in read count file resulting from HTSEQ.
In order to obtain the file refseq hg19 has been used as the reference.
Below is the file format :
1/2-SBSRNA4 2
A1BG 86
A1BG-AS1 17
A1CF 1
A2LD1 59
A2M 5
A2ML1 0
A2MP1 0
A4GALT 592
A4GNT 0
.
.
I expected to see refseq format like "NM_???????" as the gene identifier but the file represents another notation of genes why is this so?
Thanks in advance

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10-28-2012, 08:44 AM	#1
narges Member Location: Finland Join Date: Aug 2012 Posts: 29	HTSEQ results format when using refseq hg19 Hi, I think I am not familiar with gene id representations so I am confused about the results I found in read count file resulting from HTSEQ. In order to obtain the file refseq hg19 has been used as the reference. Below is the file format : 1/2-SBSRNA4 2 A1BG 86 A1BG-AS1 17 A1CF 1 A2LD1 59 A2M 5 A2ML1 0 A2MP1 0 A4GALT 592 A4GNT 0 . . I expected to see refseq format like "NM_???????" as the gene identifier but the file represents another notation of genes why is this so? Thanks in advance