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Hi everybody.
I am trying to collect annotation files so that I can annotate as many of my variants as possible with functional elements. I am not just interested in annotating variants in genes but in all functional elements also regulatory elements without known function.
From HGNC I can download annotation files for multiple elements however the chromosomal locations are given in Cytogenetic locations:
1p X74328 NM_001841 CNR
1p BC014966 NM_002953
1p AF097330 NM_013943 CLIC
1p11.1 BC029687 NM_022836
1p11.1 AK127536 NM_152380 TBX
1p11.2 AY091592 NG_002684
An I need them to be in base pair positions e.g.
chr1 100 150 X74328 NM_001841 CNR
Can anyone tell me how I can convert the cytogenetic locations into bp positions?
I am trying to collect annotation files so that I can annotate as many of my variants as possible with functional elements. I am not just interested in annotating variants in genes but in all functional elements also regulatory elements without known function.
From HGNC I can download annotation files for multiple elements however the chromosomal locations are given in Cytogenetic locations:
1p X74328 NM_001841 CNR
1p BC014966 NM_002953
1p AF097330 NM_013943 CLIC
1p11.1 BC029687 NM_022836
1p11.1 AK127536 NM_152380 TBX
1p11.2 AY091592 NG_002684
An I need them to be in base pair positions e.g.
chr1 100 150 X74328 NM_001841 CNR
Can anyone tell me how I can convert the cytogenetic locations into bp positions?