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I am looking for a database that would keep track of human cytogenetic regions and genomic coordinates per genome assembly. I had expected the Genome Reference Consortium to have it, or Ensembl, or NCBI, but I could not find it.

Is there a place with a translation table between human cytogenetic regions and genomic coordinates?

EDIT

After benn's answer I found that you can also get this information from Ensembl's REST API: https://rest.ensembl.org/info/assembly/homo_sapiens?content-type=application/json&bands=1.

I have transformed the data provided by Ensembl and generated a CSV file with the cytogenetic regions:

https://github.com/ramiromagno/gwasrapidd/blob/master/data-raw/cytogenetic_bands.csv

Ramiro Magno
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    Do you look for a database a paper with a table or what? To which genome should these genomic coordinates be from? – llrs Apr 24 '19 at 20:11
  • @llrs: I was looking for a database that would keep track of these definitions per genome assembly. I had expected the Genome Reference Consortium to have it, or Ensembl, or NCBI, but I could not find it. – Ramiro Magno Apr 25 '19 at 00:32

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Do you mean cytoband coordinates? For the human genome you can find them for example at UCSC.

hgdownload.cse.ucsc.edu/goldenPath/hg38/database/cytoBand.txt.gz
benn
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  • Hey thanks!, do you know why is there in hgdownload.cse.ucsc.edu/goldenPath/hg38/database/ also the file cytoBandIdeo.txt.gz? I checked, and it has exactly the same info as cytoBand.txt.gz. BTW: do you know what the fourth column in cytoBand.txt.gz means? It has values like: gneg, gpos25, gpos50, gpos100, acen, etc.. – Ramiro Magno Apr 25 '19 at 16:01
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    The answers can be found on google. – benn Apr 25 '19 at 16:51