Question: neanderthal genome data
0
gravatar for khatami.mahshid
15 months ago by
khatami.mahshid20 wrote:

Hello all,

I wanted to access to a database containing neanderthals genome data, like VCF files exist for the modern human. Does anybody know where can I find it?

thanks a lot

snp genome gene • 582 views
ADD COMMENTlink modified 14 months ago by juanjo75es70 • written 15 months ago by khatami.mahshid20

You have here a tool for making homolog searches in the neanderthal genome. It's a new tool I have developed. Iwould like very much to get opinions on its utility and how it could be improved. Please feel free to make any comment directly to my email (it's in the page).

In your case, you can get human genes from Ensembl.org and look for the neanderthal homolog using this tool. The neanderthal genome sequence was downloaded from the Ensembl Neanderthal Genome Browser, which is (I guess) a consensus from different sequences obtained from different neanderthals.

ADD REPLYlink written 14 months ago by juanjo75es70
4
gravatar for genomax
15 months ago by
genomax92k
United States
genomax92k wrote:

BAM files for the neanderthal data aligned against the human genome are available here.

ADD COMMENTlink written 15 months ago by genomax92k

what if I wanted VCF files of neanderthals? Because I want to compare neanderthals SNPs with modern human ones.

ADD REPLYlink written 15 months ago by khatami.mahshid20
1

You will find this answer interesting: A: Looking for neanderthal genomes to download

You can find the denosovan VCF files at this link.

ADD REPLYlink modified 15 months ago • written 15 months ago by genomax92k

I have a new question. UCSC has just BAM files for neanderthals. How can I check SNPs in VCF files downloaded from this link with UCSC to make sure the file is correct?

ADD REPLYlink written 14 months ago by khatami.mahshid20
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