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Conservation of SNPs contexts

SNPs Conservation mutation genome

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#1 Edu44

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Posted 13 May 2014 - 06:16 AM

I'm currently working in a model for differentiating some kinds of SNPs according to genomic signatures presen is their contexts. One of the such signatures is wether the genomic context is conserved among primates (Pan, Pongo, Gorilla, etc).

 

There are many kinds of different conservation measures, so I was wondering wich would be the best and wich are easily obtainable or easily available in databases for some preliminary tests. I have to acces conservation measures for small sequences (less than 100 nt) neighboring about  human 50,000 SNPs, that is, when homologous sequences are available in one or more primates.

 

So any suggestions?



#2 jerryshelly1

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Posted 15 May 2014 - 11:32 AM

Can you restate your question? If you are looking for general SNP information, it can be found on UCSC Genome Browser. When you search for a SNP, it will usually give you the allele frequency of that SNP in humans and sometimes other organisms. If you are trying to look at the genomic signatures, then you would probably want the raw sequencing data with the electropherograms. I think it would be best if you were more clear with your question.







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