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Is there any genome dataset along with its epigenetic related datasets?

Hi

I need to the genome data-set which has related epigenetic data-sets, is there such a thing?

Thank you

genome
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updated by Ram Ram • written by mohamad.reza.ashouri • mohamad.reza.ashouri

Have you done any searching? You can find these with google...

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written by Devon Ryan Devon Ryan

Yeah , I have but unfortunately I couldn't find this database,u know ,i need these database along with related dna sequence to make a suitable computational model

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written by mohamad.reza.ashouri • mohamad.reza.ashouri

2 answers

I think ENCODE is the good place to start. What kind of epigentic dataset you are looking for? Methylation? Hydroxy-methylation? Histone modification? MNase-seq?

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updated by Ram Ram • written by arnstrm arnstrm

Our paper lists the datasets we used and their locations.

See "Benchmarking Genetically Improved BarraCUDA on Epigenetic Methylation NGS datasets and nVidia GPUs" In Genetic Improvement 2016, (GECCO 2016) workshop, pages 1131-1132, 20-24 July, Denver. http://dx.doi.org/doi:10.1145/2908961.2931687

The GPUs we used were Tesla K40 and Titan but essentially any newish CUDA graphics card will do _as long as_ it has sufficient memory for the BWA index file. For a complete human reference genome this means more than 6GB (for non-epigentics human DNA data 4GB is enough)

Bill

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updated by Ram Ram • written by william.bill.langdon • william.bill.langdon

so what are the datasets? you paper is pay-gated...

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written by te1farac • te1farac

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