Question: doubts about genome assembly and ensembl
0
gravatar for palliyath91
4.9 years ago by
palliyath910 wrote:

Hello Everyone

Currently I am working on variation related to different vitamins. I have collected details from UCSC genome browser with the genome assembly GRCh37/hg19, All SNPs (141) and I need to use these data got from UCSC in dbSNP but my question is that, will the dbSNP 141 and GRCh37/hg19,  All SNPs (141) provide similar data or are they same? My second question is that, is it possible to find information about CpG islands, miRNA, CNVs from Ensembl? If can, how?

I will be grateful if any one help me to clear my doubt. Please help me soon..... 

thanks,

ADD COMMENTlink modified 13 months ago by Biostar ♦♦ 20 • written 4.9 years ago by palliyath910
1

I have fixed the grammar and spelling in your post so that it is legible.

ADD REPLYlink written 4.9 years ago by Emily_Ensembl19k
1
gravatar for Emily_Ensembl
4.9 years ago by
Emily_Ensembl19k
EMBL-EBI
Emily_Ensembl19k wrote:

A description of the UCSC All SNPs track can be found here.

What information are you looking for about CpGs, miRNAs and CNVs? Are you looking for genome-wide data or for a particular region? All these data are in Ensembl, it's just a question of what's the best way of accessing them for your purposes.

ADD COMMENTlink written 4.9 years ago by Emily_Ensembl19k

hi emily,

thank you for replying soon and I am looking for the total CpGs, miRNAs and CNVs  present in a particular gene. So is that possible to find using Ensembl?

thanks,

ADD REPLYlink modified 4.9 years ago by Emily_Ensembl19k • written 4.9 years ago by palliyath910

If you go to the region of your gene of interest, you can add these data to the page. Just search for your gene then click on location. You can then click on the blue Configure this page button to edit the tracks you can see in this page. I have edited this page so that you can see structural variants and CpG islands. You'll find miRNAs in the gene track. Click on any of the features to learn more about them.

ADD REPLYlink written 4.9 years ago by Emily_Ensembl19k
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