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Hi everybody
I am trying to annotate identified variants obtained from a number of methods (so I have both CNVs, point mutations, CpG sites e.g.). I would like to annotate with all known functional elements both coding and noncoding RNA, TF binding sites e.g.
The best way I can see is to download annotation files and use fx. BedOps to identify functional elements that overlap with my variants.
If anyone has a better idea or know of a software that can handle the complexity of my data please send me a hint.
I have downloaded annotation files from UCSC table browser. If you know of sites containing info that can compliment this information please let me know of that to.
Also if you know of a database which include non-coding elements in enrichment analysis and pathway identification I could use some guidance.
I am trying to annotate identified variants obtained from a number of methods (so I have both CNVs, point mutations, CpG sites e.g.). I would like to annotate with all known functional elements both coding and noncoding RNA, TF binding sites e.g.
The best way I can see is to download annotation files and use fx. BedOps to identify functional elements that overlap with my variants.
If anyone has a better idea or know of a software that can handle the complexity of my data please send me a hint.
I have downloaded annotation files from UCSC table browser. If you know of sites containing info that can compliment this information please let me know of that to.
Also if you know of a database which include non-coding elements in enrichment analysis and pathway identification I could use some guidance.