Hello,
My earlier mails egarding lift over were cleared well. Now i have a doubt
regarding SNP table from UCSC
My data,its a methylation data and i need to check if the methylation is
just an SNP or not , is positioned in this way- For e.g.
hg18mapinfo strand
100532397 top
149364056 bot
23982732 bot
53478180 bot
the snp data which i retrieved as you knwo will have following col
hg18start(chrom start) hg18end(chrom end) (and a few other col
...which is not relevant right now)
100532397 100532398
1493640565 149364056
23982731 23982732
53478180 53478180
whien i map between these two tables..as I told you i need to check for
SNPs in my methylation data, I get is
hg18start(chrom start) hg18end(chrom end) hg18mapinfo
strand
100532397 100532398
100532397 top
1493640565 149364056
149364056 bot
23982731 23982732
23982732
bot
53478180 53478181
53478180
bot
As you can see mapping is done in between start and end posiitons this is
causing me confusion , what should i understand from this, I need all the
positions that has C , but when it maps like this with start or end, I dont
understand.and i dont know how to assign the remaining coloumns.
The basic doubt is , isnt there an SNP table with just one location for one
base pair, because these two start and end correspond to two different base
pairs in actual gene.
Thanks,
Monitha
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