Discussion in 'Genetic Testing and SNPs' started by kday, Feb 15, 2013.
This is weird. Why would this happen? It kinda freaked me out a bit.
Ok, do I not have the gene? It says enzyme activity is absent in 20% of caucasians. Does this mean I wouldn't have any SNPs. Do I have a gene deletion? I'll be the first to say that I don't really understand this.
Does anybody else get "no call" for all GSTT1 SNPs?
GSTM1 deletion and/or GSTP1 polymorphisms seem to be more common among ME/CFS people according to Genovations (DetoxiGenomic) gene tests that I have received from people. Maybe it is the same with the GSTT1 . It would not surprise me.
Are the GSTM1 and GSTP1 genes also analysed in the test from 23andme
Yes, however, all of the SNPs are there for all 40 of GSTM1 and GSTP1 SNPs. 23andMe does not report my GSTT1 as a deletion (they say they don't regularly keep track of deletions), but instead says "no call" for all SNPs. However, I think it's logical that it is probably a deletion. But I sent in a support ticket asking them if it could be.
Did you get any reply from 23andme?
Yes, I've been waiting to see if 23andme got back with you on this issue. I didn't get a no-call for this, but just a straight up deletion I think.
I have a "no call" for 12 out of the 14 snps tested for GSTT1. I've just assumed it's a deletion since it's not uncommon for there to be significant deletions in this gene.
GSTT1 - Absent*
*It is likely that you are missing this gene and have a deletion. However, since this type of testing isn't technically designed to detect deletions, it isn't with 100% certainty.
Me, too. I have rs11550605 TT and rs11550605 is AA. The rest are no call. Sea, Are these the same ones you have?
In areas where I have an insertion or deletion, I get an I or D in my report, instead of A,C,G, or T.
Yes, I have the same two snps - assuming you mean 11550605 TT and 11550606 AA. According to SNPedia these are both the ancestral allele, but according to the human gene compendium the 11550606 AA is the variant and is a missense mutation. I don't know which one is more reliable.
I got my 23andme results in March this year. How long have you had your results? They may have changed the way they report. I remember reading somewhere on their site that they would go back to no call results and update them as they got new information.
I have some II and DD elsewhere in my report
I got my results late July (~26th). I just poked into 'browse' to respond to this post, though, so my no-calls were from their website the day I made the post.
no call here too, except for the 11550606 AA. Rich would be all over this...god bless him...
23andMe gives a lot of no calls on GSTT1 because they don't actually test most of the SNPs they have listed on it. If any results are present on the gene, then you have it. If literally all of them are missing, then you don't have it.
I got tested in July 2014 with the V4 chip. I have no call on all except 3 of the SNPs 23andMe shows for GSTT1.
rs1130990: CC (less common than G but not rare)
rs11550605: GT (occurs <.05%)
rs2266636: CT (appears to occur < 1% looking at openSNP, but didn't come up in rare allele program, unsure)
Here is a resource I hadn't seen before: Wolfram
If you have any SNPs on GSTT1, then you have the gene.
23andMe lists a lot of SNPs on that gene, but usually just tests a few for most customers, hence they show a lot of no call results.
You can also try a Google Site Search
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