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Gene me up baby! - To verb or not to verb. [entries|archive|friends|userinfo]
Mikolaj Habryn

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Gene me up baby! [May. 22nd, 2008|06:59 pm]
Mikolaj Habryn
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[Current Location |Mountain View, CA]
[Current Mood |curiouscurious]

Ooh! My 23andMe genotyping arrived in two weeks instead of two months! Momma, I got genes! Momma, you also gave me a 100%-boring euro-haplotype, without even the faintest hint of a contribution from any other continent... although, intriguingly, it's a scandinavian haplotype, against my father's eastern european descent.

Anyway. Slightly better odds on macular degeneration, alcohol-withdrawal-related seizures (!), lumbar disc disease, lupus, free recall and memory, and MS; and slightly worse on ankylosing spondylitis, gout, and prostate cancer.

Distressing: I missed out on the allele that would reduce my risks of male pattern baldness by 11 times (again, all my mother's fault), I'm a slow caffeine metabolizer, which drives heart attack risks in response to caffeine, and I lack the genes that would protect me against HIV, but have the ones for increased pain sensitivity.

My general reaction to this is... disappointment. 23andMe give stats on only 70 conditions, from a sampling of ~600,000 SNPs.

Luckily SNPedia can apparently do better... but processing is done with a Windows program that doesn't run under Wine. Can I beg a favour of someone? I've published my genotype (GINA passed, yay!); could some kind person with a Windows machine download and unzip it and run it through Promethease? Pretty please? I'm afire with curiosity and my hypochondria is rampaging unsatisfied :)
LinkReply

Comments:
From: wintal
2008-05-23 03:42 am (UTC)
Well.. it's running... don't know how long it will take ;)
Would you like comparisons against just Caucasian, or against Japansese, Chinese, and African as well?
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[User Picture]From: justadecoy
2008-05-23 04:04 am (UTC)
I'll run the African comparison.
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[User Picture]From: dichro
2008-05-23 07:31 am (UTC)
I'm not sure if the results of comparing to anything other than caucasian will be terribly meaningful... but who knows?
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From: wintal
2008-05-23 07:33 am (UTC)
ok, it's available here: http://dayta.ucc.asn.au/mikolaj-snpedia.html (let me know if you'd rather it not be publicly accessible and I'll move it elsewhere).
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[User Picture]From: dichro
2008-05-23 07:37 am (UTC)
Woohoo! Thanks :)

*reads*

*reads more*

Now, what the hell does any of that mean? And please do leave it open; I'm not sure I can just upload HTML into Google sites, so I might just link to you instead...
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From: wintal
2008-05-23 07:52 am (UTC)
The most interesting bit (to my mind) is the section grouped by disease, though it seems to me that you have to take a lot of it with a massive grain of salt. Some of them seem to quote things like a '1.5% increase in risk' based on disturbingly small sample sizes.

I'll leave it up til further notice anyhow, I don't _think_ it'll generate enough traffic for UCC to notice ;)
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[User Picture]From: cariaso
2008-05-23 04:58 am (UTC)

SNPedia wants you

You've already put yourself out there. Would you have any objection to joining the list of public genomes at the bottom of http://www.snpedia.com/index.php?title=SNPedia

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[User Picture]From: dichro
2008-05-23 07:32 am (UTC)

Re: SNPedia wants you

That's some august company :) I've added myself to the bottom of the list, though, following the same format. Feel free to edit to taste, and I'll link to the promethease results once one of the above volunteers comes up with them.
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[User Picture]From: loic
2008-05-23 05:19 am (UTC)
Oh my! What a neat toy!
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[User Picture]From: dichro
2008-05-23 07:34 am (UTC)
The actual 23andMe processed results are a bit... well, sad. Somehow, I expected more voluminous results. Really looking forward to seeing what promethease has to say. (and yes, it's really neat nonetheless ;)
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[User Picture]From: justadecoy
2008-05-28 01:07 am (UTC)
http://justadecoy.10gbfreehost.com/snpedia.html

Sorry about the delay, was off work sick and left the output on a desktop in the office.
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