Last Friday 23andMe came up with Haplogroup Tree Mutation Mapper which is the first experimental feature that can be instantly tested by biogeek customers (a large portion of the company’s customer base) in its freshly launched technology sandbox 23andMe Labs that is much like Google Labs.
Haplogroup Tree Mutation Mapper “shows you which particular mutations in a person’s mitochondrial DNA (maternal ancestry) or Y chromosome (paternal ancestry) were used to determine their haplogroup assignment.”
Basically you are picking the Y chromosome or type the name of a maternal mitochondrial haplogroup (like T) into the search box and as a result you get a list back with the position and id-s of the defining mutations. With that information you can play different genetic genealogy games if you like.
But playing with a pure textual list of SNPs doesn’t sound too fascinating and the tool is not really a “Mapper” as there’s no visualization included. Wouldn’t it be nice if you can visualize all those haplogroup defining SNP positions at once and get extra biological information on them right away? Well, you cannot do that within the 23andMe website but you can do that with Mitowheel which is a graphical representation of the circular human mitochondrial genome (Disclaimer: I am part of developer team, see post and the Mitowheel blog).
For instance the SNPs on the left are parts of the T haplogroup defining mutations used by 23andMe. The rCRS is the revised Cambridge Reference Sequence, the rs<numbers> are the reference cluster IDs of SNPs. rCRS is a reconstruction of a single European individual’s mtDNA, the source was an unnamed placenta without further identity and it contains several rare alleles. I’ve also heard rumors that some blurry nucleotides were replaced by cow DNA. The rCRS nevertheless provides a uniform nucleotide numbering scheme (0-16569) even if the 3106 position is a phantom position (like chief evangelist) as there was an incorrect duplication of 3107C in the original sequence. So if you check the rCRS positions on the list, the one you should use in Mitowheel is +1 position away that you can see in parentheses if you click on the individual SNP rsids within the 23andMe site.
So here are all the positions 23andMe is using for T haplotyping and you can type them into the Mitowheel search box: 10463, 13368, 14905, 15607, 15928, 188, 4917, 709, 8697 and step through all of them by clicking the arrow in the search box and get a lot of extra information by checking the info popup box.
As a 23andMe customer you can instantly look for functional information on your particular SNPs with Mitowheel by adding the nucleotide letters of your specific mutation to the positions like in 8697A, so the following is the result of the search for all of my T defining SNPs: 10463C, 13368A, 14905A, 15607G, 15928A, 1888A, 4917G, 709A, 8697A
As Mitowheel incorporates data on fully sequenced human mitochondrial genomes that have been deposited in the GenBank database the allele frequencies of 23andMe customers can be checked at those positions and groups can be created based on Gábor Zsurka’s, Mitowheel founder, post. Each little gray bar above or below a nucleotide letter represents the number of individuals who carry a SNP at the given position as compared to the revised Cambridge reference sequence.
The group creating search looks like the following in case of my T defining SNPs (a plus sign is added to the search items above):
+10463C, +13368A, +14905A, +15607G, +15928A, +1888A, +4917G, +709A, +8697A
Did you know that if you have 23andMe results, you can for a limited time upload the 23andMe raw data into deCODEme and compare? See: http://www.decodeme.com/data-upload
thank you for share us.
Really interesting post, as usual.
электронная почта без регистрации
Wow It’s wonderful information.
Hello everyone handedness for information Visualize 23andMe haplogroup defining SNPs with Mitowheelใ
ถ่ายภาพ
mp3 скачать бесплатно
This is really a terrific deal for a critical article, I seriously discovered your blog by mistake when researching on Msn for some thing diffrent closely connected, in any case prior to I ramble on too a lot I would just like to say simply how much I cherished your article, I’ve saved your web page as well as obtained your Rss, Yet again thank you extremely significantly for your article maintain up the wonderful work.
helpogroup is fantastic Make Us Healthy
Hi, this is a nice information for me. Your post has a good quality.
Nice way of explaining this subject, this line of content is very interesting.
Thank you very much this article helpful to me right now.
I am looking for sites with good content to your site for a long time. I finally found. You write so well explained and I understand that Phop clear. Thanks again, and make sure that good things happen to like this.
Your post very well. I read and benefit from your articles. Thanks for the great article.
I have read the articles you write an article that was considered quite good. Now I’m doing thesis about the article on the Internet are good, thanks for the article.
Journaled filesystems were of course the earlier fad. In this mechanism a copy of any metadata and sometimes data that is to be modified is kept in a journal, a fixed area of the disk or another disk, that logs each modification. In this mechanism the journal is replayed on reboot and the filesystem is left in a consistent state. The problem with journaling is either it’s very simple and uses a tremendous amount of space and I/O with a strict transaction model that prevents some concurrency, or it becomes incredibly complex, to the tune of over 20,000 lines of code in xfs. Still I have questions about concurrency when multiple transactions affect a block in xfs, but I need to dig deeper to understand this.
Genbank It’s wonderful.
As millions of people who want to lose weight, but youDid he can not succeed in a kind of worry about your weight yanıyorsunuz more? You might think, and this process will be much easier to lose weight in a healthy way to get over … Now a much more difficult as it used to have a nice view, but you have to do is that you want to attenuation.
Thanks for the new knowledge. I was taught in a written report on this post just to send this project next month. Thanks again.
I want a source that you used to write. Please Tell me the boys that this article came from. Thanks in advance offline. wanida1983@hotmail.com
I based the content of this page for a long time. I have come across this web page. It’s great. I like your web page.
In this way we can commit any completed ‘transactions’ while keeping the disk state consistent. Softdep also allows these dependencies to discover operations which cancel each other out and thus nothing makes it to disk. For example, let’s say you create a temporary file and then remove it after writing some blocks
sale Before Price Up for Laptops For Sale You will get lowest price LAPTOP FOR SALE and discount Toshiba Acer Dell Vaio laptop $$ Lowest Price and FREE with Super Saver Shipping.
Your blog is very nice for share.
I seriously discovered your blog by mistake when researching on Msn for some thing diffrent closely connected, in any case prior to I ramble on too a lot. ผลบอลวันนี้ ผลบอล ผลบอลสด
Your blog is very nice for share.
I’glad to read your site,thank you
very nice site,
I’glad to read your site,thank you ถ่ายวีดีโอ
Great site, Thank you.
Thank you for site, Very nice.
Very Great !!!!!