tag:blogger.com,1999:blog-4123559132014627431.post3223087992889567924..comments2024-03-18T22:01:02.498-07:00Comments on Eurogenes Blog: Smarter than the average bearDavidskihttp://www.blogger.com/profile/04637918905430604850noreply@blogger.comBlogger24125tag:blogger.com,1999:blog-4123559132014627431.post-23161216845859408572015-09-03T15:52:04.376-07:002015-09-03T15:52:04.376-07:00Nice work davidski. Sicilians look basically Middl...Nice work davidski. Sicilians look basically Middle Eastern on these and plot far away from Europe. Big gaping gap between modern South Europe and LBK, which of course means a big shift east due to Yamna.<br /><br />I dont see Cyprus here but figure they will be in the same region as Sicily.Anonymousnoreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-61386136334564808682015-08-26T01:12:51.986-07:002015-08-26T01:12:51.986-07:00how can I calculate my coordinates? :) some formul...how can I calculate my coordinates? :) some formula involving GedMATCH run results? thanks (MD2)WesternPonticSteppehttps://www.blogger.com/profile/09398185729471688425noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-72091224094430905972015-08-25T03:48:45.390-07:002015-08-25T03:48:45.390-07:00"Holy shit, you've never heard of Yogi Be..."Holy shit, you've never heard of Yogi Bear? I must be getting old."<br /><br />:D Booboo, picnic baskets etc. aren't stock phrases among the younger lot... Unless they watch re-runs in developing countries. DMXXhttps://www.blogger.com/profile/16689998564656086919noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-71631971193861219832015-08-24T23:57:45.658-07:002015-08-24T23:57:45.658-07:00Ha ha
They stopped playing Hanna-Barbara cartoons...Ha ha <br />They stopped playing Hanna-Barbara cartoons like 20 years ago, unfortunately Anonymoushttps://www.blogger.com/profile/12259212254098264600noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-12758102457974583002015-08-24T19:55:43.472-07:002015-08-24T19:55:43.472-07:00Thanks.Thanks.Anonymoushttps://www.blogger.com/profile/16902043605884842323noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-339032256021622522015-08-24T19:30:04.524-07:002015-08-24T19:30:04.524-07:00The results will depend on the age, coverage depth...The results will depend on the age, coverage depth, ancestry of the ancient samples and design of the calculators. But in theory, we should only be testing the ancestry of the samples.<br /><br />So sometimes the outcomes will make a lot of sense, but much of the time they're best ignored.<br /> Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-24542555565445443692015-08-24T19:22:16.296-07:002015-08-24T19:22:16.296-07:00Thanks for the explanation. I know you have some i...Thanks for the explanation. I know you have some issues with Dienekes’ calculators as well, but there are some consistencies with his and your calculators’ results in Kennewick Man’s breakdowns: his Dodecad v3 has Kennewick Man showing 9% more “West European” than Anzick 1; and his Dodecad K12b has Kennewick Man showing a curiously higher ratio of “North European” to “Gedrosia” than Anzick 1. (Anonymoushttps://www.blogger.com/profile/16902043605884842323noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-60530113856683217192015-08-24T18:42:19.074-07:002015-08-24T18:42:19.074-07:00Well, keep in mind that the Kennewick Man's ge...Well, keep in mind that the Kennewick Man's genome is low coverage. And then there's also the calculator effect.<br /><br />Moreover, I've noticed that the samples coming out of the Copenhagen Uni aDNA lab must be run on transversion SNPs only when using ADMIXTURE and similar algorithms.<br /><br />You'll note that I mention this a lot whenever I run analyses with them here. In Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-62081594349900056102015-08-24T18:12:38.437-07:002015-08-24T18:12:38.437-07:00Okay then, but how would you explain him scoring 7...Okay then, but how would you explain him scoring 7.20% on the Atlantic component and 2.77% on the North Sea component in Eurogenes 15?Anonymoushttps://www.blogger.com/profile/16902043605884842323noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-7904765647583438652015-08-24T18:01:27.554-07:002015-08-24T18:01:27.554-07:00No he wouldn't. I have no idea where he'd ...No he wouldn't. I have no idea where he'd plot, but he'd probably be an outlier.<br /><br />Btw, for low coverage and old samples like Kennewick man the ANE K7 only really predicts the level of ANE accurately, more or less. You can ignore the other components.Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-36197353354619779362015-08-24T17:32:23.086-07:002015-08-24T17:32:23.086-07:00So does this mean that Kennewick Man would plot so...So does this mean that Kennewick Man would plot somewhere around the Iranians, since on the Eurogenes ANE K7 calculator he scored 16% WHG-UHG and 29% ANE?Anonymoushttps://www.blogger.com/profile/16902043605884842323noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-83444193809589617102015-08-24T16:47:30.318-07:002015-08-24T16:47:30.318-07:00Thanks. It is a nice complement, the EHG element (...Thanks. It is a nice complement, the EHG element (and SHG) variables really seems to help in boosting the position of the ancient LNBA Yamnaya influenced "north", compared to the WHG vs MA1 PCA / graphs, because of the strong affinities to EHG these populations have which others, particularly in the south of West Eurasia, lack.<br /><br />Considering these HG ancestries all together Matthttps://www.blogger.com/profile/04517454865405705885noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-31592351990119851522015-08-24T16:46:49.089-07:002015-08-24T16:46:49.089-07:00Holy shit, you've never heard of Yogi Bear? I ...Holy shit, you've never heard of Yogi Bear? I must be getting old.<br /><br />https://en.wikipedia.org/wiki/Yogi_Bear#CatchphrasesDavidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-39777432185830869262015-08-24T16:11:37.802-07:002015-08-24T16:11:37.802-07:00@Davidski,
"Smarter than the average bear&qu...@Davidski,<br /><br />"Smarter than the average bear"?! That doesn't make sense. Did you just give up thinking of a title name?Krefterhttps://www.blogger.com/profile/01055804913528477710noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-19542927284993456022015-08-24T15:19:54.122-07:002015-08-24T15:19:54.122-07:00Matt,
Here's the datasheet with EHG and SHG a...Matt,<br /><br />Here's the datasheet with EHG and SHG added.<br /><br />https://drive.google.com/file/d/0B9o3EYTdM8lQTmFWUnRUeWlKX2M/view?usp=sharing<br /><br />It produces a very nice PCA which looks a lot like my genotype-based PCA.<br /><br />https://drive.google.com/file/d/0B9o3EYTdM8lQb2d0Y1NwWnZxMUE/view?usp=sharing<br /><br />Mickey,<br /><br />The plots show that Europeans, West Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-61246782519499268832015-08-24T14:25:02.552-07:002015-08-24T14:25:02.552-07:00Graphing the Tajik_Shugnan stat against WHG is goo...Graphing the Tajik_Shugnan stat against WHG is good for breaking out the MN Neolithic Europeans (Remedello, Spain_MN, Baalberge MN) from populations close to them. This is because they are both relatively high in WHG and low in the Neolithic "West Asian" / teal that makes up part of the ancestry of Tajik_Shugnan (and possibly something to do with ENA). While the MN are also relatively Matthttps://www.blogger.com/profile/04517454865405705885noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-46606093108150590302015-08-24T13:46:48.589-07:002015-08-24T13:46:48.589-07:00The colour gradient makes it's a very pretty /...The colour gradient makes it's a very pretty / elegant looking stat demonstration. You could also add BedouinB as 0 on both stats, since BedouinB cannot by definition have any variance from itself (for an example - http://i.imgur.com/fsoh7w3.png).<br /><br />The Spanish samples in this view do seem quite strikingly more WHG like particularly comparing Spain_EN to LBK_EN, but perhaps also Matthttps://www.blogger.com/profile/04517454865405705885noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-92137491646547262062015-08-24T10:12:46.825-07:002015-08-24T10:12:46.825-07:00I definitely think that D-stats go crazy when one ...I definitely think that D-stats go crazy when one population has BEA and other (from the other side) has ASI. I think that an IBS sharing of Tajiks with other populations would give quite different results from these ones:<br /><br />https://docs.google.com/spreadsheets/d/1wLz53qVlZcVgPgYgkhzfzvzIuPdYT5nwVs_ofa3X6FU/edit?usp=sharing<br /><br />Albertohttps://www.blogger.com/profile/10924243765876609481noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-21820796518265672992015-08-24T08:10:25.481-07:002015-08-24T08:10:25.481-07:00So, do Indians (and Pakistanis) have any appreciab...So, do Indians (and Pakistanis) have any appreciable European ancestry?<br />Is this correlated at all with caste?<br />And what about south India?<br /><br />- and finally, is this the 'smoking gun', or can we expect decades' and hundreds of postings worth of quibbles by the usual suspects?John Thomashttps://www.blogger.com/profile/04454926902513067703noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-8246983941590603652015-08-24T06:38:41.178-07:002015-08-24T06:38:41.178-07:00Not sure what's happening with the images? Hav...Not sure what's happening with the images? Have a look now.<br /><br />I'm getting weird links from Google today. I'll try again tomorrow.Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-70523999233507739162015-08-24T06:22:12.790-07:002015-08-24T06:22:12.790-07:00Thanks David.
Yes, it doesn't look any better...Thanks David.<br /><br />Yes, it doesn't look any better, it looks worse. But what I find a bit surprising is the low affinity of Tajiks to Indian populations.<br /><br />D(Ju_hoan_North,MA1)(BedouinB,Druze) D=0.0248<br />D(Ju_hoan_North,Tajik_Shugnan)(BedouinB,Druze) D=0.0243<br /><br />D(Ju_hoan_North,MA1)(BedouinB,GujaratiD) D=0.0377<br />D(Ju_hoan_North,Tajik_Shugnan)(BedouinB,GujaratiD) Albertohttps://www.blogger.com/profile/10924243765876609481noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-21273953180327919462015-08-24T06:17:31.922-07:002015-08-24T06:17:31.922-07:00I can't see the images..I can't see the images..truthhttps://www.blogger.com/profile/08622344688109770244noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-20022704940920343942015-08-24T04:42:19.976-07:002015-08-24T04:42:19.976-07:00Well, using Tajik Shugnans doesn't make things...Well, using Tajik Shugnans doesn't make things better. It makes things worse. Here's the datasheet.<br /><br />https://drive.google.com/file/d/0B9o3EYTdM8lQVTZqNUNuc1c5VHM/view?usp=sharing<br /><br />It's an interesting question why it makes things worse, and I suspect it's because Indo-European languages were initially spread by groups during the Bronze Age with very high levels Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-33433988142658881292015-08-24T03:10:26.384-07:002015-08-24T03:10:26.384-07:00No surprise that WHG is the clear European marker ...No surprise that WHG is the clear European marker and can be used to separate Europeans from other populations. But regarding the language, yes, there's never going to be perfect correlation between genes and language for many reasons that you outlined above. However, I wonder if using something like Tajik instead of MA1 would give a significantly better correlation.Albertohttps://www.blogger.com/profile/10924243765876609481noreply@blogger.com