tag:blogger.com,1999:blog-4123559132014627431.post9020588124228485707..comments2024-03-28T11:48:42.197-07:00Comments on Eurogenes Blog: Downloadable genotypes of present-day and ancient DNA dataDavidskihttp://www.blogger.com/profile/04637918905430604850noreply@blogger.comBlogger86125tag:blogger.com,1999:blog-4123559132014627431.post-51227210887718697862019-04-12T10:47:15.550-07:002019-04-12T10:47:15.550-07:00@David
L-I0789 England_IA and I2609 England_CA_EB...@David<br /><br />L-I0789 England_IA and I2609 England_CA_EBA both cluster with and Anglo-Saxon, Germans, and Dutch. L-I0789 is almost certainly an Angle, Saxon, or Frisian, and it seems likely that I2609 is also a North Sea Germanic tribesman as well, because we see no such ancestry among the people of the continent in the Chalcolithic or Early Bronze Age. <br /><br /><a href="http://Open Genomeshttps://www.blogger.com/profile/11207443325849433636noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-62938113983420958022019-04-12T10:35:24.771-07:002019-04-12T10:35:24.771-07:00@David, if you don't mind and find it useful, ...@David, if you don't mind and find it useful, I'll continue to identify outliers or "archaeologically out of place" samples. I don't use "populations" or "population averages" for this reason, but I do use somewhat corresponding "periodization" (i.e. Medieval, Iron Age, Bronze Age, Chalcolithic, Neolithic, Mesolithic, Upper Paleolithic) which isOpen Genomeshttps://www.blogger.com/profile/11207443325849433636noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-34300173940270311132019-04-12T09:17:26.132-07:002019-04-12T09:17:26.132-07:00@David
If N47 is labeled as CWC_Poland_o then N49...@David<br /><br />If N47 is labeled as CWC_Poland_o then <i>N49 CWC_Poland should be labeled CWC_Poland_o</i> as well. Both cluster closely with I6579 Poland_EBA:<br /><br /><a href="http://open-genomes.org/analysis/PCA/clustering/N49%20CWC_Poland%20should%20be%20CWC_Poland_o%20like%20N47.png" rel="nofollow"><b>N49 CWC_Poland clusters closely with N47 CWC_Poland_o on the Global25 Ward's Open Genomeshttps://www.blogger.com/profile/11207443325849433636noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-17428637151865789832019-04-12T07:23:44.306-07:002019-04-12T07:23:44.306-07:00@David
RISE431 CWC_Proto−Unetice_Poland
(Y R1a1a...@David<br /><br />RISE431 CWC_Proto−Unetice_Poland<br /> (Y R1a1a1, mtDNA T2e) clusters with Germanic speakers. <br /><br /><a href="http://open-genomes.org/analysis/PCA/clustering/RISE431%20clusters%20with%20Germanic%20speakers.png" rel="nofollow"><b>RISE431 clusters with Germanic speakers on the Global25 Ward's distance-squared clustering tree</b></a><br /><br />Is RISE431 potentially from Open Genomeshttps://www.blogger.com/profile/11207443325849433636noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-17741305814834970712019-04-11T20:56:14.331-07:002019-04-11T20:56:14.331-07:00@Open Genomes
Does vik_KAL006 come up as an Eston...@Open Genomes<br /><br /><i>Does vik_KAL006 come up as an Estonian for you?</i><br /><br />I don't know, I can't really check at the moment. But that Sigtuna sample set is supposed to be kind of diverse as far as Swedish ancestry is concerned, so it makes sense that at least one of the samples shows ancestry from the East Baltic.<br />Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-86351744352365059782019-04-11T20:06:19.318-07:002019-04-11T20:06:19.318-07:00@David
vik_KAL006 Sweden_Viking_Age_Sigtuna is an...@David<br /><br />vik_KAL006 Sweden_Viking_Age_Sigtuna is an outlier who appears to be an Estonian. <br /><br /><a href="http://open-genomes.org/analysis/PCA/clustering/vik_KAL006%20Sweden_Viking_Age_Sigtuna%20clusters%20with%20Estonians.png" rel="nofollow"><b>vik_KAL006 Sweden_Viking_Age_Sigtuna on the Global25 Ward's distance-squared clustering tree</b></a><br /><br />Does vik_KAL006 come Open Genomeshttps://www.blogger.com/profile/11207443325849433636noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-6649223747037938712019-04-11T19:15:06.506-07:002019-04-11T19:15:06.506-07:00@David
RISE97 Sweden_LN 2025-1885 calBCE clusters...@David<br /><br />RISE97 Sweden_LN 2025-1885 calBCE clusters with Beakers, and seems to be a very early example of the Central European Beaker folk, regardless of the culture. <br /><br /><a href="http://open-genomes.org/analysis/PCA/clustering/RISE97_Sweden_LN_clusters_with_Beakers.png" rel="nofollow"><b>RISE97 Sweden_LK clusters with Beakers on the Global25 Ward's distance-squared Open Genomeshttps://www.blogger.com/profile/11207443325849433636noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-5458021362886104482019-04-11T04:38:56.141-07:002019-04-11T04:38:56.141-07:00This Czech Beaker looks Slavic in my PCA of Northe...This Czech Beaker looks Slavic in my PCA of Northern Europe too.<br /><br />https://4.bp.blogspot.com/--NJKtbkV6BM/XK8mMBO2f1I/AAAAAAAAHu0/sn8SrXUWjzwOzUABYA-Wx2qIniQP9CegwCLcBGAs/s1600/Beaker_Czech_I5025.png<br /><br />I'll mark this individual as an outlier, since there's no C14 date available and there's no way to be sure that this isn't just a reflection of substructure withinDavidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-37538715224264080552019-04-10T21:36:25.922-07:002019-04-10T21:36:25.922-07:00@David
I5025/RISE567 (female, mtDNA U5b2c), label...@David<br /><br />I5025/RISE567 (female, mtDNA U5b2c), labeled as a Czech Beaker, clusters very closely with modern and Medieval Slavs.<br /><br /><a href="http://open-genomes.org/analysis/PCA/clustering/I5025%20Beaker_Czech%20clusters%20with%20Slavs.png" rel="nofollow"><b>I5025/RISE567 clusters with Slavs on the Global25 Ward's distance-squared clustering tree</b></a><br /><br />Is it Open Genomeshttps://www.blogger.com/profile/11207443325849433636noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-45446970517474486552019-04-10T21:34:52.623-07:002019-04-10T21:34:52.623-07:00Yep, fixed.
Yep, fixed.<br />Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-67865296695836080722019-04-10T21:02:42.142-07:002019-04-10T21:02:42.142-07:00@David
Are the two individuals labeled Comb_Ceram...@David<br /><br />Are the two individuals labeled Comb_Ceramic:Tamula1 and Comb_Ceramic_Estonia:Tamula1 duplicates?Open Genomeshttps://www.blogger.com/profile/11207443325849433636noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-41667212060508540742019-04-09T22:57:43.422-07:002019-04-09T22:57:43.422-07:00@Open Genomes
I've now made those changes.@Open Genomes<br /><br />I've now made those changes.<br />Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-77193086292888197352019-04-09T13:32:27.661-07:002019-04-09T13:32:27.661-07:00@David
JK2134, JK2911, Pre-Ptolemaic Egypt, 780-5...@David<br /><br />JK2134, JK2911, Pre-Ptolemaic Egypt, 780-560 BCE; <br />JK2888, Ptolemaic Egypt, 97-2 BCE<br /><br />JK2134 is <i>not</i> from the New Kingdom, but is an Egyptian Priest of Osiris from Abusir from the Late Period / start of the Persian Era. He is J1-Z2313 and very likely J-Y2919.<br /><br />Can you please change JK2134 from Egypt_New_Kingdom to Egypt_Late_Period?Open Genomeshttps://www.blogger.com/profile/11207443325849433636noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-72025840422451185902019-04-09T11:59:23.401-07:002019-04-09T11:59:23.401-07:00@David, these are identical, Pazyrk_IA from Berel&...@David, these are identical, Pazyrk_IA from Berel' Kazakhstan:<br /><br /><a href="https://media.nature.com/original/nature-assets/ncomms/2017/170303/ncomms14615/extref/ncomms14615-s1.pdf" rel="nofollow"><b>Supplementary Table 20: https://media.nature.com/original/nature-assets/ncomms/2017/170303/ncomms14615/extref/ncomms14615-s1.pdf</b></a><br /><br />Supplementary Table 20. Genomic capture Open Genomeshttps://www.blogger.com/profile/11207443325849433636noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-6490200916230369682019-04-09T10:50:22.481-07:002019-04-09T10:50:22.481-07:00@David
I0562 and I0563 appear twice in the Global...@David<br /><br /><b>I0562 and I0563 appear twice in the Global25 sheet.</b><br /><br />Scythian_Pazyryk:I0562<br />Scythian_Pazyryk:I0563<br />Kazakhstan_Berel_IA:I0562<br />Kazakhstan_Berel_IA:I0563<br /><br />The Global25s are identical.<br /> <br />Which ones are they? <br /><br />Is this a bug in the Reich data?Open Genomeshttps://www.blogger.com/profile/11207443325849433636noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-11942890801165099432019-04-08T03:10:50.710-07:002019-04-08T03:10:50.710-07:00@ Simon.
Yep - stilll unfolding.
BTW there appar...@ Simon. <br />Yep - stilll unfolding. <br />BTW there apparently were some ''elite'' burials during the Polada period: Romagnano Loc, La Vela di Valbusa, Aosta,... Hopefully we see some of these analysed.Dragohttps://www.blogger.com/profile/06137547950290035805noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-77440990864964298882019-04-08T01:38:21.490-07:002019-04-08T01:38:21.490-07:00I also modeled myself:
[1] "distance%=1.7041...I also modeled myself:<br /><br />[1] "distance%=1.7041"<br /><br /> Simon<br /><br />Germany_Medieval,47.4<br />Hallstatt_Bylany:DA111,18.9<br />Balkans_BA:I3313,10.2<br />Maros,9.7<br />Lithuania_Late_Antiquity_low_res,4.9<br />Beaker_Italy_North,3.7<br />Egypt_Hellenistic,3.1<br />Levant_BA_South,2.1<br />Beaker_Sicily_no_steppe,0<br />Croatia_MBA,0<br />Mycenaean,0<br />Simon_Whttps://www.blogger.com/profile/04454497745874406294noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-2587509196038455312019-04-08T01:28:33.844-07:002019-04-08T01:28:33.844-07:00@ Davidski
Alright, thanks for the hint.@ Davidski<br /><br />Alright, thanks for the hint.Simon_Whttps://www.blogger.com/profile/04454497745874406294noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-89913718746941489372019-04-08T01:27:32.321-07:002019-04-08T01:27:32.321-07:00I also tried to model the Tuscans. I first used Ba...I also tried to model the Tuscans. I first used Bavarian Beakers as a source of their Italic ancestry. But this resulted in terribly overfitted models, which moreover didn't make much use of Hungary_BA and Maros. But if the Italics arrived during the LBA from Hungary, Austria or Southern Germany, then a model that only uses Bavarian Beakers without strong admixture from Bronze Age Hungary Simon_Whttps://www.blogger.com/profile/04454497745874406294noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-61824200439497879432019-04-08T01:20:46.920-07:002019-04-08T01:20:46.920-07:00@Simon
No wonder they didn't speak IE!
You c...@Simon<br /><br /><i>No wonder they didn't speak IE!</i><br /><br />You can't correlate IE speech with Yamnaya admixture in ancient Iberia, because the people who crashed into Iberia during the Copper Age didn't come straight from the steppe.<br /><br />Try modeling Bronze Age Iberians as Dutch, French and Swiss Beakers, because whatever language their Beaker ancestors spoke came fromDavidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-63640115727881748312019-04-08T01:14:04.933-07:002019-04-08T01:14:04.933-07:00Now I wanted to check if there's some none-CWC...Now I wanted to check if there's some none-CWC/non-Beaker admixture in the Hallstatt "Celts", or at least in the eastern Hallstatt culture which may have had a more Italic-related language. And indeed there seems to be a lot:<br /><br />[1] "distance%=3.8147"<br /><br /> Hallstatt_Bylany:DA111<br /><br />Germany_Unetice,36.6<br />Hungary_BA,26.5<br />Maros,24.5<br Simon_Whttps://www.blogger.com/profile/04454497745874406294noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-17696074489667844232019-04-08T00:56:40.794-07:002019-04-08T00:56:40.794-07:00Now for some Beakers and Iberians; Beaker_The_Neth...Now for some Beakers and Iberians; Beaker_The_Netherlands has more Steppe than Beaker_Hungary, as David already pointed out:<br /><br />[1] "distance%=3.2128"<br /><br /> Beaker_The_Netherlands<br /><br />Yamnaya_Samara,59.5<br />Barcin_N,26.5<br />WHG,14<br /><br />[1] "distance%=2.1467"<br /><br /> Beaker_Hungary<br /><br />Barcin_N,45.9<br />Yamnaya_Samara,Simon_Whttps://www.blogger.com/profile/04454497745874406294noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-60017032758459744162019-04-08T00:48:03.063-07:002019-04-08T00:48:03.063-07:00I did some Global25/nMonte runs with the updated d...I did some Global25/nMonte runs with the updated dataset. Always with nMonte 1.0 and scaled coordinates.<br /><br />First of all, the progression from Poland_TRB via Poland_GAC to CWC_Poland nicely shows how the Steppe admixture came in with the Corded Ware. There's just a tiny bit of Steppe admixture already in the GAC. Also striking how much the ratio WHG:Barcin increased along this Simon_Whttps://www.blogger.com/profile/04454497745874406294noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-33207167460438875702019-04-08T00:39:34.202-07:002019-04-08T00:39:34.202-07:00@ Dragos
"That’s a rather simplistic perspec...@ Dragos<br /><br />"That’s a rather simplistic perspective , no ?<br />Which horse culture would you have to find your real Italics ? (Kinda hard to follow your theories as your constantly “updating” your theories as the aDNA comes through :))"<br /><br />It's indeed more complicated, as even though the Terramare people didn't keep a lot of horses they seem to have had a horse Simon_Whttps://www.blogger.com/profile/04454497745874406294noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-49257733689213934922019-04-08T00:26:45.603-07:002019-04-08T00:26:45.603-07:00@FrankN: I would note these trees are hard to read...@FrankN: I would note these trees are hard to read sometimes, but just to clarify there is not really an analogy between Gepid+Roma+Upper Paleolithic as between Varna_o and the samples that are near on the tree. The branch lengths on the tree imply that Gepid_Serbia, Roma, Upper Paleolithic are separated on a very high order. Only branching together because these are "nearest neighbour"Matthttps://www.blogger.com/profile/04517454865405705885noreply@blogger.com