tag:blogger.com,1999:blog-7785493.post4820746301710002771..comments2024-01-04T04:11:55.717+02:00Comments on Dienekes’ Anthropology Blog: African population structure and/or Eurasian back-migration contribute to signal of "Neandertal admixture"Dienekeshttp://www.blogger.com/profile/02082684850093948970noreply@blogger.comBlogger6125tag:blogger.com,1999:blog-7785493.post-34258767621460133802012-08-17T06:51:42.160+03:002012-08-17T06:51:42.160+03:00"Why not a migration of Eurasians carrying Ne..."Why not a migration of Eurasians carrying Neandertal alleles into Africa with subsequent greater loss of Neandertal alleles in Africa than outside of Africa?" <br /><br />That does not fit the Occam's razor rule. It requires too many complications.terrythttps://www.blogger.com/profile/17327062321100035888noreply@blogger.comtag:blogger.com,1999:blog-7785493.post-1787071087840379292012-08-16T03:13:10.965+03:002012-08-16T03:13:10.965+03:00"On the other hand, the fact that there are l..."On the other hand, the fact that there are low-frequency SNPs in Europeans with Neandertal admixture that are also present in San argues against them being recent Eurasian introgression that is absent in San.<br /><br />Anyway you slice it, African population structure matters."<br /><br />Why not a migration of Eurasians carrying Neandertal alleles into Africa with subsequent greater loss of Neandertal alleles in Africa than outside of Africa?<br />German Dziebelhttps://www.blogger.com/profile/10703679732205862495noreply@blogger.comtag:blogger.com,1999:blog-7785493.post-68442558790567855172012-08-16T01:47:34.107+03:002012-08-16T01:47:34.107+03:00As far as I can tell, they only work with SNPs wit...As far as I can tell, they only work with SNPs with MAF less than 0.1 in French. If archaic SNPs introgressed into Africans, they'd have low MAF in Africans, which is what I tried to do here.Dienekeshttps://www.blogger.com/profile/02082684850093948970noreply@blogger.comtag:blogger.com,1999:blog-7785493.post-74683337879680661862012-08-16T01:27:09.426+03:002012-08-16T01:27:09.426+03:00Sankararaman et al. (2012) includes models of Afri...Sankararaman et al. (2012) includes models of African population structure in their simulations. They certainly don't dismiss it. In table 2 they have generation times since admixture for the various models. Population structure increases the time estimate and their upper bound is at 86,000, which is getting pretty close to Skhul and Qafzeh. Remember they are estimating most recent so there could of been 2 events for Europeans. I'd bet that the calculation for East asians places it right at Skhul and Qafzeh. jeffhsu3https://www.blogger.com/profile/09614165485710166361noreply@blogger.comtag:blogger.com,1999:blog-7785493.post-18064844030572578512012-08-16T01:01:27.297+03:002012-08-16T01:01:27.297+03:00Yes, but since the panel I used was ascertained in...Yes, but since the panel I used was ascertained in a San individual, so it's probably biased to polymorphism present in that population.<br /><br />On the other hand, the fact that there are low-frequency SNPs in Europeans with Neandertal admixture that are also present in San argues against them being recent Eurasian introgression that is absent in San.<br /><br />Anyway you slice it, African population structure matters.Dienekeshttps://www.blogger.com/profile/02082684850093948970noreply@blogger.comtag:blogger.com,1999:blog-7785493.post-36690702797204343422012-08-16T00:42:04.673+03:002012-08-16T00:42:04.673+03:00"It turns out that the "Neandertal admix..."It turns out that the "Neandertal admixture" signal persists even in the class of SNPs with MAF less than 10% in the Yoruba and MbutiPygmy."<br /><br />What about San? Does it persist in San as well? German Dziebelhttps://www.blogger.com/profile/10703679732205862495noreply@blogger.com