Student or educator? Sign up with your school email and get 6 months of Pro free.
Cited by 151

The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.

The phylogenetic and geographic structure of Y-chromosome haplogroup R1a

Underhill, Peter A, Poznik, G David, Rootsi, Siiri, Järve, Mari, Lin, Alice A, Wang, Jianbin, Passarelli, Ben, Kanbar, Jad, Myres, Natalie M, King, Roy J, Di Cristofaro, Julie, Sahakyan, Hovhannes, Behar, Doron M, Kushniarevich, Alena, Šarac, Jelena, Šaric, Tena, Rudan, Pavao, Pathak, Ajai Kumar, Chaubey, Gyaneshwer, Grugni, Viola, Semino, Ornella, Yepiskoposyan, Levon, Bahmanimehr, Ardeshir, Farjadian, Shirin, Balanovsky, Oleg, Khusnutdinova, Elza K, Herrera, Rene J, Chiaroni, Jacques, Bustamante, Carlos D, Quake, Stephen R, Kivisild, Toomas, Villems, Richard·2015·European Journal of Human Genetics

Overview

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.1038/ejhg.2014.50

Cites

3 of 3 references verified0 citation errors · 0 not checkable

Statistics

Verification

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Citations

Cites

Show all 3 references

Research works printed but not linked: 59

  1. Wei W, Ayub Q, Chen Y et al: A calibrated human Y-chromosomal phylogeny based on resequencing. Genome Res 2013; 23: 388–395. · DOI
  2. Poznik GD, Henn BM, Yee MC et al: Sequencing Y chromosomes resolves discrepancy in time to common ancestor of males versus females. Science 2013; 341: 562–565. · DOI · Paper page
  3. Francalacci P, Morelli L, Angius A et al: Low-pass DNA sequencing of 1200 Sardinians reconstructs European Y-chromosome phylogeny. Science 2013; 341: 565–569. · DOI
  4. Sims LM, Garvey D, Ballantyne J : Sub-populations within the major European and African derived haplogroups R1b3 and E3a are differentiated by previously phylogenetically undefined Y-SNPs. Hum Mutat 2007; 28: 97. · DOI
  5. Niederstätter H, Berger B, Erhart D, Parson W : Recently introduced Y-SNPs improve the resolution within Y-chromosome haplogroup R1b in a central European population sample (Tyrol, Austria). Forensic Sci Int Genet Suppl Series 2008; 1: 226–227. · DOI
  6. Sims LM, Garvey D, Ballantyne J : Improved resolution haplogroup G phylogeny in the Y chromosome, revealed by a set of newly characterized SNPs. PLoS One 2009; 4: e5792. · DOI
  7. Rocca RA, Magoon G, Reynolds DF et al: Discovery of Western European R1b1a2 Y chromosome variants in 1000 Genomes Project Data: an online community approach. PLoS One 2012; 7: e41634. · DOI
  8. Rootsi S, Magri C, Kivisild T et al: Phylogeography of Y-chromosome haplogroup I reveals distinct domains of prehistoric gene flow in Europe. Am J Hum Genet 2004; 75: 128–137. · DOI
  9. Rootsi S, Zhivotovsky LA, Baldovic M et al: A counter-clockwise northern route of the Y-chromosome haplogroup N from Southeast Asia towards Europe. Eur J Hum Genet 2007; 15: 204–211. · DOI
  10. Rootsi S, Myres NM, Lin AA et al: Distinguishing the co-ancestries of haplogroup G Y-chromosomes in the populations of Europe and the Caucasus. Eur J Hum Genet 2012; 20: 1275–1282. · DOI · Paper page
  11. Karafet TM, Mendez FL, Meilerman MB, Underhill PA, Zegura SL, Hammer MF : New binary polymorphisms reshape and increase resolution of the human Y chromosomal haplogroup tree. Genome Res 2008; 18: 830–838. · DOI · Paper page
  12. Myres NM, Rootsi S, Lin AA et al: A major Y-chromosome haplogroup R1b Holocene era founder effect in Central and Western Europe. Eur J Hum Genet 2011; 19: 95–101. · DOI · Paper page
  13. Chiaroni J, Underhill PA, Cavalli-Sforza LL : Y chromosome diversity, human expansion, drift, and cultural evolution. Proc Natl Acad Sci USA 2009; 106: 20174–20179. · DOI
  14. Kayser M, Lao O, Anslinger K et al: Significant genetic differentiation between Poland and Germany follows present-day political borders, as revealed by Y-chromosome analysis. Hum Genet 2005; 117: 428–443. · DOI · Paper page
  15. Arredi B, Poloni ES, Tyler-Smith C : The peopling of Europe; in Crawford MH (ed): Anthropological Genetics: Theory, Methods and Applications. Cambridge: Cambridge University Press, 2007, pp 380–408.
  16. Balaresque P, Bowden GR, Adams SM et al: A predominantly neolithic origin for european paternal lineages. PLoS Biol 2010; 8: e1000285. · DOI · Paper page
  17. Pinhasi R, Thomas MG, Hofreiter M, Currat M, Burger J : The genetic history of Europeans. Trends Genet 2012; 28: 496–505. · DOI
  18. Underhill PA, Myres NM, Rootsi S et al: Separating the post-Glacial coancestry of European and Asian Y chromosomes within haplogroup R1a. Eur J Hum Genet 2010; 18: 479–484. · DOI · Paper page
  19. Cruciani F, Trombetta B, Antonelli C et al: Strong intra- and inter-continental differentiation revealed by Y chromosome SNPs M269, U106 and U152. Forensic Sci Int Gentic 2011; 5: E49–E52. · DOI
  20. Busby GB, Brisighelli F, Sanchez-Diz P et al: The peopling of Europe and the cautionary tale of Y chromosome lineage R-M269. Proc Biol Sci 2012; 279: 884–892. · DOI
  21. Larmuseau MH, Vanderheyden N, Van Geystelen A, van Oven M, Kayser M, Decorte R : Increasing phylogenetic resolution still informative for Y chromosomal studies on West-European populations. Forensic Sci Int Genet 2013; 9: 179–185. · DOI
  22. Balanovsky O, Dibirova K, Dybo A et al: Parallel evolution of genes and languages in the Caucasus region. Mol Biol Evol 2011; 28: 2905–2920. · DOI
  23. Rebala K, Martinez-Cruz B, Tonjes A et al: Contemporary paternal genetic landscape of Polish and German populations: from early medieval Slavic expansion to post-World War II resettlements. Eur J Hum Genet 2013; 21: 415–422. · DOI
  24. Varzari A, Kharkov V, Nikitin AG et al: Paleo-Balkan and Slavic contributions to the genetic pool of Moldavians: insights from the Y chromosome. PLoS One 2013; 8: e53731. · DOI · Paper page
  25. Karachanak S, Grugni V, Fornarino S et al: Y-chromosome diversity in modern Bulgarians: new clues about their ancestry. PLoS One 2013; 8: e56779. · DOI
  26. Kushniarevich A, Sivitskaya L, Danilenko N et al: Uniparental genetic heritage of Belarusians: encounter of rare Middle Eastern Matrilineages with a Central European mitochondrial DNA pool. PLoS One 2013; 8: e66499. · DOI
  27. Pamjav H, Feher T, Nemeth E, Padar Z : Brief communication: new Y-chromosome binary markers improve phylogenetic resolution within haplogroup R1a1. Am J Phys Anthropol 2012; 149: 611–615. · DOI
  28. King RJ, Ozcan SS, Carter T et al: Differential Y-chromosome Anatolian influences on the Greek and Cretan Neolithic. Ann Hum Genet 2008; 72: 205–214. · DOI
  29. Martinez L, Underhill PA, Zhivotovsky LA et al: Paleolithic Y-haplogroup heritage predominates in a Cretan highland plateau. Eur J Hum Genet 2007; 15: 485–493. · DOI
  30. Cinnioglu C, King R, Kivisild T et al: Excavating Y-chromosome haplotype strata in Anatolia. Hum Genet 2004; 114: 127–148. · DOI · Paper page
  31. Luis JR, Rowold DJ, Regueiro M et al: The Levant versus the Horn of Africa: evidence for bidirectional corridors of human migrations. Am J Hum Genet 2004; 74: 532–544. · DOI
  32. Cadenas AM, Zhivotovsky LA, Cavalli-Sforza LL, Underhill PA, Herrera RJ : Y-chromosome diversity characterizes the Gulf of Oman. Eur J Hum Genet 2008; 16: 374–386. · DOI
  33. Regueiro M, Cadenas AM, Gayden T, Underhill PA, Herrera RJ : Iran: tricontinental nexus for Y-chromosome driven migration. Hum Hered 2006; 61: 132–143. · DOI
  34. Di Cristofaro J, Pennarun E, Mazieres S et al: Afghan Hindu Kush: Where Eurasian sub-continent gene flows converge. PLoS One 2013; 8: e76748. · DOI · Paper page
  35. Grugni V, Battaglia V, Hooshiar Kashani B et al: Ancient migratory events in the Middle East: new clues from the Y-chromosome variation of modern Iranians. PLoS One 2012; 7: e41252. · DOI
  36. Chiaroni J, King RJ, Myres NM et al: The emergence of Y-chromosome haplogroup J1e among Arabic-speaking populations. Eur J Hum Genet 2010; 18: 348–353. · DOI
  37. Sengupta S, Zhivotovsky LA, King R et al: Polarity and temporality of high-resolution y-chromosome distributions in India identify both indigenous and exogenous expansions and reveal minor genetic influence of Central Asian pastoralists. Am J Hum Genet 2006; 78: 202–221. · DOI · Paper page
  38. Fornarino S, Pala M, Battaglia V et al: Mitochondrial and Y-chromosome diversity of the Tharus (Nepal): a reservoir of genetic variation. BMC Evol Biol 2009; 9: 154. · DOI
  39. Behar DM, Thomas MG, Skorecki K et al: Multiple origins of Ashkenazi Levites: Y chromosome evidence for both near Eastern and European ancestries. Am J Hum Genet 2003; 73: 768–779. · DOI
  40. Behar DM, Yunusbayev B, Metspalu M et al: The genome-wide structure of the Jewish people. Nature 2010; 466: 238–242. · DOI
  41. Rootsi S, Behar DM, Jarve M et al: Phylogenetic applications of whole Y-chromosome sequences and the Near Eastern origin of Ashkenazi Levites. Nat Commun 2013; 4: 2928. · DOI
  42. Langmead B, Trapnell C, Pop M, Salzberg SL : Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 2009; 10: R25. · DOI · Paper page
  43. Nei M : Molecular Evolutionary Genetics. New York: Columbia University Press, 1987. · DOI
  44. Zhivotovsky LA, Underhill PA, Cinnioglu C et al: The effective mutation rate at Y chromosome short tandem repeats, with application to human population-divergence time. Am J Hum Genet 2004; 74: 50–61. · DOI
  45. Goedbloed M, Vermeulen M, Fang RN et al: Comprehensive mutation analysis of 17 Y-chromosomal short tandem repeat polymorphisms included in the AmpFlSTR Yfiler PCR amplification kit. Int J Legal Med 2009; 123: 471–482. · DOI
  46. Underhill PA, Passarino G, Lin AA et al: The phylogeography of Y chromosome binary haplotypes and the origins of modern human populations. Ann Hum Genet 2001; 65: 43–62. · DOI
  47. Chennakrishnaiah S, Perez D, Gayden T, Rivera L, Regueiro M, Herrera RJ : Indigenous and foreign Y-chromosomes characterize the Lingayat and Vokkaliga populations of Southwest India. Gene 2013; 526: 96–106. · DOI
  48. Derenko M, Malyarchuk B, Denisova GA et al: Contrasting patterns of Y-chromosome variation in South Siberian populations from Baikal and Altai-Sayan regions. Hum Genet 2006; 118: 591–604. · DOI
  49. Haak W, Brandt G, de Jong HN et al: Ancient DNA, Strontium isotopes, and osteological analyses shed light on social and kinship organization of the Later Stone Age. Proc Natl Acad Sci USA 2008; 105: 18226–18231. · DOI
  50. Haak W, Balanovsky O, Sanchez JJ et al: Ancient DNA from European early neolithic farmers reveals their near eastern affinities. PLoS Biol 2010; 8: e1000536. · DOI · Paper page
  51. Sherratt A : The transformation of early agrarian Europe: the later Neolithic and Copper Ages 4500-2500 BC; in: Cunliffe B (ed): Prehistoric Europe: An Illustrated History. Oxford: Oxford University Press, 1998, pp 167–201.
  52. Mielnik-Sikorska M, Daca P, Malyarchuk B et al: The history of Slavs inferred from complete mitochondrial genome sequences. PLoS One 2013; 8: e54360. · DOI
  53. Anthony DW : The horse, the wheel and language. How Bronze-Age Riders from the Eurasian Steppes Shaped the Modern World. Princeton, NJ: Princeton University Press, 2007.
  54. Xue Y, Wang Q, Long Q et al: Human Y chromosome base-substitution mutation rate measured by direct sequencing in a deep-rooting pedigree. Curr Biol 2009; 19: 1453–1457. · DOI
  55. Mendez FL, Krahn T, Schrack B et al: An African American paternal lineage adds an extremely ancient root to the human Y chromosome phylogenetic tree. Am J Hum Genet 2013; 92: 454–459. · DOI
  56. Brotherton P, Haak W, Templeton J et al: Neolithic mitochondrial haplogroup H genomes and the genetic origins of Europeans. Nat Commun 2013; 4: 1764. · DOI
  57. Gray RD, Atkinson QD : Language-tree divergence times support the Anatolian theory of Indo-European origin. Nature 2003; 426: 435–439. · DOI
  58. Lamberg-Karlovsky C : Archaeology and language: The Indo-Iranians. Curr Anthrop 2002; 43: 63–88. · DOI
  59. Y Chromosome Consortium: A nomenclature system for the tree of human Y-chromosomal binary haplogroups. Genome Res 2002; 12: 339–348. · DOI · Paper page

Cited by

Metadata

Authors
Underhill, P. A., Poznik, G. D., Rootsi, S., Järve, M., Lin, A. A., Wang, J., Passarelli, B., Kanbar, J., Myres, N. M., King, R. J., Di Cristofaro, J., Sahakyan, H., Behar, D. M., Kushniarevich, A., Šarac, J., Šaric, T., Rudan, P., Pathak, A. K., Chaubey, G., Grugni, V., Semino, O., Yepiskoposyan, L., Bahmanimehr, A., Farjadian, S., Balanovsky, O., Khusnutdinova, E. K., Herrera, R. J., Chiaroni, J., Bustamante, C. D., Quake, S. R., Kivisild, T., & Villems, R.
Venue
European Journal of Human Genetics
Published
2014-03-26
Volume
23
Issue
1
Pages
124-131
ISSN
  • 1018-4813
  • 1476-5438
Cited by
151
References
3
Language
en

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review