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Record W2811036128 · doi:10.1101/001552

Ancient human genomes suggest three ancestral populations for present-day Europeans

2013· article· en· W2811036128 on OpenAlexaff
Iosif Lazaridis, Nick Patterson, Alissa Mittnik, Gabriel Renaud, Swapan Mallick, Karola Kirsanow, Peter H. Sudmant, Joshua G. Schraiber, Sergi Castellano, Mark Lipson, Bonnie Berger, Christos Economou, Ruth Bollongino, Qiaomei Fu, Kirsten I. Bos, Susanne Nordenfelt, Heng Li, Cesare de Filippo, Kay Prüfer, Susanna Sawyer, Cosimo Posth, Wolfgang Haak, Fredrik Hallgren, Elin Fornander, Nadin Rohland, Dominique Delsate, Michael Francken, Jean-Michel Guinet, Joachim Wahl, George Ayodo, Hamza A. Babiker, Graciela Bailliet, Elena Balanovska, Oleg Balanovsky, Ramiro Barrantes, Gabriel Bedoya, Haim Ben‐Ami, Judit Bene, Fouad Berrada, Cláudio M. Bravi, Francesca Brisighelli, George Busby, Francesco Calı̀, Mikhail Churnosov, David E.C. Cole, Daniel Corach, Larissa D. Damba, George van Driem, Stanislav Dryomov, Jean‐Michel Dugoujon, С.А. Федорова, Irene Gallego Romero, Marina Gubina, Michael F. Hammer, Brenna M. Henn, Tor Hervig, Uğur Hodoğlugil, Aashish R. Jha, Sena Karachanak-Yankova, Р. И. Хусаинова, Э. К. Хуснутдинова, Rick A. Kittles, Toomas Kivisild, William Klitz, Vaidutis Kučinskas, Alena Kushniarevich, Leila Laredj, Sergey Litvinov, Theologos Loukidis, Robert W. Mahley, Béla Melegh, Ene Metspalu, Julio Molina, Joanna L. Mountain, Klemetti Näkkäläjärvi, Desislava Nesheva, Thomas Nyambo, L. P. Osipova, Jüri Parik, Федор Алексеевич Платонов, Olga L. Posukh, Valentino Romano, Francisco Rothhammer, Igor Rudan, Ruslan Ruizbakiev, Hovhannes Sahakyan, Antti Sajantila, Antonio Salas, Elena B. Starikovskaya, Ayele Tarekegn, Драга Тончева, Shahlo Тurdikulova, Ingrida Uktverytė, Olga Utevska, René Vásquez, Mercedes Villena, М. И. Воевода, Cheryl A. Winkler, Levon Yepiskoposyan, Pierre Zalloua, Tatijana Zemunik, Alan Cooper, Cristian Capelli, Mark Thomas, Andrés Ruiz‐Linares, Sarah A. Tishkoff, Lalji Singh, Kumarasamy Thangaraj, Richard Villems, David Comas, R. I. Sukernik, Mait Metspalu, Matthias Meyer, Evan E. Eichler, Joachim Bürger, Montgomery Slatkin, Svante Pääbo, Janet Kelso, David Reich, Johannes Krause

Bibliographic record

VenuebioRxiv (Cold Spring Harbor Laboratory) · 2013
Typearticle
Languageen
FieldBiochemistry, Genetics and Molecular Biology
TopicForensic and Genetic Research
Canadian institutionsUniversity of Toronto
FundersEuropean Social FundTartu ÜlikoolMax-Planck-GesellschaftHungarian Scientific Research FundRussian Academy of SciencesEesti TeadusfondiEuropean CommissionRussian Foundation for Basic ResearchNational Institutes of HealthNational Science Foundation
KeywordsDiversification (marketing strategy)GeographyGenomePopulationEuropean populationHuman migrationBiologyAncient DNAEvolutionary biologyDemographyGeneticsGene

Abstract

fetched live from OpenAlex

We sequenced genomes from a ∼7,000 year old early farmer from Stuttgart in Germany, an ∼8,000 year old hunter-gatherer from Luxembourg, and seven ∼8,000 year old hunter-gatherers from southern Sweden. We analyzed these data together with other ancient genomes and 2,345 contemporary humans to show that the great majority of present-day Europeans derive from at least three highly differentiated populations: West European Hunter-Gatherers (WHG), who contributed ancestry to all Europeans but not to Near Easterners; Ancient North Eurasians (ANE), who were most closely related to Upper Paleolithic Siberians and contributed to both Europeans and Near Easterners; and Early European Farmers (EEF), who were mainly of Near Eastern origin but also harbored WHG-related ancestry. We model these populations’ deep relationships and show that EEF had ∼44% ancestry from a “Basal Eurasian” lineage that split prior to the diversification of all other non-African lineages.

Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.

How this classification was reachedexpand

Full frame distilled prediction

Teacher imitation

Not calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.

metaresearch head score (Codex)0.000
metaresearch head score (Gemma)0.000
Version: codex-gemma-dda1882f352aValidation status: machine_predicted_unvalidated
Candidate categoriesnone
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Bench or experimental · Consensus signal: none
GenreCandidate signal: Empirical · Consensus signal: Empirical
Teacher disagreement score0.663
Threshold uncertainty score0.801

Codex and Gemma teacher scores by category

CategoryCodexGemma
Metaresearch0.0000.000
Meta-epidemiology (narrow)0.0000.000
Meta-epidemiology (broad)0.0000.000
Bibliometrics0.0000.000
Science and technology studies0.0000.000
Scholarly communication0.0000.000
Open science0.0000.000
Research integrity0.0000.000
Insufficient payload (model declined to judge)0.0000.000

Machine scores (provisional)

The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.

Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.

Opus teacher head0.029
GPT teacher head0.266
Teacher spread0.237 · how far apart the two teachers sit on this one work
Validation statusscore_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it

Classification

machine, unvalidated

Machine predicted; a candidate call from one teacher head, not a consensus.

The models applied no category: nothing in the taxonomy fit this work.
Study designBench or experimental
Domainnot available
GenreEmpirical

How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".

Quick stats

Citations0
Published2013
Admission routes1
Has abstractyes

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