Evidence map›Paper›PMID 25963373›Full record

ReviewNature reviews. Genetics2015

Evidence for archaic adaptive introgression in humans.

Fernando Racimo, Sriram Sankararaman, Rasmus Nielsen, Emilia Huerta-Sánchez

Abstract readReview
In one paragraph

Review in Nature reviews. Genetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 270 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
270citing papers in PubMed, 1 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

270 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Trial
  3. Ancient DNA and Human Physiology.Physiology (Bethesda, Md.) · 2026
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210 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

4 authors.

Fernando RacimoDepartment of Integrative Biology, University of California, Berkeley, Berkeley, California 97420, USA.
Sriram SankararamanDepartment of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA.
Rasmus Nielsen1] Department of Integrative Biology, University of California, Berkeley, Berkeley, California 97420, USA. [2] Department of Statistics, University of California, Berkeley, Berkeley, California 97420, USA.
Emilia Huerta-SánchezMolecular and Cell Biology Unit, School of Natural Sciences, University of California, Merced, Merced, California 95343, USA.

Funding

Population Genetic Inferences From Dense Genotype DataR01HG003229 · NHGRI · CORNELL UNIVERSITY ITHACA · PI BUSTAMANTE, CARLOS DANIEL, CLARK, ANDREW G · 2004 to 2013
$4.8M
MODELS OF COMPLEX GENETIC SYSTEMSR01GM040282 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI SLATKIN, MONTGOMERY WILSON · 1988 to 2017
$4.4M
Statistical methods to infer structure and impact of ancient admixtureK99GM111744 · NIGMS · HARVARD MEDICAL SCHOOL · PI SANKARARAMAN, SRIRAM · 2014 to 2015
$128k
NHGRI NIH HHS R01 HG003229NHGRI NIH HHS R01HG003229-09NIGMS NIH HHS K99 GM111744NIGMS NIH HHS R01 GM040282NIGMS NIH HHS R01‑GM40282
6 · The paper itself

Abstract

As modern and ancient DNA sequence data from diverse human populations accumulate, evidence is increasing in support of the existence of beneficial variants acquired from archaic humans that may have accelerated adaptation and improved survival in new environments - a process known as adaptive introgression. Within the past few years, a series of studies have identified genomic regions that show strong evidence for archaic adaptive introgression. Here, we provide an overview of the statistical methods developed to identify archaic introgressed fragments in the genome sequences of modern humans and to determine whether positive selection has acted on these fragments. We review recently reported examples of adaptive introgression, grouped by selection pressure, and consider the level of supporting evidence for each. Finally, we discuss challenges and recommendations for inferring selection on introgressed regions.

Indexed as

Models, GeneticAdaptation, BiologicalAnimalsEvolution, MolecularGene FlowGenome, HumanHaplotypesHumansLinkage DisequilibriumMarkov ChainsNeanderthalsPhylogenySelection, Genetic

Identifiers

PMID25963373
PMCPMC4478293

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.