Interpreting polygenic scores, polygenic adaptation, and human phenotypic differences
Open accessAbstract
Recent analyses of polygenic scores have opened new discussions concerning the genetic basis and evolutionary significance of differences among populations in distributions of phenotypes. Here, we highlight limitations in research on polygenic scores, polygenic adaptation and population differences. We show how genetic contributions to traits, as estimated by polygenic scores, combine with environmental contributions so that differences among populations in trait distributions need not reflect corresponding differences in genetic propensity. Under a null model in which phenotypes are selectively neutral, genetic propensity differences contributing to phenotypic differences among populations are predicted to be small. We illustrate this null hypothesis in relation to health disparities between African Americans and European Americans, discussing alternative hypotheses with selective and environmental effects. Close attention to the limitations of research on polygenic phenomena is important for the interpretation of their relationship to human population differences.
AI snapshot
Written from the paper’s full text.
TL;DR
This review argues that population differences in polygenic scores are often overinterpreted because environmental, interaction, and statistical factors can produce phenotypic differences without corresponding genetic-propensity differences. It emphasizes neutral null expectations and cautions against attributing human phenotypic differences, including health disparities, to polygenic adaptation without strong evidence.
Key findings
- Polygenic score differences between populations do not directly reveal genetic propensity differences: environmental contributions can amplify, obscure, or reverse phenotype differences, and even high within-population heritability does not imply a between-population genetic difference (Fig. 1).
- Under a selectively neutral null model, expected population differences in polygenic traits are comparable in magnitude to the apportionment of human genetic diversity (QST ≈ FST), so phenotypic differences need not reflect natural selection; only strong directional selection would make selection a major explanation.
- In the health-disparities example, African Americans lost more years of life than European Americans in 28 of 36 physiologically diverse causes of death; under a neutral model with no genetic correlation, the binomial probability of at least 28 of 36 independent phenotypes being larger in one of a pair of populations is 0.0012, pointing toward systematic environmental effects such as racism rather than selection.
- Statistical limitations include poor transferability of GWAS effect sizes across populations, especially because most GWAS are in European-ancestry samples; ascertainment, linkage disequilibrium differences, and subtle ancestry differences can bias polygenic scores and exaggerate signals of polygenic adaptation, as seen in height analyses.
Methods
- Design: conceptual/review analysis rather than a primary data study; it synthesizes population-genetic theory, GWAS/polygenic score research, and polygenic adaptation literature.
- Data or sample: no new dataset is analyzed; the paper cites prior studies and uses a health-disparities example involving 36 causes of death and prior population-genetic models.
- Main analysis: verbal and graphical reasoning with null models, including neutral QST/FST expectations and a binomial computation for the 36-cause health-disparities example; figures illustrate genotype–environment–phenotype relationships.
Limitations
- Stated by the paper: polygenic scores ignore environmental influences; gene–gene and gene–environment interactions can make variant effects differ among populations; overlapping polygenic score distributions limit individual prediction; effect estimates may not transfer across populations due to ascertainment, linkage disequilibrium, and European-ancestry calibration; polygenic adaptation tests are sensitive to the choice of GWAS effect sizes.
- Evident from the text: the paper is a conceptual review/commentary without new empirical data, formal systematic review methods, or primary statistical analysis beyond illustrative models and cited computations.
- Evident from the text: its arguments depend on cited studies and simulations/figures, so the strength of its conclusions rests on the quality and representativeness of those external sources.
Model-written summary. Check it against the paper before relying on it.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
40 of 61 cited sources checked · 27 supported · 0 flagged · accuracy not yet measured
- Interpretationcitation
Many of the pre-genomic-era limitations on the use of heritability to make inferences about the genetic basis of phenotypic differences among populations continue to apply, in updated form, to polygenic scores.
“Although estimates of the contributions of specific genetic variants advance modern analyses beyond classical heritability statistics, many of the pre-genomic-era limitations on the use of heritability to make inferences about the genetic basis of phenotypic differences among populations [26–28] continue to apply, in updated form (Fig. 1).”
Quote in the paperSubstantial claim1 of 3 sources checked- cites [26] Lewontin, 1974, The analysis of variance and the analysis of causes, Am J Hum Genet
Couldn’t be matched to a paper in Crossref, so it can’t be checked.
- cites [27] Feldman, 1975, The heritability hang-up, Science source
- cites [28] Feldman, 2018, Missing compared to what? Revisiting heritability, genes and culture, Philos Trans R Soc Lond B source
- Interpretationcitation
One key component of the inference of polygenic adaptation is the use of an appropriate null expectation for polygenic score distributions and phenotypic differences.
“One key component of the inference of polygenic adaptation is the use of an appropriate null expectation for polygenic score distributions and phenotypic differences [12, 42].”
Quote in the paperSubstantial claim2 of 2 sources checked- cites [12] Berg, 2014, A population genetic signal of polygenic adaptation, PLoS Genet source
- cites [42] Edge, 2015, A general model of the relationship between the apportionment of human genetic diversity and the apportionment of human phenotypic diversity, Hum Biol source
The Introduction (page not provided) gives an expected magnitude for between-group differences in a neutral polygenic trait. The Discussion’s “Interpreting Group Differences in Phenotype” section (page not provided) uses that neutral expectation to assess possible selection. Our copy does not address null distributions for polygenic scores, so it supports the phenotypic-differences part but not that part of the claim. (LLM, conf=0.82)
Experimental — accuracy not yet measured
- Premisecitation
Large population differences in disease risk for well-known alleles such as APOE-ɛ4 in Alzheimer disease highlight the challenge of determining how population differences in effect size might be affected by interaction effects.
“Large population differences in disease risk for well-known alleles such as APOE-ɛ4 in Alzheimer disease [29, 30] highlight the challenge of determining how population differences in effect size might be affected by interaction effects.”
Quote in the paperSubstantial claim1 of 2 sources checked - Premisecitation
Using polygenic scores, it is now possible to combine information from millions of genomic variants to identify people whose overall polygenic risk of coronary artery disease is as high as that of patients with monogenic lipid disorders such as familial hypercholesterolemia.
“Using polygenic scores, it is now possible to combine information from millions of genomic variants to identify people whose overall polygenic risk of coronary artery disease is as high as that of patients with monogenic lipid disorders such as familial hypercholesterolemia [23].”
Quote in the paperNot a substantial claim1 of 1 sources checked- cites [23] Khera, 2018, Genome-wide polygenic scores for common diseases identify individuals with risk equivalent to monogenetic mutations, Nat Genet source
Split into 2 atoms — 1 confirmed, 1 partially supported, 0 disputed, 0 misattributed, 0 unverifiable. Expand the claim to see per-atom verdicts.
Experimental — accuracy not yet measured
- Premisecitation
Effect estimates might rely on sites that were ascertained for variability in one set of populations and whose systematic differences in allele frequencies between populations contribute to systematic biases in polygenic score estimates in other populations.
“Effect estimates might rely on sites that were ascertained for variability in one set of populations and whose systematic differences in allele frequencies between populations contribute to systematic biases in polygenic score estimates in other populations [31].”
Quote in the paperSubstantial claim1 of 1 sources checked- cites [31] Kim, 2018, Genetic disease risks can be misestimated across global populations, Genome Biol source
- Premisecitation
Polygenic scores have contributed new approaches to risk prediction for adverse phenotypes related to heart disease.
“For example, they have contributed new approaches to risk prediction for adverse phenotypes related to heart disease [21–23].”
Quote in the paperNot a substantial claim2 of 3 sources checked- cites [21] Kullo, 2016, Incorporating a genetic risk score into coronary heart disease risk estimates, Circulation source
- cites [22] Paquette, 2017, Polygenic risk score predicts prevalence of cardiovascular disease in patients with familial hypercholesterolemia, J Clin Lipidol source
- cites [23] Khera, 2018, Genome-wide polygenic scores for common diseases identify individuals with risk equivalent to monogenetic mutations, Nat Genet source
- Premisecitation
Under neutrality, the magnitude of phenotypic differences connects to the apportionment computation rather than the ancestry computation.
“analysis of models for the genetic basis of phenotypes finds that under neutrality, the magnitude of phenotypic differences connects to the apportionment computation rather than the ancestry computation [42, 44].”
Quote in the paperSubstantial claim2 of 2 sources checked- cites [42] Edge, 2015, A general model of the relationship between the apportionment of human genetic diversity and the apportionment of human phenotypic diversity, Hum Biol source
- cites [44] Edge, 2015, Implications of the apportionment of human genetic diversity for the apportionment of human phenotypic diversity, Stud Hist Philos Biol Biomed Sci source
- Premisecitation
Even among populations with European ancestry, subtle ancestry differences between samples can lead to polygenic scores that overstate between-population differences: small biases in locus-wise effect estimates that arise from the ancestry differences can potentially accumulate across loci.
“Even among populations with European ancestry, subtle ancestry differences between samples can lead to polygenic scores that overstate between-population differences: small biases in locus-wise effect estimates that arise from the ancestry differences can potentially accumulate across loci [34, 35].”
Quote in the paperSubstantial claim1 of 2 sources checked- cites [34] Berg, 2018, Reduced signal for polygenic adaptation of height in UK Biobank, bioRxiv
Couldn’t be matched to a paper in Crossref, so it can’t be checked.
- cites [35] Sohail, 2018, Signals of polygenic adaptation on height have been overestimated due to uncorrected population structure in genome-wide association studies, bioRxiv source
- Premisereasoning
Analogous measures of population differences in quantitative phenotypic traits and genetic loci-termed QST and FST, respectively-are approximately equal in neutral evolutionary models that include genetic drift but not natural selection.
“In other words, analogous measures of population differences in quantitative phenotypic traits and genetic loci—termed QST and FST, respectively—are approximately equal in neutral evolutionary models that include genetic drift but not natural selection.”
Quote in the paperSubstantial claim2 of 3 sources checked- cites [12] Berg, 2014, A population genetic signal of polygenic adaptation, PLoS Genet source
- cites [43] Leinonen, 2013, QST–FST comparisons: evolutionary and ecological insights from genomic heterogeneity, Nat Rev Genet source
- cites [44] Edge, 2015, Implications of the apportionment of human genetic diversity for the apportionment of human phenotypic diversity, Stud Hist Philos Biol Biomed Sci source
- The authors state this as an assumption: In the null model, phenotypes are selectively neutral (no selection occurs), and genetic drift acts independently at each locus.
- Premisecitation
Genetic differences among populations, as measured by FST, are small in comparison with variation within populations.
“The genetic apportionment computation shows that genetic differences among populations, as measured by FST, are small in comparison with variation within populations [45–47].”
Quote in the paperSubstantial claim2 of 3 sources checked- cites [45] Lewontin, 1972, The apportionment of human diversity, Evol Biol source
- cites [46] Barbujani, 1997, An apportionment of human DNA diversity, Proc Natl Acad Sci USA source
The Results and Discussion report that within-population differences account for about 84% of molecular variance, while differences among populations account for much less. The Materials and Methods describe analysis of molecular variance, not an FST calculation, so the comparison is supported but its attribution specifically to FST is not. (LLM, conf=0.86)
Experimental — accuracy not yet measured - cites [47] Rosenberg, 2011, A population-genetic perspective on the similarities and differences among worldwide human populations, Hum Biol source
- Interpretationcitation
The inference from the existence of differences in trait distributions between two populations that natural selection has acted to produce genetic differences between those populations requires several careful steps.
“However, the inference from the existence of differences in trait distributions between two populations that natural selection has acted to produce genetic differences between those populations requires several careful steps [41].”
Quote in the paperNot a substantial claim1 of 1 sources checked- cites [41] Novembre, 2018, Tread lightly interpreting polygenic tests of selection, Genetics source
- Premisecitation
Polygenic adaptation tests are sensitive to the choice of GWAS data that provide the effect sizes; effect sizes estimated from one study can generate erroneously exaggerated signatures of polygenic adaptation when assessing polygenic adaptation in a second dataset, even if two sets of effect sizes produce correlated polygenic scores.
“Recent studies of height have suggested that polygenic adaptation tests are sensitive to the choice of GWAS data that provide the effect sizes: even if two sets of effect sizes produce correlated polygenic scores, effect sizes estimated from one study can generate erroneously exaggerated signatures of polygenic adaptation when assessing polygenic adaptation in a second dataset [34, 35].”
Quote in the paperSubstantial claim1 of 2 sources checked- cites [34] Berg, 2018, Reduced signal for polygenic adaptation of height in UK Biobank, bioRxiv
Couldn’t be matched to a paper in Crossref, so it can’t be checked.
- cites [35] Sohail, 2018, Signals of polygenic adaptation on height have been overestimated due to uncorrected population structure in genome-wide association studies, bioRxiv source
Split into 2 atoms — 1 confirmed, 1 partially supported, 0 disputed, 0 misattributed, 0 unverifiable. Expand the claim to see per-atom verdicts.
Experimental — accuracy not yet measured
- Premisecitation
To date, strong effects of directional selection on human population differences have been verifiable primarily for traits connected to predictable categories of geographic variability, including dietary adaptations, infectious disease resistance and skin pigmentation.
“To date, strong effects of directional selection on human population differences have been verifiable primarily for traits connected to predictable categories of geographic variability, including dietary adaptations, infectious disease resistance and skin pigmentation [14–16].”
Quote in the paperSubstantial claim3 of 3 sources checked- cites [14] Novembre, 2009, Spatial patterns of variation due to natural selection in humans, Nat Rev Genet source
- cites [15] Lachance, 2013, Population genomics of human adaptation, Annu Rev Ecol Evol Syst source
- cites [16] Jeong, 2014, Adaptations to local environments in modern human populations, Curr Opin Genet Dev source
The section on genetic architecture reports strong signatures of recent positive selection for lactase persistence and skin-pigmentation variants, supporting the dietary and pigmentation examples. The Abstract mentions pathogen exposure as a selective pressure but does not establish strong directional selection for infectious-disease resistance. It also treats high-altitude adaptation as a major example, so the claimed emphasis on the listed categories is not fully supported. Page numbers are unavailable in our copy. (LLM, conf=0.84)
Experimental — accuracy not yet measured
- Premisecitation
A related computation of the overall influence of natural selection in human history, relying on measures of selection against deleterious variants rather than directional selection of favorable variants, does not suggest strong systematic differences in the magnitude of selection among different continental population groups.
“However, a related computation of the overall influence of natural selection in human history, relying on measures of selection against deleterious variants rather than directional selection of favorable variants, does not suggest strong systematic differences in the magnitude of selection among different continental population groups [50–52]”
Quote in the paperSubstantial claim3 of 3 sources checked- cites [50] Lohmueller, 2014, The distribution of deleterious genetic variation in human populations, Curr Opin Genet Dev source
Split into 2 atoms — 0 confirmed, 2 partially supported, 0 disputed, 0 misattributed, 0 unverifiable. Expand the claim to see per-atom verdicts.
Experimental — accuracy not yet measured - cites [51] Simons, 2014, The deleterious mutation load is insensitive to recent population history, Nat Genet source
Split into 2 atoms — 1 confirmed, 1 partially supported, 0 disputed, 0 misattributed, 0 unverifiable. Expand the claim to see per-atom verdicts.
Experimental — accuracy not yet measured - cites [52] Henn, 2015, Estimating the mutation load in human genomes, Nat Rev Genet source
Split into 2 atoms — 0 confirmed, 2 partially supported, 0 disputed, 0 misattributed, 0 unverifiable. Expand the claim to see per-atom verdicts.
Experimental — accuracy not yet measured
- Interpretationcitation
Systematic environmental effects that contribute to an increase in non-genetic risk factors in African Americans-current and historical racism, for instance-could explain the marked health differences between African Americans and European Americans.
“Whereas natural selection cannot easily explain the observed population difference, systematic environmental effects that contribute to an increase in non-genetic risk factors in African Americans—current and historical racism, for instance [53–55]—could, on the other hand, explain such marked differences.”
Quote in the paperSubstantial claim2 of 3 sources checked- cites [53] Paradies, 2006, A systematic review of empirical research on self-reported racism and health, Int J Epidemiol source
- cites [54] Gravlee, 2009, Genetic ancestry, social classification, and racial inequalities in blood pressure in southeastern Puerto Rico, PLoS One source
The Introduction reports higher hypertension prevalence among Black Americans than Whites and identifies racism and other social stressors as possible contributors. The Discussion (Hypertension in the African Diaspora) likewise says unequal exposure to adverse environmental conditions could explain blood-pressure differences without invoking genetic differences. The paper does not specifically address historical racism or establish this explanation for health differences generally; its analysis concerns blood pressure in southeastern Puerto Rico. (LLM, conf=0.83)
Experimental — accuracy not yet measured - cites [55] Williams, 2009, Discrimination and racial disparities in health: evidence and needed research, J Behav Med source
- Interpretationreasoning
Population differences in environmental factors are important for interpreting population differences in a phenotype distribution.
“First, population differences in environmental factors are important for interpreting population differences in a phenotype distribution.”
Quote in the paperSubstantial claim - Interpretationreasoning
Mean differences between populations in polygenic scores might not be informative for prediction about phenotype differences between randomly chosen people from a pair of populations if polygenic score distributions have substantial overlap.
“Finally, mean differences between populations in polygenic scores might not be informative for prediction about phenotype differences between randomly chosen people from a pair of populations if polygenic score distributions have substantial overlap (Fig. 1A, C and D).”
Quote in the paperSubstantial claim - Interpretationreasoning
Effect estimates might fail to consider many sites variable only in other populations.
“These estimates might also fail to consider many sites variable only in those other populations.”
Quote in the paperSubstantial claim - Interpretationreasoning
The potential for significant modification of the environmental contribution renders polygenic score differences between populations largely unconnected to population differences in phenotype distributions.
“Instead, the potential for significant modification of the environmental contribution renders polygenic score differences between populations largely unconnected to population differences in phenotype distributions.”
Quote in the paperSubstantial claim - Interpretationreasoning
Much of the complexity embedded in use of polygenic scores-the effects of the environment on phenotype and its relationship to genotype, the proportion of variance explained, and the peculiarities of the underlying GWAS data that have been used to estimate effect sizes-is obscured by the apparent simplicity of the single values computed for each individual for each phenotype.
“These limitations illustrate that much of the complexity embedded in use of polygenic scores—the effects of the environment on phenotype and its relationship to genotype, the proportion of variance explained, and the peculiarities of the underlying GWAS data that have been used to estimate effect sizes—is obscured by the apparent simplicity of the single values computed for each individual for”
Quote in the paperSubstantial claim - Interpretationreasoning
Genetic contributions to traits, as estimated by polygenic scores, combine with environmental contributions so that differences among populations in trait distributions need not reflect corresponding differences in genetic propensity.
“We show how genetic contributions to traits, as estimated by polygenic scores, combine with environmental contributions so that differences among populations in trait distributions need not reflect corresponding differences in genetic propensity.”
Quote in the paperSubstantial claim - Interpretationreasoning
Because many loci contribute to a quantitative trait, and each locus experiences the same random process of genetic drift independent of the size and direction of its trait contribution, phenotypic differences among populations are predicted under neutrality to be similar in magnitude to typical genetic differences among populations.
“Because many loci contribute to a quantitative trait, and each locus experiences the same random process of genetic drift independent of the size and direction of its trait contribution, phenotypic differences among populations are predicted under neutrality to be similar in magnitude to typical genetic differences among populations.”
Quote in the paperSubstantial claim- The authors state this as an assumption: In the null model, phenotypes are selectively neutral (no selection occurs), and genetic drift acts independently at each locus.
- Interpretationnone given
Limitations in the interpretation of polygenic score differences can be of two kinds: those due to the manner in which genes and environment contribute to traits, irrespective of statistical issues involved in estimating the contributions from data, and those due to statistical phenomena in the estimation process.
“Limitations in the interpretation of polygenic score differences can be of two kinds: those due to the manner in which genes and environment contribute to traits, irrespective of statistical issues involved in estimating the contributions from data, and those due to statistical phenomena in the estimation process.”
Quote in the paperSubstantial claim - Interpretationreasoning
Genotypic effects estimated only in one population might not apply to other populations.
“Genotypic effects estimated only in one population might not apply to other populations for a number of reasons.”
Quote in the paperSubstantial claim - Interpretationreasoning
In such cases, predictive potential is limited even if a difference in population means is seen to be statistically significant in the large sample sizes typical of genome-wide association studies.
“In such cases, predictive potential is limited even if a difference in population means is seen to be statistically significant in the large sample sizes typical of genome-wide association studies.”
Quote in the paperSubstantial claim - Premisecitation
A third limit to transferability of effect estimates arises from population differences in linkage disequilibrium patterns that influence aggregations of signals across loci.
“A third limit to transferability of effect estimates arises from population differences in features of correlations between nearby sites—linkage disequilibrium patterns—that influence aggregations of signals across loci [32].”
Quote in the paperSubstantial claim0 of 1 sources checked- cites [32] Martin, 2017, Human demographic history impacts genetic risk prediction across diverse populations, Am J Hum Genet source
- Interpretationreasoning
In using polygenic scores to describe genomic contributions to traits, particularly traits for which heritability is low-but even if it is high-a difference in polygenic scores between populations provides little information about potential genetic bases for trait differences between those populations.
“Consequently, in using polygenic scores to describe genomic contributions to traits, particularly traits for which the total contribution of genetic variation to trait variation, as measured by heritability, is low—but even if it is high (Fig. 1E)—a difference in polygenic scores between populations provides little information about potential genetic bases for trait differences between those”
Quote in the paperSubstantial claim - Interpretationreasoning
A difference in polygenic score might be incorrectly inferred to represent an unchangeable genetic difference among populations rather than one that can be altered by an environmental change.
“In such cases, a difference in polygenic score—though possibly a genuine reflection of underlying genetic propensities—might be incorrectly inferred to represent an unchangeable genetic difference among populations rather than one that can be altered by an environmental change (Fig. 1D).”
Quote in the paperSubstantial claim - Interpretationreasoning
Unlike heritability, which ranges from 0 to 1 and therefore makes it obvious that the remaining contribution to phenotypic variation is summarized by its difference from 1, the limited explanatory role of genetics is not embedded in the nature of the polygenic scores themselves.
“Unlike heritability, which ranges from 0 to 1 and therefore makes it obvious that the remaining contribution to phenotypic variation is summarized by its difference from 1, the limited explanatory role of genetics is not embedded in the nature of the polygenic scores themselves.”
Quote in the paperSubstantial claim - Interpretationcitation
Differences in polygenic score distributions among populations that parallel differences for a specific phenotype might be due not only to environmental factors, but instead to natural selection on other correlated traits.
“Trait correlations can also complicate inferences of selection differences, as a scenario in which differences in polygenic score distributions among populations parallel differences for a specific phenotype might be due not only to environmental factors, but instead to natural selection on other correlated traits [48].”
Quote in the paperSubstantial claim0 of 1 sources checked- cites [48] Lande, 1983, The measurement of selection on correlated characters, Evolution source
- Interpretationreasoning
An observed between-population difference in phenotype distributions is not easily ascribed to divergent selection.
“For these reasons, an observed between-population difference in phenotype distributions is not easily ascribed to divergent selection.”
Quote in the paperSubstantial claim - Premisecitation
Miscalibration of news coverage-not to the magnitude of advances but rather to the greater public appetite for new developments in controversial areas of genetics-can result in cascading distortions of the genetic basis of phenotypic traits that studies do not imply and that their authors do not support.
“Miscalibration of news coverage—not to the magnitude of advances but rather to the greater public appetite for new developments in controversial areas of genetics [59]—can result in cascading distortions of the genetic basis of phenotypic traits that studies do not imply and that their authors do not support [17].”
Quote in the paperNot a substantial claim0 of 2 sources checked - Premisecitation
One recurring problem in the dissemination of studies of human genetic differences within and beyond the scientific community is the attribution of interpretive weight to plausibly compelling hypotheses about natural selection in spite of a lack of evidence.
“One recurring problem in the dissemination of studies of human genetic differences within and beyond the scientific community is the attribution of interpretive weight to plausibly compelling hypotheses about natural selection in spite of a lack of evidence [56].”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites [56] Kaufman, 2003, The slavery hypertension hypothesis: dissemination and appeal of a modern race theory, Epidemiology source
- Interpretationreasoning
Even a parallel difference in phenotype distributions might reflect a neutral expectation rather than natural selection, possibly amplified by environmental effects.
“even a parallel difference as in Fig. 1A might reflect a neutral expectation rather than natural selection, possibly amplified by environmental effects.”
Quote in the paperSubstantial claim - Interpretationreasoning
This result calls into question claims about polygenic adaptation even of traits for which it has been most extensively investigated.
“This result, which arises from subtle population differences between study samples, calls into question claims about polygenic adaptation even of traits for which it has been most extensively investigated.”
Quote in the paperSubstantial claim - Premisecitation
In a study of African Americans and European Americans (treated as socially rather than genetically defined populations), among 36 physiologically diverse causes of death, adjusting for other factors, African Americans lost more years of life than European Americans in 28 of the 36.
“In a study of African Americans and European Americans (treated as socially rather than genetically defined populations), among 36 physiologically diverse causes of death, adjusting for other factors, African Americans lost more years of life than European Americans in 28 of the 36 [49].”
Quote in the paperSubstantial claim0 of 1 sources checked- cites [49] Wong, 2002, Contribution of major diseases to disparities in mortality, N Engl J Med source
- Interpretationreasoning
Natural selection cannot easily explain the observed population difference in health disparities between African Americans and European Americans.
“Whereas natural selection cannot easily explain the observed population difference, systematic environmental effects that contribute to an increase in non-genetic risk factors in African Americans—current and historical racism, for instance [53–55]—could, on the other hand, explain such marked differences.”
Quote in the paperSubstantial claim - Interpretationreasoning
Only with strong directional selection on a trait in one population, or strong directional selection in opposite directions in a population pair, is a phenotypic difference between populations attributable largely to natural selection.
“However, only with strong directional selection on a trait in one population, or strong directional selection in opposite directions in a population pair, is a phenotypic difference between populations attributable largely to natural selection.”
Quote in the paperNot a substantial claim - Interpretationnone given
Departures from the null expectation for phenotypic differences among populations can be due to a combination of population differences in environmental influences on phenotypes and differential natural selection among populations that generates a substantial population difference in polygenic score distributions.
“Departures from the null expectation for phenotypic differences among populations can be due to a combination of (i) population differences in environmental influences on phenotypes, and (ii) differential natural selection among populations that generates a substantial population difference in polygenic score distributions.”
Quote in the paperSubstantial claim
- May combine two claims. 11
- Classified as probably not a substantial claim. 8
- The quote only partly states this claim. 1
May combine two claims.
PremisereasoningUnder a null model in which phenotypes are selectively neutral, genetic propensity differences contributing to phenotypic differences among populations are predicted to be small, with the expected difference among populations in the trait having comparable magnitude to the classical estimate of the 'apportionment of human genetic diversity'.
“Under a null model in which phenotypes are selectively neutral, genetic propensity differences contributing to phenotypic differences among populations are predicted to be small.”
- Also stated in: § The null expectation · plain
“In deriving such an expectation, an important insight from selectively neutral population-genetic models is that irrespective of the number of genetic loci contributing to a polygenic trait, the expected difference among populations in the trait is predicted to have comparable magnitude to the classical estimate of the ‘apportionment of human genetic diversity’, the extent of human genetic differ”
Quote in the paperSubstantial claim2 of 3 sources checked- cites [12] Berg, 2014, A population genetic signal of polygenic adaptation, PLoS Genet source
- cites [43] Leinonen, 2013, QST–FST comparisons: evolutionary and ecological insights from genomic heterogeneity, Nat Rev Genet source
- cites [44] Edge, 2015, Implications of the apportionment of human genetic diversity for the apportionment of human phenotypic diversity, Stud Hist Philos Biol Biomed Sci source
- The authors state this as an assumption: In the null model, phenotypes are selectively neutral (no selection occurs), and genetic drift acts independently at each locus.
- Also stated in: § The null expectation · plain
May combine two claims.
PremisecitationBecause most genome-wide association studies have been conducted in populations with European ancestry, the effect sizes used in calculating polygenic scores have been calibrated on Europeans, and their values might not transfer accurately to other populations.
“So far, because most genome-wide association studies have been conducted in populations with European ancestry [33], the effect sizes used in calculating polygenic scores have been calibrated on Europeans, and their values might not transfer accurately to other populations.”
Quote in the paperSubstantial claim1 of 1 sources checked- cites [33] Popejoy, 2016, Genomics is failing on diversity, Nature source
Probably not a substantial claim: may not pass S3 (load-bearing).
PremisecitationTheories involving natural selection have long been applied in the scientific literature to explain mean phenotypic differences among human populations.
“Theories involving natural selection have long been applied in the scientific literature to explain mean phenotypic differences among human populations [14–16].”
Quote in the paperNot a substantial claim3 of 3 sources checked- cites [14] Novembre, 2009, Spatial patterns of variation due to natural selection in humans, Nat Rev Genet source
- cites [15] Lachance, 2013, Population genomics of human adaptation, Annu Rev Ecol Evol Syst source
- cites [16] Jeong, 2014, Adaptations to local environments in modern human populations, Curr Opin Genet Dev source
Probably not a substantial claim: may not pass S3 (load-bearing).
PremisecitationGenomic investigations have provided insights into how natural selection has given rise to differences in phenotypes that vary geographically, such as skin pigmentation, lactase persistence and altitude-related physiology.
“Genomic investigations have provided insights into how natural selection has given rise to differences in phenotypes that vary geographically, such as skin pigmentation, lactase persistence and altitude-related physiology [14–16].”
Quote in the paperNot a substantial claim3 of 3 sources checked- cites [14] Novembre, 2009, Spatial patterns of variation due to natural selection in humans, Nat Rev Genet source
The section on geographically variable traits links skin pigmentation and lactose tolerance to environmental patterns and natural selection. The section on multiple mutations underlying adaptive phenotypes also discusses skin pigmentation and lactase persistence. Our copy does not provide a corresponding example for altitude-related physiology (searched: altitude and high-altitude hypoxia). (LLM, conf=0.86)
Experimental — accuracy not yet measured - cites [15] Lachance, 2013, Population genomics of human adaptation, Annu Rev Ecol Evol Syst source
- cites [16] Jeong, 2014, Adaptations to local environments in modern human populations, Curr Opin Genet Dev source
Probably not a substantial claim: may not pass S3 (load-bearing).
PremisecitationOver the past 15 years, genomic analyses have identified thousands of genetic variants that contribute statistically to variation in complex phenotypes, traits that have complex patterns of inheritance and that are affected by large numbers of genes in combination with environmental factors.
“Over the past 15 years, genomic analyses have identified thousands of genetic variants that contribute statistically to variation in complex phenotypes, traits that have complex patterns of inheritance and that are affected by large numbers of genes in combination with environmental factors [18–20].”
Quote in the paperNot a substantial claim2 of 3 sources checked- cites [18] Stranger, 2011, Progress and promise of genome-wide association studies for human complex trait genetics, Genetics source
Split into 2 atoms — 1 confirmed, 1 partially supported, 0 disputed, 0 misattributed, 0 unverifiable. Expand the claim to see per-atom verdicts.
Experimental — accuracy not yet measured - cites [19] Welter, 2014, The NHGRI GWAS Catalog, a curated resource of SNP-trait associations, Nucleic Acids Res source
Split into 2 atoms — 0 confirmed, 2 partially supported, 0 disputed, 0 misattributed, 0 unverifiable. Expand the claim to see per-atom verdicts.
Experimental — accuracy not yet measured - cites [20] Visscher, 2017, 10 years of GWAS discovery: biology, function, and translation, Am J Hum Genet source
May combine two claims.
PremisecitationIn the null model, systematic health disparities are unlikely: the binomial probability that the trait value is larger in one of a pair of populations for at least 28 of 36 independent phenotypes is 0.0012.
“In this model, systematic health disparities are unlikely: assuming that no genetic correlation exists between phenotypic outcomes, the binomial probability that the trait value is larger in one of a pair of populations for at least 28 of 36 independent phenotypes is 0.0012 [42].”
Quote in the paperSubstantial claim1 of 1 sources checked- cites [42] Edge, 2015, A general model of the relationship between the apportionment of human genetic diversity and the apportionment of human phenotypic diversity, Hum Biol source
- The authors state this as an assumption: In the simplest null model, many genes contribute to a trait chosen at random, with no directional selection, and each of a pair of groups has probability 0.5 of having the larger mean value for the trait.
- The authors state this as an assumption: No genetic correlation exists between phenotypic outcomes.
- The authors state this as an assumption: The 36 phenotypes are independent.
Probably not a substantial claim: may not pass S1 (asserted), S3 (load-bearing). May combine two claims.
PremisecitationSome researchers have argued for a greater level of deleterious variation in non-Africans rather than in Africans, a pattern opposite to what might be expected given the direction of health disparities.
“indeed, some researchers have argued for a greater level of deleterious variation in non-Africans rather than in Africans [50, 52], a pattern opposite to what might be expected given the direction of health disparities.”
Quote in the paperNot a substantial claim2 of 2 sources checked- cites [50] Lohmueller, 2014, The distribution of deleterious genetic variation in human populations, Curr Opin Genet Dev source
The 'Efficacy of Natural Selection' section reports a higher proportion of nonsynonymous variants in non-Africans, and Table 1 shows more homozygous derived genotypes in non-Africans. But Table 1 also shows more nonsynonymous variants in Africans and approximately equal numbers of derived alleles per individual, so the paper does not establish a generally greater level of deleterious variation in non-Africans. The passages do not address the claimed contrast with health disparities. (LLM, conf=0.86)
Experimental — accuracy not yet measured - cites [52] Henn, 2015, Estimating the mutation load in human genomes, Nat Rev Genet source
The quote only partly states this claim.
PremisecitationThe erroneously exaggerated signatures of polygenic adaptation from using effect sizes from one study to assess a second dataset arise from subtle population differences between study samples.
“This result, which arises from subtle population differences between study samples, calls into question claims about polygenic adaptation even of traits for which it has been most extensively investigated.”
Quote in the paperSubstantial claim1 of 2 sources checked- cites [34] Berg, 2018, Reduced signal for polygenic adaptation of height in UK Biobank, bioRxiv
Couldn’t be matched to a paper in Crossref, so it can’t be checked.
- cites [35] Sohail, 2018, Signals of polygenic adaptation on height have been overestimated due to uncorrected population structure in genome-wide association studies, bioRxiv source
May combine two claims.
InterpretationreasoningPopulation differences in phenotype distributions do not reveal which population has greater genetic propensities on average, whether the observed difference would persist if the environment were altered, or even whether a difference in genetic propensities exists at all.
“Depending on environmental contributions, a difference in mean phenotype might or might not reflect a difference in the magnitude of genetic effects among populations; population differences in phenotype distributions do not reveal which population has greater genetic propensities on average, whether the observed difference would persist if the environment were altered, or even whether a difference”
Quote in the paperSubstantial claimProbably not a substantial claim: may not pass S3 (load-bearing).
PremisecitationIn the past, public attention to research on human variation and its possible evolutionary basis has often been accompanied by claims that are not justified by the research findings.
“In the past, public attention to research on human variation and its possible evolutionary basis has often been accompanied by claims that are not justified by the research findings [17].”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites [17] Beckwith, 2013 source
May combine two claims.
InterpretationreasoningPolygenic scores encode knowledge about specific genetic correlates of trait variation, but they do not change the conceptual framework for genetic and environmental contribution to population differences.
“Although polygenic scores encode knowledge about specific genetic correlates of trait variation, they do not change the conceptual framework for genetic and environmental contribution to population differences.”
Quote in the paperSubstantial claimProbably not a substantial claim: may not pass S2 (checkable), S4 (based). May combine two claims.
Interpretationnone givenAlthough distributions of individual-level polygenic scores might differ among populations, differences in these distributions might have many potential causes, and might or might not reflect meaningful biological phenomena.
“Although distributions of individual-level polygenic scores might differ among populations, differences in these distributions might have many potential causes, and might or might not reflect meaningful biological phenomena.”
Quote in the paperNot a substantial claimMay combine two claims.
PremisereasoningGene-gene and gene-environment interactions can cause the effects of a variant on a trait to differ among populations, and effects of multiple variants can combine in different ways.
“Second, gene–gene and gene–environment interactions influence traits, meaning that associations between specific genotypes and a phenotype—and the importance of the genetic contributions—might differ among populations with different allele frequencies or distributions of environmental variables.”
- Also stated in: § Conceptual limitations · plain
“In other words, because the contributions of genomic variants can differ among populations due to interactions with other variants and with environmental variables, the effects of a variant on a trait can have different magnitudes in different populations, and effects of multiple variants in one or more genes can combine in different ways.”
Quote in the paperSubstantial claim- Also stated in: § Conceptual limitations · plain
May combine two claims.
InterpretationreasoningSelection on a correlated trait might occur in different directions in a pair of populations or with different magnitudes in the same direction, and therefore need not increase genetic differences between populations in the way that divergent selection for the initial trait might suggest.
“Selection on a correlated trait might occur in different directions in a pair of populations or with different magnitudes in the same direction, and therefore need not increase genetic differences between populations in the way that divergent selection for the initial trait might suggest (Fig. 2).”
Quote in the paperSubstantial claimMay combine two claims.
PremisecitationScientists' publicity materials and news reports rely on racialized language and exaggerated views of race as biological.
“Other problems include reliance in scientists’ publicity materials and in news reports on racialized language and exaggerated views of race as biological [57]”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites [57] Condit, 2007, How geneticists can help reporters get their story right, Nat Rev Genet source
May combine two claims.
InterpretationreasoningBecause of environmental effects, between-population differences in phenotype distributions need not reflect a parallel difference in genetic propensities; they may reflect no difference or a difference opposite in direction.
“In other words, because of environmental effects, the difference in phenotype distributions in Fig. 1A–C need not reflect a parallel difference in genetic propensities as in Fig. 1A, but rather no difference as in Fig. 1B or a difference opposite in direction as in Fig. 1C”
Quote in the paperSubstantial claimProbably not a substantial claim: may not pass S3 (load-bearing).
PremisecitationModern discourse in population genetics uses non-racial conceptual structures for characterizing and analyzing human variation.
“when modern discourse in population genetics instead uses non-racial conceptual structures for characterizing and analyzing human variation [58].”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites [58] Rosenberg, 2019
Not checked in the free run.
Probably not a substantial claim: may not pass S2 (checkable), S4 (based).
Interpretationnone givenHistory suggests that multiple forms of misrepresentation of findings in human genetics can lend the authority of science to claims that the underlying research does not validate and might actively contradict.
“Unfortunately, history suggests that multiple forms of misrepresentation of findings in human genetics can lend the authority of science to claims that the underlying research does not validate and might actively contradict.”
Quote in the paperNot a substantial claim
The authors state this as an assumption.
In the null model, phenotypes are selectively neutral (no selection occurs), and genetic drift acts independently at each locus.
“Under a null model in which phenotypes are selectively neutral, genetic propensity differences contributing to phenotypic differences among populations are predicted to be small.”
“In other words, analogous measures of population differences in quantitative phenotypic traits and genetic loci—termed QST and FST, respectively—are approximately equal in neutral evolutionary models that include genetic drift but not natural selection.”
The authors state this as an assumption.
In the simplest null model, many genes contribute to a trait chosen at random, with no directional selection, and each of a pair of groups has probability 0.5 of having the larger mean value for the trait.
“In the simplest null model in which many genes contribute to a trait chosen at random, with no directional selection, each of a pair of groups has probability 0.5 of having the larger mean value for the trait.”
The authors state this as an assumption.
No genetic correlation exists between phenotypic outcomes.
“assuming that no genetic correlation exists between phenotypic outcomes”
The authors state this as an assumption.
The 36 phenotypes are independent.
“the binomial probability that the trait value is larger in one of a pair of populations for at least 28 of 36 independent phenotypes is 0.0012 [42].”
Cites
The measurement of selection on correlated characters
Lande, R., & Arnold, S. J. (1983) · Evolution · doi:10.1111/j.1558-5646.1983.tb00236.x · Cited by 5,437 · see citing works
Common polygenic variation contributes to risk of schizophrenia and bipolar disorder
The International Schizophrenia Consortium (2009) · Nature · doi:10.1038/nature08185 · Cited by 4,821 · see citing works
10 Years of GWAS Discovery: Biology, Function, and Translation
Visscher, P. M., Wray, N. R., Zhang, Q., Sklar, P., McCarthy, M. I., Brown, M. A., & Yang, J. (2017) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2017.06.005 · Cited by 3,719 · cited 1× · see citing works
“COMPLEX PHENOTYPES AND POLYGENIC SCORES Over the past 15 years, genomic analyses have identified thousands of genetic variants that contribute statistically to variation in complex phenotypes, traits that have complex patterns of inheritance and that are affected by large numbers of genes in combination with environme…”
Discrimination and racial disparities in health: evidence and needed research
Williams, D. R., & Mohammed, S. A. (2009) · Journal of Behavioral Medicine · doi:10.1007/s10865-008-9185-0 · Cited by 3,371 · cited 1× · see citing works
“Whereas natural selection cannot easily explain the observed population difference, systematic environmental effects that contribute to an increase in non-genetic risk factors in African Americans— current and historical racism, for instance [53-55]—could, on the other hand, explain such marked”
Khera, A. V., Chaffin, M., Aragam, K. G., Haas, M. E., Roselli, C., Choi, S. H., Natarajan, P., Lander, E. S., Lubitz, S. A., Ellinor, P. T., et al. (2018) · Nature Genetics · doi:10.1038/s41588-018-0183-z · Cited by 2,953 · see citing works
The NHGRI GWAS Catalog, a curated resource of SNP-trait associations
Welter, D., MacArthur, J., Morales, J., Burdett, T., Hall, P., Junkins, H., Klemm, A., Flicek, P., Manolio, T., Hindorff, L., et al. (2014) · Nucleic Acids Research · doi:10.1093/nar/gkt1229 · Cited by 2,707 · cited 1× · see citing works
“COMPLEX PHENOTYPES AND POLYGENIC SCORES Over the past 15 years, genomic analyses have identified thousands of genetic variants that contribute statistically to variation in complex phenotypes, traits that have complex patterns of inheritance and that are affected by large numbers of genes in combination with environme…”
The Apportionment of Human Diversity
Lewontin, R. C. (1972) · Evolutionary Biology · doi:10.1007/978-1-4684-9063-3_14 · Cited by 2,472 · see citing works
Worldwide Human Relationships Inferred from Genome-Wide Patterns of Variation
Li, J. Z., Absher, D. M., Tang, H., Southwick, A. M., Casto, A. M., Ramachandran, S., Cann, H. M., Barsh, G. S., Feldman, M. W., Cavalli-Sforza, L. L., et al. (2008) · Science · doi:10.1126/science.1153717 · Cited by 1,947 · see citing works
Self-citationGenomics is failing on diversity
Popejoy, A. B., & Fullerton, S. M. (2016) · Nature · doi:10.1038/538161a · Cited by 1,924 · cited 1× · see citing works
“So far, because most genome-wide association studies have been conducted in populations with European ancestry [33], the effect sizes used in calculating polygenic scores have been calibrated on Europeans, and their values might not transfer accurately to other A Population differences in genetic and environmental con…”
Heritability in the genomics era — concepts and misconceptions
Visscher, P. M., Hill, W. G., & Wray, N. R. (2008) · Nature Reviews Genetics · doi:10.1038/nrg2322 · Cited by 1,921 · cited 1× · see citing works
“Earlier studies of the role of genetics in phenotypic differences among populations often relied on statistics such as heritabilities—fractions of phenotypic variance explained by genetic variation [25]—which require no knowledge of contributing genetic variants.”
A systematic review of empirical research on self-reported racism and health
Paradies, Y. (2006) · International Journal of Epidemiology · doi:10.1093/ije/dyl056 · Cited by 1,681 · cited 1× · see citing works
“Whereas natural selection cannot easily explain the observed population difference, systematic environmental effects that contribute to an increase in non-genetic risk factors in African Americans— current and historical racism, for instance [53-55]—could, on the other hand, explain such marked”
The personal and clinical utility of polygenic risk scores
Torkamani, A., Wineinger, N. E., & Topol, E. J. (2018) · Nature Reviews Genetics · doi:10.1038/s41576-018-0018-x · Cited by 1,605 · cited 1× · see citing works
“Although for many genetically complex phenotypes, polygenic scores currently explain too small a fraction of variation in the phenotype to be clinically meaningful, such risk calculations contribute to the promise of the genomic era to produce actionable predictions about complex phenotypes on the basis of the accumul…”
Power and predictive accuracy of polygenic risk scores
Dudbridge, F. (2013) · PLoS Genetics · doi:10.1371/journal.pgen.1003348 · Cited by 1,509 · cited 1× · see citing works
“genome to a phenotypic trait [8-10]—and a new focus on polygenic adaptations, namely adaptations that have occurred by natural selection on traits influenced by many genes [11-13].”
Human Demographic History Impacts Genetic Risk Prediction across Diverse Populations
Martin, A. R., Gignoux, C. R., Walters, R. K., Wojcik, G. L., Neale, B. M., Gravel, S., Daly, M. J., Bustamante, C. D., & Kenny, E. E. (2017) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2017.03.004 · Cited by 1,391 · see citing works
The genetics of human adaptation: hard sweeps, soft sweeps, and polygenic adaptation
Pritchard, J. K., Pickrell, J. K., & Coop, G. (2010) · Current Biology · doi:10.1016/j.cub.2009.11.055 · Cited by 932 · see citing works
Self-citationGenotype, haplotype and copy-number variation in worldwide human populations
Jakobsson, M., Scholz, S. W., Scheet, P. A., Gibbs, J. R., Canzoniero, J. V., Fung, H., Szpiech, Z. A., Degnan, J. H., Wang, K., Guerreiro, R. J., et al. (2008) · Nature · doi:10.1038/nature06742 · Cited by 871 · cited 1× · see citing works
“The hypothesis might appear to derive support from the fact that sufficient genetic variation exists among populations to infer ancestral populations of individual genomes at a local geographical scale [38-40], and the genetic differences evident from ancestry inferences might then be attributed to natural D ow naded…”
Self-citationContribution of major diseases to disparities in mortality.
Wong, M. D., Shapiro, M. F., Boscardin, W. J., & Ettner, S. L. (2002) · New England Journal of Medicine · doi:10.1056/nejmsa012979 · Cited by 774 · cited 1× · see citing works
“In a study of African Americans and European Americans (treated as socially rather than genetically defined populations), among 36 physiologically diverse causes of death, adjusting for other factors, African Americans lost more years of life than European Americans in 28 of the 36 [49].”
Tang, M.-X. (1998) · JAMA · doi:10.1001/jama.279.10.751 · Cited by 771 · see citing works
Pitfalls of predicting complex traits from SNPs
Wray, N. R., Yang, J., Hayes, B. J., Price, A. L., Goddard, M. E., & Visscher, P. M. (2013) · Nature Reviews Genetics · doi:10.1038/nrg3457 · Cited by 672 · cited 1× · see citing works
“As developments on polygenic scores and polygenic adaptation connect closely to topics that have long been of central interest in human evolutionary genetics, the field can provide context for the emerging plethora of results relevant to interpretations of the roles of genetics and natural selection in contributing to…”
Research Review: Polygenic methods and their application to psychiatric traits
Wray, N. R., Lee, S., Mehta, D., Vinkhuyzen, A. A. E., Dudbridge, F., & Middeldorp, C. M. (2014) · Journal of Child Psychology and Psychiatry · doi:10.1111/jcpp.12295 · Cited by 657 · see citing works
The Analysis of Variance and the Analysis of Causes.
Lewontin, R. C. (1974) · Zenodo · doi:10.5281/zenodo.10755182 · Cited by 581 · see citing works
Progress and promise of genome-wide association studies for human complex trait genetics
Stranger, B. E., Stahl, E. A., & Raj, T. (2011) · Genetics · doi:10.1534/genetics.110.120907 · Cited by 567 · cited 1× · see citing works
“COMPLEX PHENOTYPES AND POLYGENIC SCORES Over the past 15 years, genomic analyses have identified thousands of genetic variants that contribute statistically to variation in complex phenotypes, traits that have complex patterns of inheritance and that are affected by large numbers of genes in combination with environme…”
Annotation: the analysis of variance and the analysis of causes.
Lewontin, R. C. (1974) · Europe PMC (PubMed Central) · Cited by 533 · see citing works
An apportionment of human DNA diversity
Barbujani, G., Magagni, A., Minch, E., & Cavalli-Sforza, L. L. (1997) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.94.9.4516 · Cited by 498 · cited 1× · see citing works
“The genetic apportionment computation shows that genetic differences among populations, as measured by FST, are small in comparison with variation within populations [45-47].”
A population genetic signal of polygenic adaptation
Berg, J. J., & Coop, G. (2014) · PLoS Genetics · doi:10.1371/journal.pgen.1004412 · Cited by 487 · cited 3× · see citing works
“In deriving such an expectation, an important insight from selectively neutral population-genetic models is that irrespective of the number of genetic loci contributing to a polygenic trait, the expected difference among populations in the trait is predicted to have comparable magnitude to the classical estimate of th…”
QST–FST comparisons: evolutionary and ecological insights from genomic heterogeneity
Leinonen, T., McCairns, R. J. S., O'Hara, R. B., & Merilä, J. (2013) · Nature Reviews Genetics · doi:10.1038/nrg3395 · Cited by 422 · see citing works
Detection of human adaptation during the past 2000 years
Field, Y., Boyle, E. A., Telis, N., Gao, Z., Gaulton, K. J., Golan, D., Yengo, L., Rocheleau, G., Froguel, P., McCarthy, M. I., et al. (2016) · Science · doi:10.1126/science.aag0776 · Cited by 383 · cited 1× · see citing works
“Recent interest focuses on traits such as height [12,36,37] that are influenced by large numbers of genetic variants, each”
Self-citationThe Heritability Hang-Up: The role of variance analysis in human genetics is discussed.
Feldman, M. W., & Lewontin, R. C. (1975) · Science · doi:10.1126/science.1198102 · Cited by 376 · cited 1× · see citing works
“differences among populations [26-28] continue to apply, in updated form (Fig.”
Self-citationSohail, M., Maier, R. M., Ganna, A., Bloemendal, A., Martin, A. R., Turchin, M. C., Chiang, C. W. K., Hirschhorn, J. N., Daly, M. J., Patterson, N., et al. (2018) · doi:10.1101/355057 · Cited by 360 · cited 2× · see citing works
“10 polygenic adaptation when assessing polygenic adaptation in a second data set [34,35].”
Sohail, M., Maier, R. M., Ganna, A., Bloemendal, A., Martin, A. R., Turchin, M. C., Chiang, C. W., Hirschhorn, J., Daly, M. J., Patterson, N., et al. (2019) · eLife · doi:10.7554/elife.39702 · Cited by 359 · see citing works
Reduced signal for polygenic adaptation of height in UK BiobankPreprint
Berg, J. J., Harpak, A., Sinnott-Armstrong, N. A., Joergensen, A., Mostafavi, H., Field, Y., Boyle, E., Zhang, X.-J., Racimo, F., Pritchard, J., et al. (2018) · bioRxiv · doi:10.1101/354951 · Cited by 341 · cited 2× · see citing works
“Recent studies of height have suggested that polygenic adaptation tests are sensitive to the choice of GWAS data that provide the effect sizes: even if two sets of effect sizes produce correlated polygenic scores, effect sizes estimated from one study can generate erroneously exaggerated signatures of polygenic adapta…”
Self-citationReduced signal for polygenic adaptation of height in UK Biobank
Berg, J. J., Harpak, A., Sinnott-Armstrong, N., Joergensen, A. M., Mostafavi, H., Field, Y., Boyle, E. A., Zhang, X., Racimo, F., Pritchard, J. K., et al. (2019) · eLife · doi:10.7554/elife.39725 · Cited by 339 · see citing works
Self-citationEvidence of widespread selection on standing variation in Europe at height-associated SNPs
Turchin, M. C., Chiang, C. W., Palmer, C. D., Sankararaman, S., Reich, D., Genetic Investigation of ANthropometric Traits (GIANT) Consortium, & Hirschhorn, J. N. (2012) · Nature Genetics · doi:10.1038/ng.2368 · Cited by 329 · cited 1× · see citing works
“Recent interest focuses on traits such as height [12, 36, 37] that are influenced by large numbers of genetic variants, each having a small effect on the trait, and that lend themselves to analysis with polygenic scores.”
Estimating the mutation load in human genomes
Henn, B. M., Botigué, L. R., Bustamante, C. D., Clark, A. G., & Gravel, S. (2015) · Nature Reviews Genetics · doi:10.1038/nrg3931 · Cited by 281 · cited 1× · see citing works
“However, a related computation of the overall influence of natural selection in human history, relying on measures of selection against deleterious variants rather than directional selection of favorable variants, does not suggest strong systematic differences in the magnitude of selection among different continental…”
The deleterious mutation load is insensitive to recent population history.
Simons, Y. B., Turchin, M. C., Pritchard, J. K., & Sella, G. (2014) · Nature Genetics · doi:10.1038/ng.2896 · Cited by 279 · cited 1× · see citing works
“population groups [50-52]; indeed, some researchers have argued for a greater level of deleterious variation in non-Africans rather than in Africans [50,52], a pattern opposite to what might be expected”
Self-citationKullo, I. J., Jouni, H., Austin, E. E., Brown, S.-A., Kruisselbrink, T. M., Isseh, I. N., Haddad, R. A., Marroush, T. S., Shameer, K., Olson, J. E., et al. (2016) · Circulation · doi:10.1161/circulationaha.115.020109 · Cited by 267 · see citing works
Genetic disease risks can be misestimated across global populations
Kim, M. S., Patel, K. P., Teng, A. K., Berens, A. J., & Lachance, J. (2018) · Genome Biology · doi:10.1186/s13059-018-1561-7 · Cited by 210 · cited 1× · see citing works
“6 populations contribute to systematic biases in polygenic score estimates in other populations [31].”
Ancestral origin of ApoE ε4 Alzheimer disease risk in Puerto Rican and African American populations
Rajabli, F., Feliciano, B. E., Celis, K., Hamilton-Nelson, K. L., Whitehead, P. L., Adams, L. D., Bussies, P. L., Manrique, C. P., Rodriguez, A., Rodriguez, V., et al. (2018) · PLOS Genetics · doi:10.1371/journal.pgen.1007791 · Cited by 206 · see citing works
Spatial patterns of variation due to natural selection in humans
Novembre, J., & Di Rienzo, A. (2009) · Nature Reviews Genetics · doi:10.1038/nrg2632 · Cited by 205 · cited 2× · see citing works
“mean phenotypic differences among human populations [14-16].”
Science and the sources of hype
Caulfield, T., & Condit, C. (2012) · Public Health Genomics · doi:10.1159/000336533 · Cited by 152 · cited 1× · see citing works
“Miscalibration of news coverage—not to the magnitude of advances but rather to the greater public appetite for new developments in controversial areas of genetics [59]—can result in cascading distortions of the genetic basis of phenotypic traits that studies do not imply and that their authors do not support [17].”
The distribution of deleterious genetic variation in human populations
Lohmueller, K. E. (2014) · Current Opinion in Genetics & Development · doi:10.1016/j.gde.2014.09.005 · Cited by 131 · cited 1× · see citing works
“However, a related computation of the overall influence of natural selection in human history, relying on measures of selection against deleterious variants rather than directional selection of favorable variants, does not suggest strong systematic differences in the magnitude of selection among different continental…”
Paquette, M., Chong, M., Thériault, S., Dufour, R., Paré, G., & Baass, A. (2017) · Journal of Clinical Lipidology · doi:10.1016/j.jacl.2017.03.019 · Cited by 115 · cited 1× · see citing works
“For example, they have contributed new approaches to risk prediction for adverse phenotypes related to heart disease [21-23].”
Detecting Polygenic Adaptation in Admixture Graphs
Racimo, F., Berg, J. J., & Pickrell, J. K. (2018) · Genetics · doi:10.1534/genetics.117.300489 · Cited by 115 · cited 1× · see citing works
“genome to a phenotypic trait [8-10]—and a new focus on polygenic adaptations, namely adaptations that have occurred by natural selection on traits influenced by many genes [11-13].”
Rosenberg, N. A. (2011) · Human Biology · doi:10.3378/027.083.0601 · Cited by 100 · cited 1× · see citing works
“The genetic apportionment computation shows that genetic differences among populations, as measured by FST, are small in comparison with variation within populations [45-47].”
Self-citationThe slavery hypertension hypothesis: dissemination and appeal of a modern race theory
Kaufman, J. S., & Hall, S. A. (2003) · Epidemiology · doi:10.1097/00001648-200301000-00027 · Cited by 99 · cited 1× · see citing works
“One recurring problem in the dissemination of studies of human genetic differences within and beyond the scientific community is the attribution of interpretive weight to plausibly compelling hypotheses about natural selection in spite of a lack of evidence [56].”
Tread Lightly Interpreting Polygenic Tests of Selection
Novembre, J., & Barton, N. H. (2018) · Genetics · doi:10.1534/genetics.118.300786 · Cited by 97 · cited 2× · see citing works
“However, the inference from the existence of differences in trait distributions between two populations that natural selection has acted to produce genetic differences between those populations requires several careful steps [41].”
Population genomics of human adaptation
Lachance, J., & Tishkoff, S. A. (2013) · Annual Review of Ecology, Evolution, and Systematics · doi:10.1146/annurev-ecolsys-110512-135833 · Cited by 95 · cited 2× · see citing works
“mean phenotypic differences among human populations [14-16].”
Gravlee, C. C., Non, A. L., & Mulligan, C. J. (2009) · PLoS ONE · doi:10.1371/journal.pone.0006821 · Cited by 91 · cited 1× · see citing works
“Whereas natural selection cannot easily explain the observed population difference, systematic environmental effects that contribute to an increase in non-genetic risk factors in African Americans— current and historical racism, for instance [53-55]—could, on the other hand, explain such marked”
Adaptations to local environments in modern human populations
Jeong, C., & Di Rienzo, A. (2014) · Current Opinion in Genetics & Development · doi:10.1016/j.gde.2014.06.011 · Cited by 80 · cited 2× · see citing works
“mean phenotypic differences among human populations [14-16].”
Missing compared to what? Revisiting heritability, genes and culture
Feldman, M. W., & Ramachandran, S. (2018) · Philosophical Transactions of the Royal Society B: Biological Sciences · doi:10.1098/rstb.2017.0064 · Cited by 78 · cited 1× · see citing works
“differences among populations [26-28] continue to apply, in updated form (Fig.”
Self-citationGenetic explanations: sense and nonsense
(2013) · Choice Reviews Online · doi:10.5860/choice.51-0867 · Cited by 66 · see citing works
Recent advances in the study of fine-scale population structure in humans
Novembre, J., & Peter, B. M. (2016) · Current Opinion in Genetics & Development · doi:10.1016/j.gde.2016.08.007 · Cited by 58 · see citing works
How geneticists can help reporters to get their story right
Condit, C. M. (2007) · Nature Reviews Genetics · doi:10.1038/nrg2201 · Cited by 52 · see citing works
Edge, M. D., & Rosenberg, N. A. (2015) · Studies in History and Philosophy of Science Part C: Studies in History and Philosophy of Biological and Biomedical Sciences · doi:10.1016/j.shpsc.2014.12.005 · Cited by 32 · cited 2× · see citing works
“In deriving such an expectation, an important insight from selectively neutral population-genetic models is that irrespective of the number of genetic loci contributing to a polygenic trait, the expected difference among populations in the trait is predicted to have comparable magnitude to the classical estimate of th…”
Self-citationEdge, & Rosenberg (2015) · Human Biology · doi:10.13110/humanbiology.87.4.0313 · Cited by 18 · cited 2× · see citing works
“One key component of the inference of polygenic adaptation is the use of an appropriate null expectation for polygenic score distributions and phenotypic differences [12, 42].”
(2013) · doi:10.4159/harvard.9780674067769.c16 · Cited by 1
Flagged first, then by citations
Research works printed but not linked: 4
- Kahn, 2018, How not to talk about race and genetics, BuzzFeed.
- Harden, 2018, Genetic test scores predicting intelligence are not the new eugenics, Leapsmag.
- Zimmer, 2018, She Has Her Mother’s Laugh
- Rosenberg, 2019, The Race Debates from Metaphysics to Medicine
Cited by
Sorted by citations
Human Demographic History Impacts Genetic Risk Prediction across Diverse Populations
Martin, A. R., Gignoux, C. R., Walters, R. K., Wojcik, G. L., Neale, B. M., Gravel, S., Daly, M. J., Bustamante, C. D., & Kenny, E. E. (2017) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2017.03.004 · Cited by 1,391 · see citing works
The Polygenic Score Catalog as an open database for reproducibility and systematic evaluation
Lambert, S. A., Gil, L., Jupp, S., Ritchie, S. C., Xu, Y., Buniello, A., McMahon, A., Abraham, G., Chapman, M., Parkinson, H., et al. (2021) · Nature Genetics · doi:10.1038/s41588-021-00783-5 · Cited by 690 · see citing works
Accurate and Scalable Construction of Polygenic Scores in Large Biobank Data Sets
Yang, S., & Zhou, X. (2020) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2020.03.013 · Cited by 136 · see citing works
Barton, N., Hermisson, J., & Nordborg, M. (2019) · eLife · doi:10.7554/elife.45380 · Cited by 89 · see citing works
Quantifying the polygenic contribution to variable expressivity in eleven rare genetic disorders
Oetjens, M. T., Kelly, M., Sturm, A. C., Martin, C. L., & Ledbetter, D. H. (2019) · Nature Communications · doi:10.1038/s41467-019-12869-0 · Cited by 114 · see citing works
Donovan, B., Semmens, R., Keck, P., Brimhall, E., Busch, K. C., Weindling, M., Duncan, A. S., Stuhlsatz, M. A. M., Bracey, Z. B., Bloom, M., et al. (2019) · Science Education · doi:10.1002/sce.21506 · Cited by 99 · see citing works
“The combined contribution of all of these genomic variants to any group level difference in a complex human trait is predicted to be small, possibly spurious, and largely dependent on the environment according to population genetic theory (Rosenberg et al., 2018).”
BackgroundCultural evolution of genetic heritability
Uchiyama, R., Spicer, R., & Muthukrishna, M. (2021) · Behavioral and Brain Sciences · doi:10.1017/s0140525x21000893 · Cited by 97 · see citing works
Polygenic Adaptation: Integrating Population Genetics and Gene Regulatory Networks
Fagny, M., & Austerlitz, F. (2021) · Trends in Genetics · doi:10.1016/j.tig.2021.03.005 · Cited by 86 · see citing works
Donovan, B., Weindling, M., Salazar, B., Duncan, A., Stuhlsatz, M. A. M., & Keck, P. (2020) · Journal of Research in Science Teaching · doi:10.1002/tea.21670 · Cited by 82 · see citing works
1,000 ancient genomes uncover 10,000 years of natural selection in EuropePreprint
Le, M. K., Smith, O. S., Akbari, A., Harpak, A., Reich, D., & Narasimhan, V. M. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.08.24.505188 · Cited by 75 · see citing works
Erickson, P. A., Weller, C. A., Song, D., Bangerter, A. S., SCHMIDT, P. S., & Bergland, A. O. (2020) · PLoS Genetics · doi:10.1371/journal.pgen.1009110 · Cited by 73 · see citing works
Validation of Genome-Wide Polygenic Risk Scores for Coronary Artery Disease in French Canadians
Wünnemann, F., Lo, K. S., Langford‐Avelar, A., Busseuil, D., Dubé, M., Tardif, J., & Lettre, G. (2019) · Circulation Genomic and Precision Medicine · doi:10.1161/circgen.119.002481 · Cited by 64 · see citing works
“Characteristic MHI Biobank phase 1 MHI Biobank phase 2 CARTaGENE Genotyping platform Low-pass WGS (5X) Illumina MEGA Illumina GSA Baseline status Controls Cases Controls Cases Controls Cases Sample size, n (% women) 976 (28) 974 (27) 817 (60) 2492 (17) 5589 (60) 173 (17) Mean age, years (standard deviation) 66.”
Evolutionary perspectives on polygenic selection, missing heritability, and GWAS
Uricchio, L. H. (2019) · Human Genetics · doi:10.1007/s00439-019-02040-6 · Cited by 66 · see citing works
Joo, Y. Y., Actkins, K. V., Pacheco, J. A., Basile, A. O., Carroll, R. J., Crosslin, D. R., Day, F. R., Denny, J. C., Edwards, D. R. V., Hakonarson, H. H., et al. (2020) · The Journal of Clinical Endocrinology & Metabolism · doi:10.1210/clinem/dgz326 · Cited by 64 · see citing works
Population differentiation of polygenic score predictions under stabilizing selection
Yair, S., & Coop, G. (2022) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2020.0416 · Cited by 58 · see citing works
Functional biology in its natural context: A search for emergent simplicity
Bergelson, J. M., Kreitman, M., Petrov, D. A., Sánchez, Á., & Tikhonov, M. (2021) · eLife · doi:10.7554/elife.67646 · Cited by 61 · see citing works
“In these and many other examples, such as the difficulty of transferring polygenic scores in human GWAS (e.g. Rosenberg et al., 2019), the context matters enough that it changes the answer in entirely practical ways.”
BackgroundTremblay, J., Haloui, M., Attaoua, R., Tahir, M. R., Hishmih, C., Harvey, F., Marois-Blanchet, F.-C., Long, C., Simon, P., Santucci, L., et al. (2021) · Diabetologia · doi:10.1007/s00125-021-05491-7 · Cited by 56 · see citing works
Negative selection on complex traits limits phenotype prediction accuracy between populations
Durvasula, A., & Lohmueller, K. E. (2021) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2021.02.013 · Cited by 57 · see citing works
Ending genetic essentialism through genetics education
Donovan, B. (2021) · Human Genetics and Genomics Advances · doi:10.1016/j.xhgg.2021.100058 · Cited by 57 · see citing works
“Therefore, if two races have different trait values, different allele proportions, and different environments, it is difficult to know if their trait difference is due to genes, environments, or the interactions between them.(30) Because different races experience different social environments due to structural racism…”
BackgroundOn cross-ancestry cancer polygenic risk scores
Fritsche, L. G., Ma, Y., Zhang, D., Salvatore, M., Lee, S., Zhou, X., & Mukherjee, B. (2021) · PLoS Genetics · doi:10.1371/journal.pgen.1009670 · Cited by 49 · see citing works
“The lack of portability of PRS across populations with different ancestry compositions is known and usually attributed to differences in causal variants, linkage disequilibrium (LD) patterns, allele frequencies, and effect sizes [7,8].”
Backgroundde Miguel, M., Rodríguez‐Quilón, I., Heuertz, M., Hurel, A., Grivet, D., Jaramillo‐Correa, J. P., VENDRAMIN, G. G., Plomion, C., Majada, J. P., Alı́a, R., et al. (2022) · Molecular Ecology · doi:10.1111/mec.16367 · Cited by 54 · see citing works
The evolution of group differences in changing environments
Harpak, A., & Przeworski, M. (2021) · PLOS Biology · doi:10.1371/journal.pbio.3001072 · Cited by 50 · see citing works
“, [29,30,39,74,75,82]): The mean polygenic effect could differ substantially even when the mean trait value does not differ at all (Fig 2, case A).”
BackgroundResearch on group differences in intelligence: A defense of free inquiry
Cofnas, N. (2019) · Philosophical Psychology · doi:10.1080/09515089.2019.1697803 · Cited by 51 · see citing works
Addressing the challenges of polygenic scores in human genetic research
Novembre, J., Stein, C. M., Asgari, S., Gonzaga-Jauregui, C. G., Landstrom, A. P., Lemke, A. A., Li, J. Z., Mighton, C. E., Taylor, M. R., & Tishkoff, S. A. (2022) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2022.10.012 · Cited by 49 · see citing works
Lin, M. H., Park, D. S., Zaitlen, N., Henn, B. M., & Gignoux, C. R. (2021) · Frontiers in Genetics · doi:10.3389/fgene.2021.673167 · Cited by 36 · see citing works
“…× E) and epistasis (Park et al., 2018; Rau et al., 2020), could potentially induce effect size heterogeneity at causal loci with or among populations (Rosenberg et al., 2019), thus obscuring the prediction of power advantage in admixed populations because the power of discovery would be…”
BackgroundEquity in Health: Consideration of Race and Ethnicity in Precision Medicine
Edwards, T. L., Breeyear, J. H., Piekos, J. A., & Edwards, D. R. V. (2020) · Trends in Genetics · doi:10.1016/j.tig.2020.07.001 · Cited by 41 · see citing works
Complicated legacies: The human genome at 20
Jones, K. M., Cook-Deegan, R. M., Rotimi, C. N., Callier, S., Bentley, A. R., Stevens, H., Phillips, K. A., Jansen, J. P., Weyant, C., Roberts, D. E., et al. (2021) · Science · doi:10.1126/science.abg5266 · Cited by 40 · see citing works
Genes, culture, and scientific racism
Lala, K., & Feldman, M. W. (2024) · Proceedings of the National Academy of Sciences of the United States of America · doi:10.1073/pnas.2322874121 · Cited by 24 · see citing works
Self-citationde Villiers, C. B., Kroese, M., & Moorthie, S. A. (2020) · Journal of Medical Genetics · doi:10.1136/jmedgenet-2019-106763 · Cited by 37 · see citing works
Fuentes, A. (2020) · American Journal of Physical Anthropology · doi:10.1002/ajpa.24162 · Cited by 40 · see citing works
Human Demographic History Impacts Genetic Risk Prediction across Diverse Populations.
Martin, A. R., Gignoux, C., Walters, R., Wojcik, G., Neale, B., Gravel, S., Daly, M., Bustamante, C., & Kenny, E. (2020) · American Journal of Human Genetics · doi:10.1016/j.ajhg.2020.08.020 · Cited by 35 · see citing works
Chapman, C. R. (2022) · Journal of Community Genetics · doi:10.1007/s12687-022-00625-9 · Cited by 36 · see citing works
“Despite the uncertain clinical value of PGS at the present time (Curtis 2019; Parens et al. 2020; Rosenberg et al. 2019; Wald and Old 2019), PGS are increasingly becoming available through direct-to-consumer (DTC) testing companies, including in sensitive and controversial contexts, such as…”
InfluentialFrom Basic to Humane Genomics Literacy
Donovan, B., Weindling, M., & Lee, D. M. (2020) · Science & Education · doi:10.1007/s11191-020-00171-1 · Cited by 34 · see citing works
Gene Expression Modularity Reveals Footprints of Polygenic Adaptation in Theobroma cacao
Hämälä, T., Guiltinan, M. J., Marden, J. H., Maximova, S. N., dePamphilis, C. W., & Tiffin, P. (2019) · Molecular Biology and Evolution · doi:10.1093/molbev/msz206 · Cited by 33 · see citing works
Global Ancestry and Cognitive Ability
Lasker, J., Pesta, B. J., Fuerst, J. G. R., & Kirkegaard, E. O. W. (2019) · Psych · doi:10.3390/psych1010034 · Cited by 32 · see citing works
“For background, a PGS “represents an aggregation, usually in the form of a sum, of the estimated effect sizes of the genetic variants in the genome” [85].”
BackgroundHuman genetic admixture through the lens of population genomics
Gopalan, S., Smith, S., Korunes, K. L., Hamid, I., Ramachandran, S., & Goldberg, A. (2021) · Philosophical Transactions of the Royal Society of London. Biological Sciences · doi:10.1098/rstb.2020.0410 · Cited by 31 · see citing works
“Admixture can increase the likelihood of uncommon genotype-genotype interactions, and often occurs in tandem with large geographical shifts that can generate novel genotype-environment interactions [158].”
BackgroundWidén, E., Raben, T. G., Lello, L., & Hsu, S. (2021) · Genes · doi:10.3390/genes12070991 · Cited by 33 · see citing works
Varghese, J. S., Lu, P., Choi, D., Kobayashi, L. C., Ali, M. K., Patel, S. A., & Li, C. (2023) · Journal of the American Heart Association · doi:10.1161/jaha.123.030765 · Cited by 29 · see citing works
“41 – 14 A meta-analysis of 8 studies (range of reported odds ratios: 1.15– 2.23) comprising 81 928 spouse pairs (20– 94 years old) concluded that “spouses of individuals with hypertension had 1.41 higher pooled odds (95% CI, 1.21– 1.64) of having hypertension themselves.””
BackgroundInfluentialA polygenic score for acute vaso-occlusive pain in pediatric sickle cell disease
Rampersaud, E., Kang, G., Palmer, L. E., Rashkin, S. R., Wang, S., Bi, W., Alberts, N. M., Anghelescu, D. L., Barton, M., Birch, K., et al. (2021) · Blood Advances · doi:10.1182/bloodadvances.2021004634 · Cited by 27 · see citing works
Matthews, L. J., Lebowitz, M. S., Ottman, R., & Appelbaum, P. S. (2021) · Social Psychology of Education · doi:10.1007/s11218-021-09632-z · Cited by 25 · see citing works
Quantitative Human Paleogenetics: What can Ancient DNA Tell us About Complex Trait Evolution?
Irving-Pease, E. K., Muktupavela, R., Dannemann, M., & Racimo, F. (2021) · Frontiers in Genetics · doi:10.3389/fgene.2021.703541 · Cited by 24 · see citing works
“Whichever method is used, significant caveats must be addressed before attributing differences in such scores to polygenic adaptation (Novembre and Barton, 2018; Rosenberg et al., 2019; Coop, 2019).”
MethodAncestry effects on type 2 diabetes genetic risk inference in Hispanic/Latino populations
Chande, A. T., Rishishwar, L., Conley, A. B., Valderrama-Aguirre, A., Medina-Rivas, M. A., & Jordan, I. K. (2020) · BMC Medical Genetics · doi:10.1186/s12881-020-01068-0 · Cited by 26 · see citing works
“Specifically, the extent to which PRS can be accurately inferred across population groups with distinct ancestry profiles is a matter of great concern [13, 14].”
BackgroundBakulski, K. M., Vadari, H. S., Faul, J. D., Heeringa, S. G., Kardia, S. L. R., Langa, K. M., Smith, J. A., Manly, J. J., Mitchell, C. M., Benke, K. S., et al. (2021) · Neurology Genetics · doi:10.1212/nxg.0000000000000576 · Cited by 20 · see citing works
Polygenic risk, population structure and ongoing difficulties with race in human genetics
Kaplan, J. M., & Fullerton, S. M. (2022) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2020.0427 · Cited by 20 · see citing works
Bird, K. A. (2021) · American Journal of Physical Anthropology · doi:10.1002/ajpa.24216 · Cited by 19 · see citing works
“This aspect of polygenic scores appears to be related to features of the home and prenatal environment of parents who carry a genetic signal that is not passed down directly to the offspring (Armstrong-Carter et al., 2020; Lee et al., 2018; Rosenberg et al., 2019; Selzam & Ritchie, 2019).”
BackgroundInfluentialSmith, S. P., Shahamatdar, S., Cheng, W., Zhang, S., Paik, J., Graff, M., Haiman, C. A., Matise, T. C., North, K. E., Peters, U., et al. (2022) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2022.03.005 · Cited by 17 · see citing works
Sex differences in the polygenic architecture of hearing problems in adults
Angelis, F. D., Zeleznik, O. A., Wendt, F. R., Pathak, G. A., Tylee, D. S., Lillo, A. D., Koller, D., Cabrera‐Mendoza, B., Clifford, R. E., Maihofer, A. X., et al. (2023) · Genome Medicine · doi:10.1186/s13073-023-01186-3 · Cited by 19 · see citing works
Schraiber, J. G., & Edge, M. D. (2024) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2319496121 · Cited by 17 · see citing works
Self-citationMatthews, L. J. (2021) · Studies in History and Philosophy of Science Part A · doi:10.1016/j.shpsa.2021.10.021 · Cited by 16 · see citing works
Embedded racism: Inequitable niche construction as a neglected evolutionary process affecting health
Henry, P. I., Beaulieu, M. S., Bradford, A., & Graves, J. L. (2023) · Evolution Medicine and Public Health · doi:10.1093/emph/eoad007 · Cited by 16 · see citing works
“In the absence of a sustained substitution test of divergent niches, genetic influences cannot be independently differentiated from racialized effects [14, 21, 36, 142].”
BackgroundBURT, C. H. (2024) · Sociological Methodology · doi:10.1177/00811750241236482 · Cited by 17 · see citing works
How Can Law and Policy Advance Quality in Genomic Analysis and Interpretation for Clinical Care?
Evans, B. J., Javitt, G. H., Hall, R., et al. (2020) · The Journal of Law Medicine & Ethics · doi:10.1177/1073110520916995 · Cited by 16 · see citing works
Testing for differences in polygenic scores in the presence of confounding
Blanc, J., & Berg, J. J. (2025) · Genetics · doi:10.1093/genetics/iyaf071 · Cited by 14 · see citing works
“Medically, it is important to know if polygenic score differences or gradients represent real underlying gradients in the average genetic effect (Rosenberg et al. 2019), whether those gradients are caused by nonneutral evolutionary mechanisms or not.”
How robust are cross-population signatures of polygenic adaptation in humans?
Refoyo-Martínez, A., Liu, S. M., Jørgensen, A. M., Jin, X., Albrechtsen, A., Martin, A. R., & Racimo, F. (2021) · Peer Community Journal · doi:10.24072/pcjournal.35 · Cited by 13 · see citing works
Revisiting the malaria hypothesis: accounting for polygenicity and pleiotropy
Ebel, E. R., Uricchio, L. H., Petrov, D. A., & Egan, E. S. (2022) · Trends in Parasitology · doi:10.1016/j.pt.2021.12.007 · Cited by 11 · see citing works
Uncovering the architecture of selection in two Bos taurus cattle breeds
Rowan, T. N., Schnabel, R. D., & Decker, J. E. (2024) · Evolutionary Applications · doi:10.1111/eva.13666 · Cited by 10 · see citing works
Populations, Traits, and Their Spatial Structure in Humans
Sohail, M., Izarraras-Gomez, A., & Vecchyo, D. O. (2021) · Genome Biology and Evolution · doi:10.1093/gbe/evab272 · Cited by 10 · see citing works
“This impact is manifested in two main ways: differences in the frequency of causal alleles and varying patterns of LD (Rosenberg et al. 2019).”
BackgroundPolygenic Interactions With Environmental Exposures in Blood Pressure Regulation: The HUNT Study
Øvretveit, K., Ingeström, E., Spitieris, M., Tragante, V., Thomas, L. F., Steinsland, I., Brumpton, B. M., Gudbjartsson, D. F., Hólm, H., Stefánsson, K., et al. (2024) · Journal of the American Heart Association · doi:10.1161/jaha.123.034612 · Cited by 9 · see citing works
Howarth, E., Szott, I. D., Witham, C. L., Wilding, C. S., & Bethell, E. (2023) · PLoS ONE · doi:10.1371/journal.pone.0288108 · Cited by 9 · see citing works
“Phenotypic traits, such as personality, are both quantitative (non-binary) and usually polygenic [7].”
BackgroundPredicting the direction of phenotypic difference
Gokhman, D., Harris, K. D., Carmi, S., & Greenbaum, G. (2025) · Nature Communications · doi:10.1038/s41467-025-62355-z · Cited by 8 · see citing works
Getting it right: Teaching undergraduate biology to undermine racial essentialism
Guevara, E. E., Gopalan, S., Massey, D. J., Adegboyega, M. T., Zhou, W., Solis, A., Anaya, A., Churchill, S. E., Feldblum, J. T., & Lawler, R. R. (2023) · Biology Methods and Protocols · doi:10.1093/biomethods/bpad032 · Cited by 9 · see citing works
Don, J., Schork, A. J., Glusman, G., Rappaport, N., Cummings, S., Duggan, D. J., Raju, A., Hellberg, K.-L. G., Gunn, S., Monti, S., et al. (2024) · GeroScience · doi:10.1007/s11357-024-01107-1 · Cited by 7 · see citing works
Polygenic risk scores: effect estimation and model optimization
Zhao, Z., Song, J., Wang, T., & Lu, Q. (2021) · Quantitative Biology · doi:10.15302/j-qb-021-0238 · Cited by 7 · see citing works
Genotype imputation and polygenic score estimation in northwestern Russian population
Kolosov, N., Rezapova, V., Rotar, O. P., Loboda, A., Freylikhman, O., Melnik, O., Sergushichev, A., Stevens, C. R., Voortman, T., Kostareva, A. A., et al. (2022) · PLoS ONE · doi:10.1371/journal.pone.0269434 · Cited by 6 · see citing works
The Dead Ends of Sociogenomics
Robette, N., & Reeve, P. (2022) · Population (English Edition) · doi:10.3917/popu.2202.0191 · Cited by 7 · see citing works
How well can we separate genetics from the environment?
Blanc, J., & Berg, J. J. (2020) · eLife · doi:10.7554/elife.64948 · Cited by 7 · see citing works
“To cut through some of this complexity, human geneticists use a tool called a polygenic score, which attempts to predict a person’s traits solely from their genes (Rosenberg et al., 2019).”
BackgroundRecommendations for responsible use of population descriptors in polygenic risk score development
Smith, J. L., Adebamowo, C., Adebamowo, S. N., Darst, B. F., Fullerton, S. M., Gogarten, S. M., Hamed, M. E., Hirbo, J. B., Hysong, M. R., Johar, A., et al. (2025) · Nature Genetics · doi:10.1038/s41588-025-02395-9 · Cited by 7 · see citing works
Decreased accuracy of forensic DNA mixture analysis for groups with lower genetic diversity
Flores, M., Ho, E., Ly, C., et al. (2024) · iScience · doi:10.1016/j.isci.2024.111067 · Cited by 6 · see citing works
“87 While it is abundantly clear that race is a construct created by humans, rather than intrinsically defined by genetic variation, 94–96 human genetic research, relevantly in forensics, often relies on models of humans divided into distinct panmictic groups, or admixtures of these panmictic groups.”
Añorve-Garibay, V., Huerta‐Sánchez, E., Sohail, M., & Vecchyo, D. O.-D. (2025) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2025.05.009 · Cited by 5 · see citing works
Genome-wide meta-analysis identifies new candidate genes for sickle cell disease nephropathy
Garrett, M. E., Soldano, K. L., Erwin, K. N., Zhang, Y., Gordeuk, V. R., Gladwin, M. T., Telen, M. J., & Ashley‐Koch, A. E. (2022) · Blood Advances · doi:10.1182/bloodadvances.2022007451 · Cited by 5 · see citing works
Sear, R., & Townsend, C. (2023) · Biology Letters · doi:10.1098/rsbl.2023.0390 · Cited by 4 · see citing works
How Can We Teach Genetics for Social Justice?
Reiss, M. J. (2021) · Contributions from biology education research · doi:10.1007/978-3-030-86051-6_3 · Cited by 4 · see citing works
“However, it may be that the standard ways of calculating heritabilities underestimate the importance played by the environment and therefore overestimate the importance of genetics (Rosenberg et al., 2018).”
Individual differences and influences on learning
Williamson, B., Jasinka, K., Allen, K., Bull, A., Harden, K. P., Hart, S. A., Kraftl, P., Martschenko, D. O., Noble, K. G., Nxumalo, F., et al. (2022) · UNESCO MGIEP eBooks · doi:10.56383/keud7932 · Cited by 4 · see citing works
Correa, J. D. O., Zambra, F. M. B., Michita, R. T., et al. (2023) · International Journal of Immunogenetics · doi:10.1111/iji.12636 · Cited by 4 · see citing works
Borsa, A., Miyagi, M., Ichikawa, K., Jesus, K. D., Jillson, K., Boulicault, M., & Richardson, S. S. (2024) · GLQ A Journal of Lesbian and Gay Studies · doi:10.1215/10642684-10938512 · Cited by 4 · see citing works
“Gene- by-environmental interactions and population stratification (differences in allele frequencies between populations), both essential for engaging the social, are well understood to complicate polygenic score analysis (Rosenberg et al. 2019).”
Neto, C. (2025) · History & Philosophy of the Life Sciences · doi:10.1007/s40656-025-00684-4 · Cited by 3 · see citing works
How Can We Make Genetics Education More Humane?
Donovan, B., Salazar, B., & Weindling, M. (2021) · Contributions from biology education research · doi:10.1007/978-3-030-86051-6_10 · Cited by 2 · see citing works
Bakulski, K. M., Vadari, H. S., Faul, J. D., Heeringa, S. G., Kardia, S. L., Langa, K. M., Smith, J. A., Manly, J. J., Mitchell, C. M., Benke, K. S., et al. (2020) · medRxiv · doi:10.1101/2020.02.10.20021667 · Cited by 3 · see citing works
“vary by ancestral populations (27) based on recombination and demographic histories (57).”
BackgroundBogumil, D. D., Sheng, X., Wan, P. C., Xia, L. Y., Pooler, L., Cheng, I. C., Streicher, S. A., Huang, B. Z., Chen, F., Stram, D. O., et al. (2026) · Cancer Epidemiology Biomarkers & Prevention · doi:10.1158/1055-9965.epi-25-1458 · Cited by 4 · see citing works
“In the context of PRS effect estimation and risk prediction, the relationship between these variables makes it difficult to parse the individual variable effects and estimate strata-specific cumulative risk (63).”
Polygenic scores for social science: Clarification, consensus, and controversy
BURT, C. H. (2023) · Behavioral and Brain Sciences · doi:10.1017/s0140525x23000845 · Cited by 2 · see citing works
Giel, A.-S., Bigge, J., Schumacher, J., Maj, C., & Dasmeh, P. (2024) · Molecular Biology and Evolution · doi:10.1093/molbev/msae115 · Cited by 1 · see citing works
“…the evolutionary rate of genes associated with polygenic traits is recognized to undergo subtle changes, with polygenic adaptation often entailing minor shifts in allele frequencies and leaving minimal trace on genomic loci (Pritchard et al. 2010; Rosenberg et al. 2019; Barghi et al. 2020).”
BackgroundXia, Q., Ullah, A., Yu, W., Jin, X., & Liu, H. (2024) · Biochemical Genetics · doi:10.1007/s10528-024-11003-0 · Cited by 2 · see citing works
“Using a threshold can separate disease-afflicted from non-disease afflicted individuals (Rosenberg et al. 2019).”
Heritability is a poor, if not unhelpful, measure of complex human behavioral processes
Fuentes, A., & Bird, K. A. (2022) · Behavioral and Brain Sciences · doi:10.1017/s0140525x21001564 · Cited by 2 · see citing works
The evolutionary genetics of polygenic diseases with the largest global burden in mortality ratesPreprint
Hazra, U., & Lachance, J. (2021) · medRxiv · doi:10.1101/2021.12.10.21267630 · Cited by 2 · see citing works
Põld, A., Toompere, K., Elken, A., Viigimaa, M., Irs, A., Nohrin, L. C., Fischer, K., Milani, L., Alavere, H., Alloja, J., et al. (2026) · Scientific Reports · doi:10.1038/s41598-026-35027-1 · Cited by 2 · see citing works
“Challenges in risk communication may have impacted the intervention’s effectiveness, as family physicians had to navigate both new software and the relatively recent concept of polygenic risk when explaining cardiovascular risk to patients.”
Pesta, B. J., Fuerst, J. G. R., Piffer, D., & Kirkegaard, E. O. W. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.09.24.312074 · Cited by 1 · see citing works
Moving genetics education beyond Mendel can reduce racial prejudicePreprint
Donovan, B., Weindling, M., Amemiya, J. L., Salazar, B., Lee, D. M., Syed, A. A., Stuhlsatz, M. A. M., & Snowden, J. (2023) · doi:10.31234/osf.io/zt49j · Cited by 1 · see citing works
Neurofeminism in BCI and BBI Ethics as a Prelude to Political Neuroethics
Ibrahim, M., & Dubljević, V. (2023) · doi:10.1002/9781394257522.ch5 · Cited by 1 · see citing works
Simulated climate change magnifies genetic vulnerabilities from mutation load and maladaptationPreprint
Leventhal, L., Ruffley, M., & Expósito‐Alonso, M. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.09.25.677362 · Cited by 1 · see citing works
Bioinformatics and Genomics for Epidemiologists
Bello‐Chavolla, O. Y., Fernández‐Chirino, L., Antonio‐Villa, N. E., et al. (2022) · Springer eBooks · doi:10.1007/978-3-030-89601-0_12
Angelis, F. D., Zeleznik, O. A., Wendt, F. R., Pathak, G. A., Tylee, D. S., Lillo, A. D., Koller, D., Cabrera‐Mendoza, B., Clifford, R. E., Maihofer, A. X., et al. (2022) · medRxiv · doi:10.1101/2022.01.26.22269898
What’s UPDOG? A novel tool for trans-ancestral polygenic score prediction
Howard, D. M., Pain, O., Gillett, A. C., et al. (2024) · Wellcome Open Research · doi:10.12688/wellcomeopenres.21375.1
Bañares, V. G., Martini, J., Lopez, G. I., Corral, P., & Schreier, L. E. (2024) · Gaceta Médica de México · doi:10.24875/gmm.m24000918
Additional file 3 of Sex differences in the polygenic architecture of hearing problems in adults
De Angelis, F., Zeleznik, O. A., Wendt, F. R., Pathak, G. A., Tylee, D. S., Lillo, A. D., Koller, D., Cabrera‐Mendoza, B., Clifford, R. E., Maihofer, A. X., et al. (2023) · Figshare · doi:10.6084/m9.figshare.22799956
Additional file 2 of Sex differences in the polygenic architecture of hearing problems in adults
De Angelis, F., Zeleznik, O. A., Wendt, F. R., Pathak, G. A., Tylee, D. S., Lillo, A. D., Koller, D., Cabrera‐Mendoza, B., Clifford, R. E., Maihofer, A. X., et al. (2023) · Figshare · doi:10.6084/m9.figshare.22799953
Ghazawi, A. E., Fahed, A. C., Fawaz, N., Fakih, Y., Alam, S., & Refaat, M. M. (2026) · American Heart Journal Plus Cardiology Research and Practice · doi:10.1016/j.ahjo.2025.100712
“Additionally, Rosenberg et al. emphasized that polygenic scores primarily index genetic propensity and must be interpreted in the context of baseline disease risk and environmental factors [49].”
Wang, X., Sofer, T., Frei, O., Kaplan, R., Perreira, K., Franceschini, N., Parada, H., Zhou, L. Y., Andreassen, O. A., González, H., et al. (2025) · medRxiv · doi:10.1016/j.xhgg.2026.100597
“39 Consistent with this, we observed that predictive gains were largely concentrated in the first few PCs, with minimal improvement beyond PC3.”
- Authors
- Rosenberg, N. A., Edge, M. D., Pritchard, J. K., & Feldman, M. W.
- Affiliations
- Stanford University (US)
- University of California, Davis (US)
- Howard Hughes Medical Institute (US)
- Corresponding author
- Rosenberg, Noah A
- Venue
- Evolution, Medicine, and Public Health
- Publisher
- Oxford University Press (OUP)
- Published
- 2018-12-27
- Volume
- 2019
- Issue
- 1
- Pages
- 26-34
- ISSN
- 2050-6201 (ISSN-L)
- PMC
- PMC6393779
- OpenAlex
- W2906825642
- Cited by
- 105
- References
- 54
- Citations by year
- 2026: 8 · 2025: 6 · 2024: 12 · 2023: 12 · 2022: 16 · 2021: 24 · 2020: 17 · 2019: 9 · 2017: 1
- FWCI
- 1.76
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- Evolution Medicine and Public Health (publishedVersion, cc-by)
- Europe PMC (PubMed Central) (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Funders
- National Institutes of Health (GM108779, GM130050, HG005855)
- National Science Foundation (DBI-1458059)
- Stanford Center for Computational, Evolutionary and Human Genomics
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Race, Genetics, and Society
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Associations and Epidemiology
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Evolution and Genetic Dynamics
- Keywords
- polygenic risk score, polygenic adaptation, null models, selective neutrality, health disparities, African Americans, European Americans
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.
Claims read by deepseek-v4.1-flash under definition version 3 (extract-v3) on 2026-10-29.
Classified by jev-1.13-20260917 (gold-guideline-v0.2) on 2026-10-29.
Cited sources are checked by gpt-6-sol.
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