The use of race, ethnicity and ancestry in human genetic research

Post-Human Genome Project progress has enabled a new wave of population genetic research, and intensified controversy over the use of race/ethnicity in this work. At the same time, the development of methods for inferring genetic ancestry offers more empirical means of assigning group labels. Here, we provide a systematic analysis of the use of race/ethnicity and ancestry in current genetic research. We base our analysis on key published recommendations for the use and reporting of race/ethnicity which advise that researchers: explain why the terms/categories were used and how they were measured, carefully define them, and apply them consistently. We studied 170 population genetic research articles from high impact journals, published 2008–2009. A comparative perspective was obtained by aligning study metrics with similar research from articles published 2001–2004. Our analysis indicates a marked improvement in compliance with some of the recommendations/guidelines for the use of race/ethnicity over time, while showing that important shortfalls still remain: no article using ‘race’, ‘ethnicity’ or ‘ancestry’ defined or discussed the meaning of these concepts in context; a third of articles still do not provide a rationale for their use, with those using ‘ancestry’ being the least likely to do so. Further, no article discussed potential socio-ethical implications of the reported research. As such, there remains a clear imperative for highlighting the importance of consistent and comprehensive reporting on human populations to the genetics/genomics community globally, to generate explicit guidelines for the uses of ancestry and genetic ancestry, and importantly, to ensure that guidelines are followed.

[1]  L. Groop,et al.  Variants in KCNQ1 are associated with susceptibility to type 2 diabetes mellitus , 2008, Nature Genetics.

[2]  Yusuke Nakamura,et al.  Japanese population structure, based on SNP genotypes from 7003 individuals compared to other ethnic groups: effects on population-based association studies. , 2008, American journal of human genetics.

[3]  Amit R. Indap,et al.  Genes mirror geography within Europe , 2008, Nature.

[4]  N. Kressin,et al.  Agreement between administrative data and patients' self-reports of race/ethnicity. , 2003, American journal of public health.

[5]  F. Harrison The Persistent Power of "Race" in the Cultural and Political Economy of Racism , 1995 .

[6]  J. Norris,et al.  Analysis of FTO gene variants with measures of obesity and glucose homeostasis in the IRAS Family Study , 2009, Human Genetics.

[7]  Laura Lyman Rodriguez,et al.  The use of racial, ethnic, and ancestral categories in human genetics research. , 2005, American journal of human genetics.

[8]  E. Lewis,et al.  Measles-mumps-rubella and other measles-containing vaccines do not increase the risk for inflammatory bowel disease: a case-control study from the Vaccine Safety Datalink project. , 2001, Archives of pediatrics & adolescent medicine.

[9]  Defining Human Differences in Biomedicine , 2007, PLoS medicine.

[10]  C. Condit How geneticists can help reporters to get their story right , 2007, Nature Reviews Genetics.

[11]  Jean Tichet,et al.  Genetic variant near IRS1 is associated with type 2 diabetes, insulin resistance and hyperinsulinemia , 2009, Nature Genetics.

[12]  Robert T. Schultz,et al.  Autism genome-wide copy number variation reveals ubiquitin and neuronal genes , 2009, Nature.

[13]  Michael Bamshad,et al.  Deconstructing the relationship between genetics and race , 2004, Nature Reviews Genetics.

[14]  J. Malvehy,et al.  Genome-wide association study identifies three loci associated with melanoma risk , 2009, Nature Genetics.

[15]  R. Mei,et al.  Genome-wide screen for asthma in Puerto Ricans: evidence for association with 5q23 region , 2008, Human Genetics.

[16]  J. Long,et al.  Human Genetic Diversity and the Nonexistence of Biological Races , 2003, Human biology.

[17]  A. Shields,et al.  Racial Categories in Medical Practice: How Useful Are They? , 2007, PLoS medicine.

[18]  Philippe Froguel,et al.  Common genetic variation near MC4R is associated with waist circumference and insulin resistance , 2008, Nature Genetics.

[19]  J. Stevens Racial Meanings and Scientific Methods: Changing Policies for NIH-sponsored Publications Reporting Human Variation , 2003, Journal of health politics, policy and law.

[20]  J. Mountain,et al.  Race and ethnicity in genetic research , 2007, American journal of medical genetics. Part A.

[21]  Thomas A Trikalinos,et al.  'Racial' differences in genetic effects for complex diseases , 2004, Nature Genetics.

[22]  M. Bamshad,et al.  Does race exist? , 2003, Scientific American.

[23]  Scott M. Williams,et al.  The Genetic Structure and History of Africans and African Americans , 2009, Science.

[24]  C. Rotimi Are medical and nonmedical uses of large-scale genomic markers conflating genetics and 'race'? , 2004, Nature Genetics.

[25]  M. Feldman,et al.  Worldwide Human Relationships Inferred from Genome-Wide Patterns of Variation , 2008 .

[26]  The use of race in medical research. , 1992, JAMA.

[27]  Editors' practice and views on terminology in ethnicity and health research. , 1997, Ethnicity & health.

[28]  Hua Tang,et al.  Categorization of humans in biomedical research: genes, race and disease , 2002, Genome Biology.

[29]  P. Donnelly,et al.  The effects of human population structure on large genetic association studies , 2004, Nature Genetics.

[30]  John Novembre,et al.  Inferring genetic ancestry: opportunities, challenges, and implications. , 2010, American journal of human genetics.

[31]  W. Kalow Pharmacogenetics, pharmacogenomics, and pharmacobiology , 2001, Clinical pharmacology and therapeutics.

[32]  P. Sullivan,et al.  Genome-Wide Association Study Implicates Chromosome 9q21.31 as a Susceptibility Locus for Asthma in Mexican Children , 2009, PLoS genetics.

[33]  Christian Gieger,et al.  Multiple loci influence erythrocyte phenotypes in the CHARGE Consortium , 2009, Nature Genetics.

[34]  黄亚明(整理),et al.  ICMJE , 2012 .

[35]  Style Matters: Ethnicity, race, and culture: guidelines for research, audit, and publication , 1996, BMJ.

[36]  J. Pankow,et al.  The association of SNPs in ADIPOQ, ADIPOR1, and ADIPOR2 with insulin sensitivity in a cohort of adolescents and their parents , 2008, Human Genetics.

[37]  W. Provine Geneticists and the Biology of Race Crossing , 1973, Science.

[38]  Anbupalam Thalamuthu,et al.  A Genome-Wide Association Study Identifies Novel and Functionally Related Susceptibility Loci for Kawasaki Disease , 2009, PLoS genetics.

[39]  M. Cho,et al.  Toward a New Vocabulary of Human Genetic Variation , 2002, Science.

[40]  N. Risch,et al.  The importance of race and ethnic background in biomedical research and clinical practice. , 2003, The New England journal of medicine.

[41]  M. Feldman,et al.  The ethics of characterizing difference: guiding principles on using racial categories in human genetics , 2008, Genome Biology.

[42]  Cheryl Iverson,et al.  American Medical Association manual of style : a guide for authors and editors , 1998 .

[43]  R. Cooper,et al.  Race and genomics. , 2003, The New England journal of medicine.

[44]  R. Schwartz Racial profiling in medical research. , 2001, The New England journal of medicine.

[45]  Ching-Hon Pui,et al.  Germline genomic variants associated with childhood acute lymphoblastic leukemia , 2009, Nature Genetics.

[46]  Robert T. Schultz,et al.  Common genetic variants on 5p14.1 associate with autism spectrum disorders , 2009, Nature.

[47]  L. Cardon,et al.  Population stratification and spurious allelic association , 2003, The Lancet.

[48]  R. Bhopal Is research into ethnicity and health racist, unsound, or important science? , 1997, BMJ.

[49]  Celeste M Condit,et al.  Genetic research and health disparities. , 2004, JAMA.

[50]  G. Ellison,et al.  Can Science Alone Improve the Measurement and Communication of Race and Ethnicity in Genetic Research? Exploring the Strategies Proposed by Nature Genetics , 2006 .

[51]  F. Collins,et al.  Race and ethnicity in the genome era: the complexity of the constructs. , 2005, The American psychologist.

[52]  C. E. Ford Human Diversity , 1959, Nature.

[53]  M. Feldman,et al.  Genetic Structure of Human Populations , 2002, Science.

[54]  Steve Horvath,et al.  A Systems Genetics Approach Implicates USF1, FADS3, and Other Causal Candidate Genes for Familial Combined Hyperlipidemia , 2009, PLoS genetics.

[55]  A. Levine,et al.  Winter temperature and UV are tightly linked to genetic changes in the p53 tumor suppressor pathway in Eastern Asia. , 2009, American journal of human genetics.

[56]  D. Reich,et al.  Genetic structure of a unique admixed population: implications for medical research. , 2010, Human molecular genetics.

[57]  Sharon J. Diskin,et al.  Copy number variation at 1q21.1 associated with neuroblastoma , 2009, Nature.

[58]  T. Duster Race and Reification in Science , 2005, Science.

[59]  Ellen Wright Clayton,et al.  The Complex Relationship of Genetics, Groups, and Health: What it Means for Public Health , 2002, The Journal of law, medicine & ethics : a journal of the American Society of Law, Medicine & Ethics.

[60]  Ethnicity Race,et al.  The use of racial, ethnic, and ancestral categories in human genetics research. , 2005 .

[61]  J. Merz,et al.  A qualitative study of women’s views on medical confidentiality , 2005, Journal of Medical Ethics.

[62]  Eric Crubézy,et al.  Ancient DNA provides new insights into the history of south Siberian Kurgan people , 2009, Human Genetics.

[63]  B. Smedley,et al.  Unequal Treatment: Con-fronting Racial and Ethnic Disparities in Health Care , 2002 .

[64]  Richard R. Sharp,et al.  Beyond race: towards a whole-genome perspective on human populations and genetic variation , 2004, Nature Reviews Genetics.

[65]  Wei Chen,et al.  A nonsynonymous functional variant in integrin-αM (encoded by ITGAM) is associated with systemic lupus erythematosus , 2008, Nature Genetics.

[66]  E. Ziv,et al.  Recent advances of genetic ancestry testing in biomedical research and direct to consumer testing , 2009, Clinical genetics.

[67]  Xiaofeng Zhu,et al.  Genetic Structure, Self-identified Race/ethnicity, and Confounding in Case-control Association Studies , 2022 .

[68]  A. Singleton,et al.  Rare Structural Variants Disrupt Multiple Genes in Neurodevelopmental Pathways in Schizophrenia , 2008, Science.

[69]  Adrienne Y. Stith,et al.  RACIAL AND ETHNIC DISPARITIES IN DIAGNOSIS AND TREATMENT: A REVIEW OF THE EVIDENCE AND A CONSIDERATION OF CAUSES , 2003 .

[70]  W. Kraus,et al.  Genetic effects in the leukotriene biosynthesis pathway and association with atherosclerosis , 2009, Human Genetics.

[71]  R Dawn Comstock,et al.  Four-year review of the use of race and ethnicity in epidemiologic and public health research. , 2004, American journal of epidemiology.

[72]  N. Kerr,et al.  Race and ancestry , 2011 .

[73]  S. Lee Racializing drug design: implications of pharmacogenomics for health disparities. , 2005, American journal of public health.

[74]  K. Dombkowski,et al.  Constructive use of race and ethnicity variables. , 2001, Archives of pediatrics & adolescent medicine.

[75]  Lois Ann Colaianni,et al.  Uniform Requirements for Manuscripts Submitted to Biomedical Journals , 1991, The Medical journal of Australia.

[76]  Francis S. Collins,et al.  The Language of Life: DNA and the Revolution in Personalized Medicine , 2009 .

[77]  D. A. Schwartz,et al.  Non-reporting and inconsistent reporting of race and ethnicity in articles that claim associations among genotype, outcome, and race or ethnicity , 2006, Journal of Medical Ethics.

[78]  A. Wood Racial differences in the response to drugs--pointers to genetic differences. , 2001, The New England journal of medicine.

[79]  Yan Guo,et al.  Genome-wide association and follow-up replication studies identified ADAMTS18 and TGFBR3 as bone mass candidate genes in different ethnic groups. , 2009, American journal of human genetics.

[80]  F. Collins What we do and don't know about 'race', 'ethnicity', genetics and health at the dawn of the genome era , 2004, Nature Genetics.

[81]  Judith B. Kaplan,et al.  Use of race and ethnicity in biomedical publication. , 2003, JAMA.

[82]  M. Winker Measuring race and ethnicity: why and how? , 2004, JAMA.

[83]  A. Montagu Statement on race , 1953 .

[84]  C. Adebamowo,et al.  Genetic variation in IGFBP2 and IGFBP5 is associated with breast cancer in populations of African descent , 2008, Human Genetics.

[85]  Peter Kraft,et al.  Identification of a new prostate cancer susceptibility locus on chromosome 8q24 , 2009, Nature Genetics.

[86]  G. Mills,et al.  Genome-wide association scan of tag SNPs identifies a susceptibility locus for lung cancer at 15q25.1 , 2008, Nature Genetics.

[87]  J. Long,et al.  Human Genetic Diversity and the Nonexistence of Biological Races , 2003, Human biology.

[88]  F. Rivara,et al.  Use of the terms race and ethnicity. , 2001, Archives of Pediatrics & Adolescent Medicine.

[89]  Xiangding Chen,et al.  Genome-wide association scan for stature in Chinese: evidence for ethnic specific loci , 2009, Human Genetics.

[90]  Adrienne Y. Stith,et al.  Unequal Treatment: Confronting Racial and Ethnic Disparities in Health Care , 2005 .

[91]  A. Daar,et al.  Admixture mapping: from paradigms of race and ethnicity to population history , 2010, The HUGO Journal.

[92]  Mark D Shriver,et al.  The genomic distribution of population substructure in four populations using 8,525 autosomal SNPs , 2004, Human Genomics.

[93]  R. Rosenfeld Nature , 2009, Otolaryngology--head and neck surgery : official journal of American Academy of Otolaryngology-Head and Neck Surgery.

[94]  G. Oppenheimer Paradigm lost: race, ethnicity, and the search for a new population taxonomy. , 2001, American journal of public health.

[95]  F. Rivara,et al.  Race/ethnicity, gender, socioeconomic status-research exploring their effects on child health: a subject review. , 2000, Pediatrics.

[96]  Jin Ok Yang,et al.  Mapping Human Genetic Diversity in Asia , 2009, Science.

[97]  B. Yakir,et al.  Type 2 diabetes susceptibility loci in the Ashkenazi Jewish population , 2008, Human Genetics.

[98]  Alkes L. Price,et al.  Reconstructing Indian Population History , 2009, Nature.

[99]  S. Scherer,et al.  Race and ancestry in biomedical research: exploring the challenges , 2009, Genome Medicine.