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Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations

Asthma is a complex disease with striking disparities across racial and ethnic groups. Despite its relatively high burden, representation of individuals of African ancestry in asthma genome-wide association studies (GWAS) has been inadequate, and true associations in these underrepresented minority groups have been inconclusive. We report the results of a genome-wide meta-analysis from the Consortium on Asthma among African Ancestry Populations (CAAPA; 7009 asthma cases, 7645 controls). We find strong evidence for association at four previously reported asthma loci whose discovery was driven largely by non-African populations, including the chromosome 17q12–q21 locus and the chr12q13 region, a novel (and not previously replicated) asthma locus recently identified by the Trans-National Asthma Genetic Consortium (TAGC). An additional seven loci reported by TAGC show marginal evidence for association in CAAPA. We also identify two novel loci (8p23 and 8q24) that may be specific to asthma risk in African ancestry populations

Author Correction: Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations (Nature Communications, (2019), 10, 1, (880), 10.1038/s41467-019-08469-7)

The original version of this Article contained an error in the spelling of a member of the CAAPA Consortium, Hrafnhildur Bjarnadóttir which was incorrectly given as Hilda Bjarnadóttir. This has now been corrected in both the PDF and HTML versions of the Article.

Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations

OLIVEIRA, Ricardo Riccio. Fundação Oswaldo Cruz. Instituto Gonçalo Moniz. Salvador, BA, Brasil. Michelle Daya1, Nicholas Rafaels1, Tonya M. Brunetti1, Sameer Chavan1, Albert M. Levin2, Aniket Shetty1, Christopher R. Gignoux1, Meher Preethi Boorgula1, Genevieve Wojcik 3, Monica Campbell1, Candelaria Vergara 4, Dara G. Torgerson5, Victor E. Ortega6, Ayo Doumatey7, Henry Richard Johnston8, Nathalie Acevedo9, Maria Ilma Araujo10, Pedro C. Avila 11, Gillian Belbin12, Eugene Bleecker13, Carlos Bustamante3, Luis Caraballo9, Alvaro Cruz14, Georgia M. Dunston15, Celeste Eng5, Mezbah U. Faruque16, Trevor S. Ferguson 17, Camila Figueiredo18, Jean G. Ford19, Weiniu Gan20, Pierre-Antoine Gourraud21, Nadia N. Hansel4, Ryan D. Hernandez22, Edwin Francisco Herrera-Paz 23,24, Silvia Jiménez9, Eimear E. Kenny12, Jennifer Knight-Madden17, Rajesh Kumar25, Leslie A. Lange1, Ethan M. Lange1, Antoine Lizee21, Pissamai Maul26, Trevor Maul26, Alvaro Mayorga27, Deborah Meyers13, Dan L. Nicolae28, Timothy D. O’Connor29, Ricardo Riccio Oliveira30, Christopher O. Olopade31, Olufunmilayo Olopade28, Zhaohui S. Qin 32, Charles Rotimi 7, Nicolas Vince 21, Harold Watson33, Rainford J. Wilks17, James G. Wilson34, Steven Salzberg 35, Carole Ober36, Esteban G. Burchard22, L. Keoki Williams37, Terri H. Beaty 38, Margaret A. Taub39, Ingo Ruczinski39, CAAPA, Rasika A. Mathias4 & Kathleen C. Barnes1, Ayola Akim Adegnika40, Ganiyu Arinola41, Ulysse Ateba-Ngoa40, Gerardo Ayestas23, Hilda Bjarnadóttir42, Adolfo Correa 43, Said Omar Leiva Erazo23, Marilyn G. Foreman44, Cassandra Foster4, Li Gao4, Jingjing Gao45, Leslie Grammer11, Mark Hansen46, Tina Hartert47, Yijuan Hu32, Iain Königsberg1, Kwang-Youn A. Kim 48, Pamela Landaverde-Torres23, Javier Marrugo49, Beatriz Martinez49, Rosella Martinez23, Luis F. Mayorga23, Delmy-Aracely Mejia-Mejia50, Catherine Meza49, Solomon Musani43, Shaila Musharoff3, Oluwafemi Oluwole28, Maria Pino-Yanes 5, Hector Ramos23, Allan Saenz23, Maureen Samms-Vaughan51, Robert Schleimer11, Alan F. Scott52, Suyash S. Shringarpure3, Wei Song29, Zachary A. Szpiech 22, Raul Torres 53, Gloria Varela23, Olga Marina Vasquez54, Francisco M. De La Vega3, Lorraine B. Ware47 & Maria Yazdanbakhsh 5. 1Department of Medicine, University of Colorado Denver, Aurora, CO 80045, USA. 2Department of Public Health Sciences, Henry Ford Health System, Detroit, MI 48202, USA. 3Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA. 4Department of Medicine, Johns Hopkins University, Baltimore, MD 21224, USA. 5Department of Medicine, University of California San Francisco, San Francisco, CA 94143, USA. 6Center for Human Genomics and Personalized Medicine, Wake Forest School of Medicine, Winston-Salem 27157, USA. 7Center for Research on Genomics & Global Health, National Institutes of Health, Bethesda, MD 20892, USA. 8Department of Human Genetics, Emory University, Atlanta, GA 30322, USA. 9Institute for Immunological Research, Universidad de Cartagena, Cartagena 130000, Colombia 10Immunology Service, Universidade Federal da Bahia, Salvador 401110170, Brazil. 11Department of Medicine, Northwestern University, Chicago, IL 60611, USA. 12Department of Genetics and Genomics, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA. 13Department of Medicine, University of Arizona College of Medicine, Tucson, AZ 85724, USA. 14Universidade Federal da Bahia, Salvador 401110170, Brazil. 15Department of Microbiology, Howard University College of Medicine, Washington, DC 20059, USA. 16National Human Genome Center, Howard University College of Medicine, Washington, DC 20059, USA. 17Caribbean Institute for Health Research, The University of the West Indies, Kingston 00007, Jamaica. 18Departamento de Biorregulacao, Universidade Federal da Bahia, Salvador 401110170, Brazil. 19Department of Medicine, Einstein Medical Center, Philadelphia, PA 19141, USA. 20National Heart, Lung and Blood Institute, National Institutes of Health, Bethesda, MD 20892, USA. 21Université de Nantes, INSERM, Centre de Recherche en Transplantation et Immunologie, UMR, 1064ATIP-Avenir, Equipe 5, Nantes, France. 22Department of Bioengineering and Therapeutic Sciences, University of California San Francisco, San Francisco, CA 94143, USA. 23Facultad de Medicina, Universidad Católica de Honduras, San Pedro Sula 21102, Honduras. 24Universidad Tecnológica Centroamericana (UNITEC), Facultad de Ciencias Médicas, Tegucigalpa, Honduras. 25Department of Pediatrics, Northwestern University, Chicago, IL 60611, USA. 26Genetics and Epidemiology of Asthma in Barbados, The University of the West Indies, Chronic Disease Research Centre, Jemmots Lane, St. Michael BB11115, Barbados. 27Centro de Neumologia y Alergias, San Pedro Sula 21102, Honduras. 28Department of Medicine, University of Chicago, Chicago, IL 60637, USA. 29Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21201, USA. 30Laboratório de Patologia Experimental, Centro de Pesquisas Gonçalo Moniz, Salvador 40296-710, Brazil. 31Department of Medicine and Center for Global Health, University of Chicago, Chicago, IL 60637, USA. 32Department of Biostatistics and Bioinformatics, Emory University, Atlanta, GA 30322, USA. 33Faculty of Medical Sciences, The University of the West Indies, Queen Elizabeth Hospital, Bridgetown, St. Michael BB11000, Barbados. 34Department of Physiology and Biophysics, University of Mississippi Medical Center, Jackson, MS 39216, USA. 35Departments of Biomedical Engineering and Biostatistics, Johns Hopkins University, Baltimore, MD 21205, USA. 36Department of Human Genetics, University of Chicago, Chicago, IL 60637, USA. 37Center for Individualized and Genomic Medicine Research, Henry Ford Health System, Detroit, MI 48202, USA. 38Department of Epidemiology, Bloomberg School of Public Health, JHU, Baltimore, MD 21205, USA. 39Department of Biostatistics, Bloomberg School of Public Health, JHU, Baltimore, MD 21205, USA. These authors contributed equally: Rasika A. Mathias, Kathleen C. Barnes.40Centre de Recherches Médicales de Lambaréné, BP:242, Lambaréné 13901, Gabon. 41Department of Chemical Pathology, University of Ibadan, Ibadan 900001, Nigeria. 42Faculty of Medicine, University of Iceland, 101 Reykjavík, Iceland. 43Department of Medicine, University of Mississippi Medical Center, Jackson, MS 39216, USA. 44Pulmonary and Critical Care Medicine, Morehouse School of Medicine, Atlanta, GA 30310, USA. 45Data and Statistical Sciences, AbbVie, North Chicago, IL 60064, USA. 46Illumina, Inc., San Diego, CA 92122, USA. 47Department of Medicine, Vanderbilt University, Nashville, TN 37232, USA. 48Department of Preventive Medicine, Northwestern University, Chicago, IL 60611, USA. 49Instituto de Investigaciones Immunologicas, Universidad de Cartagena, Cartagena 130000, Colombia. 50Facultad de Ciencias de la Salud, Universidad Tecnológica Centroamericana (UNITEC), San Pedro Sula 21102, Honduras. 51Department of Child Health, The University of the West Indies, Kingston 00007, Jamaica. 52Department of Medicine, Johns Hopkins University, Baltimore, MD 21287, USA. 53Biomedical Sciences Graduate Program, University of California San Francisco, San Francisco, CA 94158, USA. 54Centro Medico de la Familia, San Pedro Sula 21102, Honduras. 55Department of Parasitology, Leiden University Medical Center, Leiden 02333, NetherlandsSubmitted by Ana Maria Fiscina Sampaio ([email protected]) on 2019-03-25T16:18:22Z No. of bitstreams: 1 Daya M Association study in African-admixed...2019.pdf: 1446713 bytes, checksum: ec386d63089da2ac2c2f15c4ef98f264 (MD5)Approved for entry into archive by Ana Maria Fiscina Sampaio ([email protected]) on 2019-03-25T16:36:07Z (GMT) No. of bitstreams: 1 Daya M Association study in African-admixed...2019.pdf: 1446713 bytes, checksum: ec386d63089da2ac2c2f15c4ef98f264 (MD5)Made available in DSpace on 2019-03-25T16:36:07Z (GMT). No. of bitstreams: 1 Daya M Association study in African-admixed...2019.pdf: 1446713 bytes, checksum: ec386d63089da2ac2c2f15c4ef98f264 (MD5) Previous issue date: 2019Múltipla - ver em NotasAsthma is a complex disease with striking disparities across racial and ethnic groups. Despite its relatively high burden, representation of individuals of African ancestry in asthma genome-wide association studies (GWAS) has been inadequate, and true associations in these underrepresented minority groups have been inconclusive. We report the results of a genome-wide meta-analysis from the Consortium on Asthma among African Ancestry Populations (CAAPA; 7009 asthma cases, 7645 controls). We find strong evidence for association at four previously reported asthma loci whose discovery was driven largely by non-African populations, including the chromosome 17q12-q21 locus and the chr12q13 region, a novel (and not previously replicated) asthma locus recently identified by the Trans-National Asthma Genetic Consortium (TAGC). An additional seven loci reported by TAGC show marginal evidence for association in CAAPA. We also identify two novel loci (8p23 and 8q24) that may be specific to asthma risk in African ancestry populations

A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome

Ricardo Riccio Oliveira. Fundação Oswaldo Cruz. Centro de Pesquisas Gonçalo Moniz. Laboratório de Patologia Experimental. Salvador, BA, Brasil, 1 Department of Medicine, Johns Hopkins University, Baltimore, Maryland 21224, USA. 2 Department of Epidemiology, Bloomberg School of Public Health, JHU, Baltimore, Maryland 21205, USA. 3 Department of Biostatistics, Bloomberg School of Public Health, JHU, Baltimore, Maryland 21205, USA. 4 Department of Genetics, Stanford University School of Medicine, Stanford, California 94305, USA. 5 Department of Genomic Sciences, University of Washington, Seattle, Washington 98195, USA. 6 Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, Maryland 21201, USA. 7 Program in Personalized and Genomic Medicine, University of Maryland School of Medicine, Baltimore, Maryland 21201, USA. 8 Department of Medicine, University of Maryland School of Medicine, Baltimore, Maryland 21201, USA. 9 Department of Medicine, University of California, San Francisco, San Francisco, California 94143, USA. 10 CIBER de Enfermedades Respiratorias, Instituto de Salud Carlos III, Madrid 28029, Spain. 11 Department of Biostatistics and Bioinformatics, Emory University, Atlanta, Georgia 30322, USA. 12 Center for Human Genomics and Personalized Medicine, Wake Forest School of Medicine, Winston-Salem, North Carolina 27157, USA. 13 Department of Public Health Sciences, Henry Ford Health System, Detroit, Michigan 48202, USA. 14 Biomedical Sciences Graduate Program, University of California, San Francisco, San Francisco, California 94158, USA. 15 Center for Health Policy and Health Services Research, Henry Ford Health System, Detroit, Michigan 48202, USA. 16 Centro de Neumologia y Alergias, San Pedro Sula 21102, Honduras. 17 Faculty of Medicine, Centro Medico de la Familia, San Pedro Sula 21102, Honduras. 18 Tropical Medicine Research Institute, The University of the West Indies, St. Michael BB11115, Barbados. 19 Department of Parasitology, Leiden University Medical Center, Leiden 2333ZA, The Netherlands. 20 Department of Physiology and Biophysics, University of Mississippi Medical Center, Jackson, Mississippi 39216, USA. 21 Instituto de Investigaciones Immunologicas, Universidad de Cartagena, Cartagena 130000, Colombia. 22 Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599, USA. 23 Department of Pediatrics, Northwestern University, Chicago, Illinois 60637, USA. 24 The Ann & Robert H. Lurie Children’s Hospital of Chicago, Chicago, Illinois 60637, USA. 25 Department of Medicine, Northwestern University, Chicago, Illinois 60637, USA. 26 Department of Internal Medicine, Henry Ford Health System, Detroit, Michigan 48202, USA. 27 Faculty of Medical Sciences Cave Hill Campus, The University of the West Indies, Bridgetown BB11000, Barbados. 28 Queen Elizabeth Hospital, The University of the West Indies, St. Michael BB11115, Barbados. 29 Department of Medicine, Vanderbilt University, Nashville, Tennessee 37232, USA. 30 Department of Pathology, Microbiology and Immunology, Vanderbilt University, Nashville, Tennessee 37232, USA. 31 Department of Medicine and Center for Global Health, University of Chicago, Chicago, Illinois 60637, USA. 32 Department of Medicine, University of Chicago, Chicago, Illinois 60637, USA. 33 Laborato´rio de Patologia Experimental, Centro de Pesquisas Gonc¸alo Moniz, Salvador 40296-710, Brazil. 34 Department of Human Genetics, University of Chicago, Chicago, Illinois 60637, USA. 35 Department of Statistics, University of Chicago, Chicago, Illinois 60637, USA. 36 Pulmonary and Critical Care Medicine, Morehouse School of Medicine, Atlanta, Georgia 30310, USA. 37 Department of Medicine, The Brooklyn Hospital Center, Brooklyn, New York 11201, USA. 38 National Human Genome Center, Howard University College of Medicine,Washington DC 20059, USA. 39 Department of Microbiology, Howard University College of Medicine,Washington DC 20059, USA. 40 Institute for Immunological Research, Universidad de Cartagena, Cartagena 130000, Colombia. 41 Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, California 94158, USA. 42 Immunology Service, Universidade Federal da Bahia, Salvador 401110170, Brazil. 43 Facultad de Medicina, Universidad Catolica de Honduras, San Pedro Sula 21102, Honduras. 44 Illumina, Inc., San Diego, California 92122, USA. 45 Knome Inc., Cambridge, Massachusetts 02141, USA. 46 Department of Pediatrics, University of Washington, Seattle, Washington 98195, USA. 47 Department of Genetics and Genomics, Icahn School of Medicine at Mount Sinai, New York, New York 10029, USA. 48 Institute for Human Genetics, University of California, San Francisco, San Francisco, California 94143, USA. 49 California Institute for Quantitative Biosciences, University of California, San Francisco, California 94143, USA.Submitted by Ana Maria Fiscina Sampaio ([email protected]) on 2017-03-27T16:01:46Z No. of bitstreams: 1 Mathias_R A continuum of...).pdf: 1498239 bytes, checksum: 19504c57796d4f14f86d677aa4e422fa (MD5)Approved for entry into archive by Ana Maria Fiscina Sampaio ([email protected]) on 2017-03-27T16:28:42Z (GMT) No. of bitstreams: 1 Mathias_R A continuum of...).pdf: 1498239 bytes, checksum: 19504c57796d4f14f86d677aa4e422fa (MD5)Made available in DSpace on 2017-03-27T16:28:42Z (GMT). No. of bitstreams: 1 Mathias_R A continuum of...).pdf: 1498239 bytes, checksum: 19504c57796d4f14f86d677aa4e422fa (MD5) Previous issue date: 2016Johns Hopkins University. Department of Medicine. Baltimore, Maryland, USA / Bloomberg School of Public Health JHU. Department of Epidemiology. Baltimore, Maryland, USABloomberg School of Public Health, JHU. Department of Biostatistics. Baltimore, Maryland, USAFundação Oswaldo Cruz. Centro de Pesquisas Gonçalo Moniz. Laboratório de Patologia Experimental. Salvador, BA, Brasil. Múltipla - ver em NotasThe African Diaspora in the Western Hemisphere represents one of the largest forced migrations in history and had a profound impact on genetic diversity in modern populations. To date, the fine-scale population structure of descendants of the African Diaspora remains largely uncharacterized. Here we present genetic variation from deeply sequenced genomes of 642 individuals from North and South American, Caribbean and West African populations, substantially increasing the lexicon of human genomic variation and suggesting much variation remains to be discovered in African-admixed populations in the Americas. We summarize genetic variation in these populations, quantifying the postcolonial sex-biased European gene flow across multiple regions. Moreover, we refine estimates on the burden of deleterious variants carried across populations and how this varies with African ancestry. Our data are an important resource for empowering disease mapping studies in African-admixed individuals and will facilitate gene discovery for diseases disproportionately affecting individuals of African ancestry

A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome

The African Diaspora in the Western Hemisphere represents one of the largest forced migrations in history and had a profound impact on genetic diversity in modern populations. To date, the fine-scale population structure of descendants of the African Diaspora remains largely uncharacterized. Here we present genetic variation from deeply sequenced genomes of 642 individuals from North and South American, Caribbean and West African populations, substantially increasing the lexicon of human genomic variation and suggesting much variation remains to be discovered in African-admixed populations in the Americas. We summarize genetic variation in these populations, quantifying the postcolonial sex-biased European gene flow across multiple regions. Moreover, we refine estimates on the burden of deleterious variants carried across populations and how this varies with African ancestry. Our data are an important resource for empowering disease mapping studies in African-admixed individuals and will facilitate gene discovery for diseases disproportionately affecting individuals of African ancestry

A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome

The African Diaspora in the Western Hemisphere represents one of the largest forced migrations in history and had a profound impact on genetic diversity in modern populations. To date, the fine-scale population structure of descendants of the African Diaspora remains largely uncharacterized. Here we present genetic variation from deeply sequenced genomes of 642 individuals from North and South American, Caribbean and West African populations, substantially increasing the lexicon of human genomic variation and suggesting much variation remains to be discovered in African-admixed populations in the Americas. We summarize genetic variation in these populations, quantifying the postcolonial sex-biased European gene flow across multiple regions. Moreover, we refine estimates on the burden of deleterious variants carried across populations and how this varies with African ancestry. Our data are an important resource for empowering disease mapping studies in African-admixed individuals and will facilitate gene discovery for diseases disproportionately affecting individuals of African ancestry

Effects of hospital facilities on patient outcomes after cancer surgery: an international, prospective, observational study

© 2022 The Author(s). Published by Elsevier Ltd. This is an Open Access article under the CC BY 4.0 licenseBackground: Early death after cancer surgery is higher in low-income and middle-income countries (LMICs) compared with in high-income countries, yet the impact of facility characteristics on early postoperative outcomes is unknown. The aim of this study was to examine the association between hospital infrastructure, resource availability, and processes on early outcomes after cancer surgery worldwide. Methods: A multimethods analysis was performed as part of the GlobalSurg 3 study—a multicentre, international, prospective cohort study of patients who had surgery for breast, colorectal, or gastric cancer. The primary outcomes were 30-day mortality and 30-day major complication rates. Potentially beneficial hospital facilities were identified by variable selection to select those associated with 30-day mortality. Adjusted outcomes were determined using generalised estimating equations to account for patient characteristics and country-income group, with population stratification by hospital. Findings: Between April 1, 2018, and April 23, 2019, facility-level data were collected for 9685 patients across 238 hospitals in 66 countries (91 hospitals in 20 high-income countries; 57 hospitals in 19 upper-middle-income countries; and 90 hospitals in 27 low-income to lower-middle-income countries). The availability of five hospital facilities was inversely associated with mortality: ultrasound, CT scanner, critical care unit, opioid analgesia, and oncologist. After adjustment for case-mix and country income group, hospitals with three or fewer of these facilities (62 hospitals, 1294 patients) had higher mortality compared with those with four or five (adjusted odds ratio [OR] 3·85 [95% CI 2·58–5·75]; p<0·0001), with excess mortality predominantly explained by a limited capacity to rescue following the development of major complications (63·0% vs 82·7%; OR 0·35 [0·23–0·53]; p<0·0001). Across LMICs, improvements in hospital facilities would prevent one to three deaths for every 100 patients undergoing surgery for cancer. Interpretation: Hospitals with higher levels of infrastructure and resources have better outcomes after cancer surgery, independent of country income. Without urgent strengthening of hospital infrastructure and resources, the reductions in cancer-associated mortality associated with improved access will not be realised. Funding: National Institute for Health and Care Research