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Pepin ME, Gupta RM. The Role of Endothelial Cells in Atherosclerosis: Insights from Genetic Association Studies. Am J Pathol 2024;194:499-509. [PMID: 37827214 PMCID: PMC10988759 DOI: 10.1016/j.ajpath.2023.09.012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/19/2023] [Revised: 08/21/2023] [Accepted: 09/01/2023] [Indexed: 10/14/2023]

Schnitzler GR, Kang H, Fang S, Angom RS, Lee-Kim VS, Ma XR, Zhou R, Zeng T, Guo K, Taylor MS, Vellarikkal SK, Barry AE, Sias-Garcia O, Bloemendal A, Munson G, Guckelberger P, Nguyen TH, Bergman DT, Hinshaw S, Cheng N, Cleary B, Aragam K, Lander ES, Finucane HK, Mukhopadhyay D, Gupta RM, Engreitz JM. Convergence of coronary artery disease genes onto endothelial cell programs. Nature 2024;626:799-807. [PMID: 38326615 PMCID: PMC10921916 DOI: 10.1038/s41586-024-07022-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2022] [Accepted: 01/03/2024] [Indexed: 02/09/2024]

Affiliation(s)

Gavin R Schnitzler Broad Institute of MIT and Harvard, Cambridge, MA, USA The Novo Nordisk Foundation Center for Genomic Mechanisms of Disease, Broad Institute, Cambridge, MA, USA Divisions of Genetics and Cardiovascular Medicine, Department of Medicine, Brigham and Women's Hospital, Boston, MA, USA
Helen Kang Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA Basic Science and Engineering Initiative, Stanford Children's Health, Betty Irene Moore Children's Heart Center, Stanford, CA, USA
Shi Fang Broad Institute of MIT and Harvard, Cambridge, MA, USA Divisions of Genetics and Cardiovascular Medicine, Department of Medicine, Brigham and Women's Hospital, Boston, MA, USA
Ramcharan S Angom Department of Biochemistry and Molecular Biology, Mayo Clinic College of Medicine and Science, Jacksonville, FL, USA
Vivian S Lee-Kim Broad Institute of MIT and Harvard, Cambridge, MA, USA Divisions of Genetics and Cardiovascular Medicine, Department of Medicine, Brigham and Women's Hospital, Boston, MA, USA
X Rosa Ma Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA Basic Science and Engineering Initiative, Stanford Children's Health, Betty Irene Moore Children's Heart Center, Stanford, CA, USA
Ronghao Zhou Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA Basic Science and Engineering Initiative, Stanford Children's Health, Betty Irene Moore Children's Heart Center, Stanford, CA, USA
Tony Zeng Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA Basic Science and Engineering Initiative, Stanford Children's Health, Betty Irene Moore Children's Heart Center, Stanford, CA, USA
Katherine Guo Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA Basic Science and Engineering Initiative, Stanford Children's Health, Betty Irene Moore Children's Heart Center, Stanford, CA, USA
Martin S Taylor Department of Pathology, Massachusetts General Hospital and Harvard Medical School, Boston, MA, USA
Shamsudheen K Vellarikkal Broad Institute of MIT and Harvard, Cambridge, MA, USA Divisions of Genetics and Cardiovascular Medicine, Department of Medicine, Brigham and Women's Hospital, Boston, MA, USA
Aurelie E Barry Broad Institute of MIT and Harvard, Cambridge, MA, USA Divisions of Genetics and Cardiovascular Medicine, Department of Medicine, Brigham and Women's Hospital, Boston, MA, USA
Oscar Sias-Garcia Broad Institute of MIT and Harvard, Cambridge, MA, USA Divisions of Genetics and Cardiovascular Medicine, Department of Medicine, Brigham and Women's Hospital, Boston, MA, USA
Alex Bloemendal Broad Institute of MIT and Harvard, Cambridge, MA, USA The Novo Nordisk Foundation Center for Genomic Mechanisms of Disease, Broad Institute, Cambridge, MA, USA
Glen Munson Broad Institute of MIT and Harvard, Cambridge, MA, USA
Philine Guckelberger Broad Institute of MIT and Harvard, Cambridge, MA, USA
Tung H Nguyen Broad Institute of MIT and Harvard, Cambridge, MA, USA
Drew T Bergman Broad Institute of MIT and Harvard, Cambridge, MA, USA Geisel School of Medicine at Dartmouth, Hanover, NH, USA
Stephen Hinshaw Department of Chemical and Systems Biology, ChEM-H, and Stanford Cancer Institute, Stanford University School of Medicine, Stanford, CA, USA
Nathan Cheng Broad Institute of MIT and Harvard, Cambridge, MA, USA
Brian Cleary Broad Institute of MIT and Harvard, Cambridge, MA, USA Faculty of Computing and Data Sciences, Departments of Biology and Biomedical Engineering, Biological Design Center, and Program in Bioinformatics, Boston University, Boston, MA, USA
Krishna Aragam Broad Institute of MIT and Harvard, Cambridge, MA, USA Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA
Eric S Lander Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Biology, MIT, Cambridge, MA, USA Department of Systems Biology, Harvard Medical School, Boston, MA, USA
Hilary K Finucane Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Medicine, Massachusetts General Hospital, Boston, MA, USA Analytic and Translational Genetics Unit, Massachusetts General Hospital, Boston, MA, USA Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Debabrata Mukhopadhyay Department of Biochemistry and Molecular Biology, Mayo Clinic College of Medicine and Science, Jacksonville, FL, USA
Rajat M Gupta Broad Institute of MIT and Harvard, Cambridge, MA, USA. The Novo Nordisk Foundation Center for Genomic Mechanisms of Disease, Broad Institute, Cambridge, MA, USA. Divisions of Genetics and Cardiovascular Medicine, Department of Medicine, Brigham and Women's Hospital, Boston, MA, USA.
Jesse M Engreitz Broad Institute of MIT and Harvard, Cambridge, MA, USA. The Novo Nordisk Foundation Center for Genomic Mechanisms of Disease, Broad Institute, Cambridge, MA, USA. Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA. Basic Science and Engineering Initiative, Stanford Children's Health, Betty Irene Moore Children's Heart Center, Stanford, CA, USA. Stanford Cardiovascular Institute, Stanford University, Stanford, CA, USA.

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Zhu QM, Hsu YHH, Lassen FH, MacDonald BT, Stead S, Malolepsza E, Kim A, Li T, Mizoguchi T, Schenone M, Guzman G, Tanenbaum B, Fornelos N, Carr SA, Gupta RM, Ellinor PT, Lage K. Protein interaction networks in the vasculature prioritize genes and pathways underlying coronary artery disease. Commun Biol 2024;7:87. [PMID: 38216744 PMCID: PMC10786878 DOI: 10.1038/s42003-023-05705-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2023] [Accepted: 12/13/2023] [Indexed: 01/14/2024] Open

Affiliation(s)

Qiuyu Martin Zhu Cardiovascular Disease Initiative & Precision Cardiology Laboratory, Broad Institute of MIT and Harvard, Cambridge, MA, USA Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA Center for Genomic Medicine, Massachusetts General Hospital, Boston, MA, USA
Yu-Han H Hsu Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA Novo Nordisk Foundation Center for Genomic Mechanisms of Disease, Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Surgery, Massachusetts General Hospital, Boston, MA, USA
Frederik H Lassen Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Surgery, Massachusetts General Hospital, Boston, MA, USA Wellcome Centre for Human Genetics, Nuffield Department of Medicine, University of Oxford, Oxford, UK
Bryan T MacDonald Cardiovascular Disease Initiative & Precision Cardiology Laboratory, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Stephanie Stead Cardiovascular Disease Initiative & Precision Cardiology Laboratory, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Edyta Malolepsza Genomics Platform, Broad Institute of MIT and Harvard, Cambridge, MA, USA
April Kim Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Surgery, Massachusetts General Hospital, Boston, MA, USA
Taibo Li Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Surgery, Massachusetts General Hospital, Boston, MA, USA
Taiji Mizoguchi Cardiovascular Disease Initiative & Precision Cardiology Laboratory, Broad Institute of MIT and Harvard, Cambridge, MA, USA Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA
Monica Schenone Proteomics Platform, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Gaelen Guzman Proteomics Platform, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Benjamin Tanenbaum Proteomics Platform, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Nadine Fornelos Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA Novo Nordisk Foundation Center for Genomic Mechanisms of Disease, Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Surgery, Massachusetts General Hospital, Boston, MA, USA
Steven A Carr Proteomics Platform, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Rajat M Gupta Divisions of Cardiovascular Medicine and Genetics, Brigham and Women's Hospital, Boston, MA, USA
Patrick T Ellinor Cardiovascular Disease Initiative & Precision Cardiology Laboratory, Broad Institute of MIT and Harvard, Cambridge, MA, USA. Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA.
Kasper Lage Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA. Novo Nordisk Foundation Center for Genomic Mechanisms of Disease, Broad Institute of MIT and Harvard, Cambridge, MA, USA. Department of Surgery, Massachusetts General Hospital, Boston, MA, USA. Institute of Biological Psychiatry, Mental Health Centre Sct. Hans, Mental Health Services Copenhagen, Roskilde, Denmark.

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Weeks EM, Ulirsch JC, Cheng NY, Trippe BL, Fine RS, Miao J, Patwardhan TA, Kanai M, Nasser J, Fulco CP, Tashman KC, Aguet F, Li T, Ordovas-Montanes J, Smillie CS, Biton M, Shalek AK, Ananthakrishnan AN, Xavier RJ, Regev A, Gupta RM, Lage K, Ardlie KG, Hirschhorn JN, Lander ES, Engreitz JM, Finucane HK. Leveraging polygenic enrichments of gene features to predict genes underlying complex traits and diseases. Nat Genet 2023;55:1267-1276. [PMID: 37443254 PMCID: PMC10836580 DOI: 10.1038/s41588-023-01443-6] [Citation(s) in RCA: 20] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2020] [Accepted: 06/09/2023] [Indexed: 07/15/2023]

Affiliation(s)

Elle M Weeks Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Jacob C Ulirsch Broad Institute of MIT and Harvard, Cambridge, MA, USA Program in Biological and Biomedical Sciences, Harvard Medical School, Boston, MA, USA Artificial Intelligence Laboratory, Illumina, Inc., San Diego, CA, USA
Nathan Y Cheng Broad Institute of MIT and Harvard, Cambridge, MA, USA
Brian L Trippe Program in Computational & Systems Biology, MIT, Cambridge, MA, USA Computer Science & Artificial Intelligence Lab, MIT, Cambridge, MA, USA
Rebecca S Fine Broad Institute of MIT and Harvard, Cambridge, MA, USA Division of Endocrinology and Center for Basic and Translational Obesity Research, Boston Children's Hospital, Boston, MA, USA Department of Genetics, Harvard Medical School, Boston, MA, USA Vertex Pharmaceuticals Incorporated, Boston, MA, USA
Jenkai Miao Broad Institute of MIT and Harvard, Cambridge, MA, USA Division of Endocrinology and Center for Basic and Translational Obesity Research, Boston Children's Hospital, Boston, MA, USA
Tejal A Patwardhan Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Statistics, Harvard University, Cambridge, MA, USA
Masahiro Kanai Broad Institute of MIT and Harvard, Cambridge, MA, USA Analytic and Translational Genetics Unit, MGH, Boston, MA, USA Program in Bioinformatics and Integrative Genomics, Harvard Medical School, Boston, MA, USA Department of Statistical Genetics, Osaka University Graduate School of Medicine, Suita, Japan
Joseph Nasser Broad Institute of MIT and Harvard, Cambridge, MA, USA
Charles P Fulco Broad Institute of MIT and Harvard, Cambridge, MA, USA Bristol Myers Squibb, Cambridge, MA, USA
Katherine C Tashman Broad Institute of MIT and Harvard, Cambridge, MA, USA
Francois Aguet Broad Institute of MIT and Harvard, Cambridge, MA, USA
Taibo Li Broad Institute of MIT and Harvard, Cambridge, MA, USA MD-PhD Program, Johns Hopkins University School of Medicine, Baltimore, MD, USA
Jose Ordovas-Montanes Broad Institute of MIT and Harvard, Cambridge, MA, USA Division of Gastroenterology, Hepatology, and Nutrition, Boston Children's Hospital, Boston, MA, USA Program in Immunology, Harvard Medical School, Boston, MA, USA Harvard Stem Cell Institute, Cambridge, MA, USA
Christopher S Smillie Broad Institute of MIT and Harvard, Cambridge, MA, USA Program in Computational & Systems Biology, MIT, Cambridge, MA, USA
Moshe Biton Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Molecular Biology, MGH, Boston, MA, USA Department of Biological Regulation, Weizmann Institute of Science, Rehovot, Israel
Alex K Shalek Broad Institute of MIT and Harvard, Cambridge, MA, USA Institute for Medical Engineering and Science, MIT, Cambridge, MA, USA Department of Chemistry, MIT, Cambridge, MA, USA Koch Institute for Integrative Cancer Research, MIT, Cambridge, MA, USA Ragon Institute of MGH, MMIT, Cambridge, MA, USA
Ashwin N Ananthakrishnan Gastrointestinal Unit and Center for the Study of Inflammatory Bowel Disease, MGH, Boston, MA, USA
Ramnik J Xavier Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Molecular Biology, MGH, Boston, MA, USA Gastrointestinal Unit and Center for the Study of Inflammatory Bowel Disease, MGH, Boston, MA, USA Center for Computational and Integrative Biology, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA
Aviv Regev Broad Institute of MIT and Harvard, Cambridge, MA, USA Koch Institute for Integrative Cancer Research, MIT, Cambridge, MA, USA Howard Hughes Medical Institute, MIT, Cambridge, MA, USA Genentech, San Francisco, CA, USA
Rajat M Gupta Broad Institute of MIT and Harvard, Cambridge, MA, USA Division of Cardiovascular Medicine and Genetics, Department of Medicine, Brigham and Women's Hospital, Boston, MA, USA Harvard Medical School, Boston, MA, USA
Kasper Lage Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Surgery, MGH, Boston, MA, USA
Kristin G Ardlie Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, USA
Joel N Hirschhorn Broad Institute of MIT and Harvard, Cambridge, MA, USA Division of Endocrinology and Center for Basic and Translational Obesity Research, Boston Children's Hospital, Boston, MA, USA Department of Genetics, Harvard Medical School, Boston, MA, USA Department of Pediatrics, Harvard Medical School, Boston, MA, USA
Eric S Lander Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Biology, MIT, Cambridge, MA, USA Department of Systems Biology, Harvard Medical School, Boston, MA, USA
Jesse M Engreitz Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA BASE Initiative, Betty Irene Moore Children's Heart Center, Lucile Packard Children's Hospital, Stanford University School of Medicine, Stanford, CA, USA
Hilary K Finucane Broad Institute of MIT and Harvard, Cambridge, MA, USA. Analytic and Translational Genetics Unit, MGH, Boston, MA, USA.

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Honigberg MC, Truong B, Khan RR, Xiao B, Bhatta L, Vy HMT, Guerrero RF, Schuermans A, Selvaraj MS, Patel AP, Koyama S, Cho SMJ, Vellarikkal SK, Trinder M, Urbut SM, Gray KJ, Brumpton BM, Patil S, Zöllner S, Antopia MC, Saxena R, Nadkarni GN, Do R, Yan Q, Pe'er I, Verma SS, Gupta RM, Haas DM, Martin HC, van Heel DA, Laisk T, Natarajan P. Polygenic prediction of preeclampsia and gestational hypertension. Nat Med 2023;29:1540-1549. [PMID: 37248299 PMCID: PMC10330886 DOI: 10.1038/s41591-023-02374-9] [Citation(s) in RCA: 14] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Accepted: 04/26/2023] [Indexed: 05/31/2023]

Affiliation(s)

Michael C Honigberg Cardiology Division, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA. Cardiovascular Research Center, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA. Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA.
Buu Truong Cardiovascular Research Center, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA
Raiyan R Khan Department of Computer Science, Columbia University, New York, NY, USA
Brenda Xiao University of Pennsylvania, Philadelphia, PA, USA
Laxmi Bhatta K.G. Jebsen Center for Genetic Epidemiology, Department of Public Health and Nursing, NTNU, Norwegian University of Science and Technology, Trondheim, Norway HUNT Research Centre, Department of Public Health and Nursing, NTNU, Norwegian University of Science and Technology, Levanger, Norway
Ha My T Vy The Charles Bronfman Institute for Personalized Medicine, Icahn School of Medicine at Mount Sinai, New York, NY, USA
Rafael F Guerrero Department of Biological Sciences, North Carolina State University, Raleigh, NC, USA
Art Schuermans Cardiovascular Research Center, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA Faculty of Medicine, KU Leuven, Leuven, Belgium
Margaret Sunitha Selvaraj Cardiovascular Research Center, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA
Aniruddh P Patel Cardiology Division, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Research Center, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA
Satoshi Koyama Cardiovascular Research Center, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA
So Mi Jemma Cho Cardiovascular Research Center, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA Integrative Research Center for Cerebrovascular and Cardiovascular Diseases, Seoul, Republic of Korea
Shamsudheen Karuthedath Vellarikkal Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA Cardiovascular Division, Department of Medicine, Brigham and Women's Hospital, Boston, MA, USA
Mark Trinder Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA Centre for Heart Lung Innovation, University of British Columbia, Vancouver, British Columbia, Canada
Sarah M Urbut Cardiology Division, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Research Center, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA
Kathryn J Gray Department of Obstetrics and Gynecology, Brigham and Women's Hospital, Boston, MA, USA Center for Genomic Medicine, Massachusetts General Hospital, Boston, MA, USA
Ben M Brumpton K.G. Jebsen Center for Genetic Epidemiology, Department of Public Health and Nursing, NTNU, Norwegian University of Science and Technology, Trondheim, Norway HUNT Research Centre, Department of Public Health and Nursing, NTNU, Norwegian University of Science and Technology, Levanger, Norway
Snehal Patil Department of Biostatistics and Center for Statistical Genetics, University of Michigan School of Public Health, Ann Arbor, MI, USA
Sebastian Zöllner Department of Biostatistics and Center for Statistical Genetics, University of Michigan School of Public Health, Ann Arbor, MI, USA
Mariah C Antopia Department of Integrative Biology, University of Texas at San Antonio, San Antonio, TX, USA
Richa Saxena Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA Center for Genomic Medicine, Massachusetts General Hospital, Boston, MA, USA
Girish N Nadkarni The Charles Bronfman Institute for Personalized Medicine, Icahn School of Medicine at Mount Sinai, New York, NY, USA
Ron Do The Charles Bronfman Institute for Personalized Medicine, Icahn School of Medicine at Mount Sinai, New York, NY, USA
Qi Yan Department of Obstetrics and Gynecology, Columbia University, New York, NY, USA
Itsik Pe'er Department of Computer Science, Columbia University, New York, NY, USA
Shefali Setia Verma University of Pennsylvania, Philadelphia, PA, USA
Rajat M Gupta Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA Cardiovascular Division, Department of Medicine, Brigham and Women's Hospital, Boston, MA, USA
David M Haas Indiana University School of Medicine, Indianapolis, IN, USA
Hilary C Martin Department of Human Genetics, Wellcome Sanger Institute, Cambridge, UK
David A van Heel Blizard Institute, Barts and The London School of Medicine and Dentistry, Queen Mary University of London, London, UK
Triin Laisk Estonian Genome Centre, Institute of Genomics, University of Tartu, Tartu, Estonia
Pradeep Natarajan Cardiology Division, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA. Cardiovascular Research Center, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA. Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA. Center for Genomic Medicine, Massachusetts General Hospital, Boston, MA, USA.

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Gupta RM, Schnitzler G, Fang S, Lee-Kim VS, Barry A. Multiomic Analysis and CRISPR Perturbation Screens Identify Endothelial Cell Programs and Novel Therapeutic Targets for Coronary Artery Disease. Arterioscler Thromb Vasc Biol 2023;43:600-608. [PMID: 36994731 PMCID: PMC10170398 DOI: 10.1161/atvbaha.123.318328] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/31/2023]

Aragam KG, Jiang T, Goel A, Kanoni S, Wolford BN, Atri DS, Weeks EM, Wang M, Hindy G, Zhou W, Grace C, Roselli C, Marston NA, Kamanu FK, Surakka I, Venegas LM, Sherliker P, Koyama S, Ishigaki K, Åsvold BO, Brown MR, Brumpton B, de Vries PS, Giannakopoulou O, Giardoglou P, Gudbjartsson DF, Güldener U, Haider SMI, Helgadottir A, Ibrahim M, Kastrati A, Kessler T, Kyriakou T, Konopka T, Li L, Ma L, Meitinger T, Mucha S, Munz M, Murgia F, Nielsen JB, Nöthen MM, Pang S, Reinberger T, Schnitzler G, Smedley D, Thorleifsson G, von Scheidt M, Ulirsch JC, Arnar DO, Burtt NP, Costanzo MC, Flannick J, Ito K, Jang DK, Kamatani Y, Khera AV, Komuro I, Kullo IJ, Lotta LA, Nelson CP, Roberts R, Thorgeirsson G, Thorsteinsdottir U, Webb TR, Baras A, Björkegren JLM, Boerwinkle E, Dedoussis G, Holm H, Hveem K, Melander O, Morrison AC, Orho-Melander M, Rallidis LS, Ruusalepp A, Sabatine MS, Stefansson K, Zalloua P, Ellinor PT, Farrall M, Danesh J, Ruff CT, Finucane HK, Hopewell JC, Clarke R, Gupta RM, Erdmann J, Samani NJ, Schunkert H, Watkins H, Willer CJ, Deloukas P, Kathiresan S, Butterworth AS. Discovery and systematic characterization of risk variants and genes for coronary artery disease in over a million participants. Nat Genet 2022;54:1803-1815. [PMID: 36474045 PMCID: PMC9729111 DOI: 10.1038/s41588-022-01233-6] [Citation(s) in RCA: 112] [Impact Index Per Article: 56.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2021] [Accepted: 10/17/2022] [Indexed: 12/12/2022]

Affiliation(s)

Krishna G Aragam Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA. .,Center for Genomic Medicine, Massachusetts General Hospital, Boston, MA, USA. .,Cardiovascular Disease Initiative, Broad Institute of MIT and Harvard, Cambridge, MA, USA. .,Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Tao Jiang BHF Cardiovascular Epidemiology Unit, Department of Public Health and Primary Care, University of Cambridge, Cambridge, UK
Anuj Goel Radcliffe Department of Medicine, Division of Cardiovascular Medicine, University of Oxford, Oxford, UK.,Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK
Stavroula Kanoni William Harvey Research Institute, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London, UK
Brooke N Wolford Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI, USA
Deepak S Atri Cardiovascular Disease Initiative, Broad Institute of MIT and Harvard, Cambridge, MA, USA.,Divisions of Cardiovascular Medicine and Genetics, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Elle M Weeks Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Minxian Wang Cardiovascular Disease Initiative, Broad Institute of MIT and Harvard, Cambridge, MA, USA.,Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA
George Hindy Department of Population Medicine, Qatar University College of Medicine, Doha, Qatar
Wei Zhou Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA.,Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI, USA.,Analytic and Translational Genetics Unit, Massachusetts General Hospital, Boston, MA, USA.,Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Christopher Grace Radcliffe Department of Medicine, Division of Cardiovascular Medicine, University of Oxford, Oxford, UK.,Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK
Carolina Roselli Cardiovascular Disease Initiative, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Nicholas A Marston TIMI Study Group, Division of Cardiovascular Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Frederick K Kamanu TIMI Study Group, Division of Cardiovascular Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Ida Surakka Department of Internal Medicine, Division of Cardiology, University of Michigan, Ann Arbor, MI, USA
Loreto Muñoz Venegas Institute for Cardiogenetics, University of Lübeck, Lübeck, Germany.,German Research Center for Cardiovascular Research (DZHK), Partner Site Hamburg/Lübeck/Kiel, Lübeck, Germany
Paul Sherliker Medical Research Council Population Health Research Unit, CTSU-Nuffield Department of Population Health, Medical Sciences Division, University of Oxford, Oxford, UK
Satoshi Koyama Laboratory for Cardiovascular Genomics and Informatics, RIKEN Center for Integrative Medical Sciences, Tsurumi-ku, Yokohama, Japan
Kazuyoshi Ishigaki Laboratory for Statistical and Translational Genetics, RIKEN Center for Integrative Medical Sciences, Tsurumi-ku, Yokohama, Japan
Bjørn O Åsvold Department of Public Health and Nursing, K.G. Jebsen Center for Genetic Epidemiology, Norwegian University of Science and Technology, NTNU, Trondheim, Norway.,HUNT Research Centre, Norwegian University of Science and Technology, Levanger, Norway.,Department of Endocrinology, Clinic of Medicine, St. Olavs Hospital, Trondheim, Norway
Michael R Brown Human Genetics Center, Department of Epidemiology, Human Genetics, and Environmental Sciences, School of Public Health, The University of Texas Health Science Center at Houston, Houston, TX, USA
Ben Brumpton Department of Public Health and Nursing, K.G. Jebsen Center for Genetic Epidemiology, Norwegian University of Science and Technology, NTNU, Trondheim, Norway.,HUNT Research Centre, Norwegian University of Science and Technology, Levanger, Norway
Paul S de Vries Human Genetics Center, Department of Epidemiology, Human Genetics, and Environmental Sciences, School of Public Health, The University of Texas Health Science Center at Houston, Houston, TX, USA
Olga Giannakopoulou William Harvey Research Institute, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London, UK
Panagiota Giardoglou Department of Nutrition-Dietetics, School of Health Science and Education, Harokopio University, Athens, Greece
Daniel F Gudbjartsson deCODE Genetics/Amgen, Inc., Reykjavik, Iceland.,School of Engineering and Natural Sciences, University of Iceland, Reykjavik, Iceland
Ulrich Güldener German Heart Centre Munich, Department of Cardiology, Technical University of Munich, Munich, Germany
Syed M Ijlal Haider Institute for Cardiogenetics, University of Lübeck, Lübeck, Germany.,German Research Center for Cardiovascular Research (DZHK), Partner Site Hamburg/Lübeck/Kiel, Lübeck, Germany
Anna Helgadottir deCODE Genetics/Amgen, Inc., Reykjavik, Iceland
Maysson Ibrahim CTSU-Nuffield Department of Population Health, Medical Sciences Division, University of Oxford, Oxford, UK
Adnan Kastrati German Heart Centre Munich, Department of Cardiology, Technical University of Munich, Munich, Germany.,German Research Center for Cardiovascular Research (DZHK e.V.), Partner Site Munich Heart Alliance, Munich, Germany
Thorsten Kessler German Heart Centre Munich, Department of Cardiology, Technical University of Munich, Munich, Germany.,German Research Center for Cardiovascular Research (DZHK e.V.), Partner Site Munich Heart Alliance, Munich, Germany
Theodosios Kyriakou Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK
Tomasz Konopka William Harvey Research Institute, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London, UK
Ling Li German Heart Centre Munich, Department of Cardiology, Technical University of Munich, Munich, Germany
Lijiang Ma Department of Genetics and Genomic Science, Icahn Institute for Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, New York, NY, USA.,The Zena and Michael A. Wiener Cardiovascular Institute, Icahn School of Medicine at Mount Sinai, New York, NY, USA
Thomas Meitinger German Research Center for Cardiovascular Research (DZHK e.V.), Partner Site Munich Heart Alliance, Munich, Germany.,Institute of Human Genetics, Helmholtz Zentrum München, German Research Center for Environmental Health, Neuherberg, Germany.,Klinikum Rechts der Isar, Institute of Human Genetics, Technical University of Munich, Munich, Germany
Sören Mucha Institute for Cardiogenetics, University of Lübeck, Lübeck, Germany.,German Research Center for Cardiovascular Research (DZHK), Partner Site Hamburg/Lübeck/Kiel, Lübeck, Germany
Matthias Munz Institute for Cardiogenetics, University of Lübeck, Lübeck, Germany.,German Research Center for Cardiovascular Research (DZHK), Partner Site Hamburg/Lübeck/Kiel, Lübeck, Germany
Federico Murgia CTSU-Nuffield Department of Population Health, Medical Sciences Division, University of Oxford, Oxford, UK
Jonas B Nielsen Department of Internal Medicine, Division of Cardiology, University of Michigan, Ann Arbor, MI, USA.,Department of Public Health and Nursing, K.G. Jebsen Center for Genetic Epidemiology, Norwegian University of Science and Technology, NTNU, Trondheim, Norway
Markus M Nöthen School of Medicine and University Hospital Bonn, Institute of Human Genetics, University of Bonn, Bonn, Germany
Shichao Pang German Heart Centre Munich, Department of Cardiology, Technical University of Munich, Munich, Germany
Tobias Reinberger Institute for Cardiogenetics, University of Lübeck, Lübeck, Germany.,German Research Center for Cardiovascular Research (DZHK), Partner Site Hamburg/Lübeck/Kiel, Lübeck, Germany
Gavin Schnitzler Cardiovascular Disease Initiative, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Damian Smedley William Harvey Research Institute, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London, UK
Gudmar Thorleifsson deCODE Genetics/Amgen, Inc., Reykjavik, Iceland
Moritz von Scheidt German Heart Centre Munich, Department of Cardiology, Technical University of Munich, Munich, Germany.,German Research Center for Cardiovascular Research (DZHK e.V.), Partner Site Munich Heart Alliance, Munich, Germany
Jacob C Ulirsch Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA.,Analytic and Translational Genetics Unit, Massachusetts General Hospital, Boston, MA, USA.,Program in Biological and Biomedical Sciences, Harvard Medical School, Boston, MA, USA


David O Arnar deCODE Genetics/Amgen, Inc., Reykjavik, Iceland.,Faculty of Medicine, University of Iceland, Reykjavik, Iceland.,Department of Internal Medicine, Division of Cardiology, Landspitali-National University Hospital of Iceland, Hringbraut, Reykjavik, Iceland
Noël P Burtt Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Maria C Costanzo Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Jason Flannick Division of Genetics and Genomics, Boston Children's Hospital, Boston, MA, USA
Kaoru Ito Laboratory for Cardiovascular Genomics and Informatics, RIKEN Center for Integrative Medical Sciences, Tsurumi-ku, Yokohama, Japan
Dong-Keun Jang Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Yoichiro Kamatani Department of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Tokyo, Japan
Amit V Khera Center for Genomic Medicine, Massachusetts General Hospital, Boston, MA, USA.,Cardiovascular Disease Initiative, Broad Institute of MIT and Harvard, Cambridge, MA, USA.,Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Issei Komuro Department of Cardiovascular Medicine, The University of Tokyo, Tokyo, Japan
Iftikhar J Kullo Department of Cardiovascular Medicine, Mayo Clinic, Rochester, MN, USA
Luca A Lotta Regeneron Genetics Center, Regeneron Pharmaceuticals, Tarrytown, NY, USA
Christopher P Nelson Department of Cardiovascular Sciences and NIHR Leicester Biomedical Research Centre, University of Leicester, Glenfield Hospital, Leicester, UK
Robert Roberts Cardiovascular Genomics and Genetics, University of Arizona College of Medicin, Phoenix, AZ, USA
Gudmundur Thorgeirsson deCODE Genetics/Amgen, Inc., Reykjavik, Iceland.,Faculty of Medicine, University of Iceland, Reykjavik, Iceland.,Department of Internal Medicine, Division of Cardiology, Landspitali-National University Hospital of Iceland, Hringbraut, Reykjavik, Iceland
Unnur Thorsteinsdottir deCODE Genetics/Amgen, Inc., Reykjavik, Iceland.,Faculty of Medicine, University of Iceland, Reykjavik, Iceland
Thomas R Webb Department of Cardiovascular Sciences and NIHR Leicester Biomedical Research Centre, University of Leicester, Glenfield Hospital, Leicester, UK
Aris Baras Regeneron Genetics Center, Regeneron Pharmaceuticals, Tarrytown, NY, USA
Johan L M Björkegren Department of Genetics and Genomic Sciences, Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, New York, NY, USA.,Integrated Cardio Metabolic Centre, Karolinska Institutet, Karolinska Universitetssjukhuset, Huddinge, Sweden.,Clinical Gene Networks AB, Stockholm, Sweden
Eric Boerwinkle Human Genetics Center, Department of Epidemiology, Human Genetics, and Environmental Sciences, School of Public Health, The University of Texas Health Science Center at Houston, Houston, TX, USA.,Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX, USA
George Dedoussis Department of Nutrition-Dietetics, School of Health Science and Education, Harokopio University, Athens, Greece
Hilma Holm deCODE Genetics/Amgen, Inc., Reykjavik, Iceland
Kristian Hveem Department of Public Health and Nursing, K.G. Jebsen Center for Genetic Epidemiology, Norwegian University of Science and Technology, NTNU, Trondheim, Norway.,HUNT Research Centre, Norwegian University of Science and Technology, Levanger, Norway
Olle Melander Department of Clinical Sciences in Malmö, Lund University, Malmö, Sweden
Alanna C Morrison Human Genetics Center, Department of Epidemiology, Human Genetics, and Environmental Sciences, School of Public Health, The University of Texas Health Science Center at Houston, Houston, TX, USA
Marju Orho-Melander Department of Clinical Sciences in Malmö, Lund University, Malmö, Sweden
Loukianos S Rallidis Second Department of Cardiology, Medical School, National and Kapodistrian University of Athens, University General Hospital Attikon, Athens, Greece
Arno Ruusalepp Department of Cardiac Surgery, Tartu University Hospital and Institute of Clinical Medicine, Tartu University, Tartu, Estonia
Marc S Sabatine TIMI Study Group, Division of Cardiovascular Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Kari Stefansson deCODE Genetics/Amgen, Inc., Reykjavik, Iceland.,Faculty of Medicine, University of Iceland, Reykjavik, Iceland
Pierre Zalloua Harvard T.H.Chan School of Public Health, Boston, MA, USA.,College of Medicine and Health Sciences, Khalifa University, Abu Dhabi, UAE
Patrick T Ellinor Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA.,Cardiovascular Disease Initiative, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Martin Farrall Radcliffe Department of Medicine, Division of Cardiovascular Medicine, University of Oxford, Oxford, UK.,Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK
John Danesh BHF Cardiovascular Epidemiology Unit, Department of Public Health and Primary Care, University of Cambridge, Cambridge, UK.,National Institute for Health and Care Research Cambridge Biomedical Research Centre, Cambridge University Hospitals, Cambridge, UK.,The National Institute for Health and Care Research Blood and Transplant Unit (NIHR BTRU) in Donor Health and Genomics, University of Cambridge, Cambridge, UK.,Human Genetics, Wellcome Sanger Institute, Saffron Walden, UK.,Health Data Research UK Cambridge, Wellcome Genome Campus and University of Cambridge, Cambridge, UK.,British Heart Foundation Centre of Research Excellence, Division of Cardiovascular Medicine, Addenbrooke's Hospital, Cambridge, UK
Christian T Ruff TIMI Study Group, Division of Cardiovascular Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Hilary K Finucane Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA.,Analytic and Translational Genetics Unit, Massachusetts General Hospital, Boston, MA, USA.,Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Jemma C Hopewell CTSU-Nuffield Department of Population Health, Medical Sciences Division, University of Oxford, Oxford, UK
Robert Clarke CTSU-Nuffield Department of Population Health, Medical Sciences Division, University of Oxford, Oxford, UK
Rajat M Gupta Cardiovascular Disease Initiative, Broad Institute of MIT and Harvard, Cambridge, MA, USA.,Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA.,Divisions of Cardiovascular Medicine and Genetics, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Jeanette Erdmann Institute for Cardiogenetics, University of Lübeck, Lübeck, Germany.,German Research Center for Cardiovascular Research (DZHK), Partner Site Hamburg/Lübeck/Kiel, Lübeck, Germany
Nilesh J Samani Faculty of Medicine, University of Iceland, Reykjavik, Iceland
Heribert Schunkert German Heart Centre Munich, Department of Cardiology, Technical University of Munich, Munich, Germany.,German Research Center for Cardiovascular Research (DZHK e.V.), Partner Site Munich Heart Alliance, Munich, Germany
Hugh Watkins Radcliffe Department of Medicine, Division of Cardiovascular Medicine, University of Oxford, Oxford, UK.,Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK
Cristen J Willer Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI, USA.,Department of Internal Medicine, Division of Cardiology, University of Michigan, Ann Arbor, MI, USA.,Department of Human Genetics, University of Michigan, Ann Arbor, MI, USA
Panos Deloukas William Harvey Research Institute, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London, UK.,Princess Al-Jawhara Al-Brahim Centre of Excellence in Research of Hereditary Disorders (PACER-HD), King Abdulaziz University, Jeddah, Saudi Arabia
Sekar Kathiresan Verve Therapeutics, Cambridge, MA, USA
Adam S Butterworth BHF Cardiovascular Epidemiology Unit, Department of Public Health and Primary Care, University of Cambridge, Cambridge, UK. .,National Institute for Health and Care Research Cambridge Biomedical Research Centre, Cambridge University Hospitals, Cambridge, UK. .,The National Institute for Health and Care Research Blood and Transplant Unit (NIHR BTRU) in Donor Health and Genomics, University of Cambridge, Cambridge, UK. .,Health Data Research UK Cambridge, Wellcome Genome Campus and University of Cambridge, Cambridge, UK. .,British Heart Foundation Centre of Research Excellence, Division of Cardiovascular Medicine, Addenbrooke's Hospital, Cambridge, UK.

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Yang D, Haemmig S, Chen J, McCoy M, Cheng HS, Zhou H, Pérez-Cremades D, Cheng X, Sun X, Haneo-Mejia J, Vellarikkal SK, Gupta RM, Barrera V, Feinberg MW. Endothelial cell-specific deletion of a microRNA accelerates atherosclerosis. Atherosclerosis 2022;350:9-18. [PMID: 35462240 PMCID: PMC10165557 DOI: 10.1016/j.atherosclerosis.2022.04.010] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 01/08/2022] [Revised: 03/29/2022] [Accepted: 04/07/2022] [Indexed: 12/14/2022]

Affiliation(s)

Dafeng Yang Department of Medicine, Cardiovascular Division, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA; Department of Cardiovascular Surgery, The Second Xiangya Hospital of Central South University, Changsha, Hunan, China
Stefan Haemmig Department of Medicine, Cardiovascular Division, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Jingshu Chen Department of Medicine, Cardiovascular Division, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Michael McCoy Department of Medicine, Cardiovascular Division, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Henry S Cheng Department of Medicine, Cardiovascular Division, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Haoyang Zhou Department of Cardiovascular Surgery, The Second Xiangya Hospital of Central South University, Changsha, Hunan, China
Daniel Pérez-Cremades Department of Medicine, Cardiovascular Division, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Xiao Cheng Department of Biochemistry, University of Nebraska - Lincoln, Lincoln, NE, 68588, USA
Xinghui Sun Department of Biochemistry, University of Nebraska - Lincoln, Lincoln, NE, 68588, USA
Jorge Haneo-Mejia Department of Pathology and Laboratory Medicine and Institute for Immunology, University of Pennsylvania, Philadelphia, PA, USA
Shamsudheen K Vellarikkal Department of Medicine, Cardiovascular Division, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Rajat M Gupta Department of Medicine, Cardiovascular Division, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Victor Barrera Department of Biostatistics, Harvard T.H. Chan School of Public Health, Boston, MA, 02115, USA
Mark W Feinberg Department of Medicine, Cardiovascular Division, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA.

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Gupta RM. Causal Gene Confusion: The Complicated EDN1/PHACTR1 Locus for Coronary Artery Disease. Arterioscler Thromb Vasc Biol 2022;42:610-612. [PMID: 35387481 PMCID: PMC9050840 DOI: 10.1161/atvbaha.122.317539] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]

Gupta RM, Plutzky J. The Aging Aorta: Are We Only as Old as Our Endothelium? Arterioscler Thromb Vasc Biol 2022;42:172-174. [PMID: 35080899 PMCID: PMC9741947 DOI: 10.1161/atvbaha.121.317275] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]

Pirruccello JP, Chaffin MD, Chou EL, Fleming SJ, Lin H, Nekoui M, Khurshid S, Friedman SF, Bick AG, Arduini A, Weng LC, Choi SH, Akkad AD, Batra P, Tucker NR, Hall AW, Roselli C, Benjamin EJ, Vellarikkal SK, Gupta RM, Stegmann CM, Juric D, Stone JR, Vasan RS, Ho JE, Hoffmann U, Lubitz SA, Philippakis AA, Lindsay ME, Ellinor PT. Deep learning enables genetic analysis of the human thoracic aorta. Nat Genet 2022;54:40-51. [PMID: 34837083 PMCID: PMC8758523 DOI: 10.1038/s41588-021-00962-4] [Citation(s) in RCA: 76] [Impact Index Per Article: 38.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2020] [Accepted: 09/30/2021] [Indexed: 11/16/2022]

Affiliation(s)

James P Pirruccello Division of Cardiology, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA Precision Cardiology Laboratory, The Broad Institute & Bayer US LLC, Cambridge, MA, USA Harvard Medical School, Boston, MA, USA
Mark D Chaffin Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA Precision Cardiology Laboratory, The Broad Institute & Bayer US LLC, Cambridge, MA, USA
Elizabeth L Chou Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA Division of Vascular and Endovascular Surgery, Massachusetts General Hospital, Boston, MA, USA
Stephen J Fleming Precision Cardiology Laboratory, The Broad Institute & Bayer US LLC, Cambridge, MA, USA Data Sciences Platform, Broad Institute, Cambridge, MA, USA
Honghuang Lin Framingham Heart Study, Boston University and National Heart, Lung, and Blood Institute, Framingham, MA, USA Department of Medicine, Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA
Mahan Nekoui Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA Harvard Medical School, Boston, MA, USA
Shaan Khurshid Division of Cardiology, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA
Samuel F Friedman Data Sciences Platform, Broad Institute, Cambridge, MA, USA
Alexander G Bick Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA Department of Medicine, Center for Genomic Medicine, Massachusetts General Hospital, Boston, MA, USA
Alessandro Arduini Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA Precision Cardiology Laboratory, The Broad Institute & Bayer US LLC, Cambridge, MA, USA
Lu-Chen Weng Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA
Seung Hoan Choi Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA
Amer-Denis Akkad Precision Cardiology Laboratory, The Broad Institute & Bayer US LLC, Cambridge, MA, USA
Puneet Batra Data Sciences Platform, Broad Institute, Cambridge, MA, USA
Nathan R Tucker Masonic Medical Research Institute, Utica, NY, USA
Amelia W Hall Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA
Carolina Roselli Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA University Medical Center Groningen, University of Groningen, Groningen, the Netherlands
Emelia J Benjamin Framingham Heart Study, Boston University and National Heart, Lung, and Blood Institute, Framingham, MA, USA Department of Medicine, Cardiology and Preventive Medicine Sections, Boston University School of Medicine, Boston, MA, USA Epidemiology Department, Boston University School of Public Health, Boston, MA, USA
Shamsudheen K Vellarikkal Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA
Rajat M Gupta Department of Medicine, Divisions of Cardiovascular Medicine and Genetics, Brigham and Women's Hospital, Boston, MA, USA
Christian M Stegmann Precision Cardiology Laboratory, The Broad Institute & Bayer US LLC, Cambridge, MA, USA
Dejan Juric Harvard Medical School, Boston, MA, USA Cancer Center, Massachusetts General Hospital, Boston, MA, USA
James R Stone Harvard Medical School, Boston, MA, USA Department of Pathology, Massachusetts General Hospital, Boston, MA, USA
Ramachandran S Vasan Framingham Heart Study, Boston University and National Heart, Lung, and Blood Institute, Framingham, MA, USA Department of Medicine, Cardiology and Preventive Medicine Sections, Boston University School of Medicine, Boston, MA, USA Epidemiology Department, Boston University School of Public Health, Boston, MA, USA
Jennifer E Ho Division of Cardiology, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA Harvard Medical School, Boston, MA, USA
Udo Hoffmann Department of Radiology, Harvard Medical School, Boston, MA, USA Cardiovascular Imaging Research Center, Massachusetts General Hospital, Boston, MA, USA
Steven A Lubitz Division of Cardiology, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA Harvard Medical School, Boston, MA, USA
Anthony A Philippakis Data Sciences Platform, Broad Institute, Cambridge, MA, USA GV, Mountain View, CA, USA
Mark E Lindsay Division of Cardiology, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA Harvard Medical School, Boston, MA, USA Thoracic Aortic Center, Massachusetts General Hospital, Boston, MA, USA
Patrick T Ellinor Division of Cardiology, Massachusetts General Hospital, Boston, MA, USA. Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA. Cardiovascular Disease Initiative, Broad Institute, Cambridge, MA, USA. Precision Cardiology Laboratory, The Broad Institute & Bayer US LLC, Cambridge, MA, USA. Harvard Medical School, Boston, MA, USA.

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Atri DS, Lee-Kim VS, Vellarikkal SK, Sias-Garcia O, Yanamandala M, Schniztler GR, Gupta RM. CRISPR-Cas9 Genome Editing of Primary Human Vascular Cells In Vitro. Curr Protoc 2021;1:e291. [PMID: 34748284 PMCID: PMC8580244 DOI: 10.1002/cpz1.291] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]

Wang M, Lee-Kim VS, Atri DS, Elowe NH, Yu J, Garvie CW, Won HH, Hadaya JE, MacDonald BT, Trindade K, Melander O, Rader DJ, Natarajan P, Kathiresan S, Kaushik VK, Khera AV, Gupta RM. Rare, Damaging DNA Variants in CORIN and Risk of Coronary Artery Disease: Insights From Functional Genomics and Large-Scale Sequencing Analyses. Circ Genom Precis Med 2021;14:e003399. [PMID: 34592835 DOI: 10.1161/circgen.121.003399] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]

Abstract

BACKGROUND

Corin is a protease expressed in cardiomyocytes that plays a key role in salt handling and intravascular volume homeostasis via activation of natriuretic peptides. It is unknown if Corin loss-of-function (LOF) is causally associated with risk of coronary artery disease (CAD).

METHODS

We analyzed all coding CORIN variants in an Italian case-control study of CAD. We functionally tested all 64 rare missense mutations in Western Blot and Mass Spectroscopy assays for proatrial natriuretic peptide cleavage. An expanded rare variant association analysis for Corin LOF mutations was conducted in whole exome sequencing data from 37 799 CAD cases and 212 184 controls.

RESULTS

We observed LOF variants in CORIN in 8 of 1803 (0.4%) CAD cases versus 0 of 1725 controls (P, 0.007). Of 64 rare missense variants profiled, 21 (33%) demonstrated <30% of wild-type activity and were deemed damaging in the 2 functional assays for Corin activity. In a rare variant association study that aggregated rare LOF and functionally validated damaging missense variants from the Italian study, we observed no association with CAD-21 of 1803 CAD cases versus 12 of 1725 controls with adjusted odds ratio of 1.61 ([95% CI, 0.79-3.29]; P=0.17). In the expanded sequencing dataset, there was no relationship between rare LOF variants with CAD was also observed (odds ratio, 1.15 [95% CI, 0.89-1.49]; P=0.30). Consistent with the genetic analysis, we observed no relationship between circulating Corin concentrations with incident CAD events among 4744 participants of a prospective cohort study-sex-stratified hazard ratio per SD increment of 0.96 ([95% CI, 0.87-1.07], P=0.48).

CONCLUSIONS

Functional testing of missense mutations improved the accuracy of rare variant association analysis. Despite compelling pathophysiology and a preliminary observation suggesting association, we observed no relationship between rare damaging variants in CORIN or circulating Corin concentrations with risk of CAD.

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Affiliation(s)

Minxian Wang Program in Medical and Population Genetics (M.W., J.E.H., P.N., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA.,Cardiovascular Disease Initiative (M.W., V.S.L.-K., D.S.A., N.H.E., J.Y., C.W.G., B.T.M., P.N., V.K.K., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA.,Center for Genomic Medicine (M.W., P.N., S.K., A.V.K.), Massachusetts General Hospital, Boston
Vivian S Lee-Kim Cardiovascular Disease Initiative (M.W., V.S.L.-K., D.S.A., N.H.E., J.Y., C.W.G., B.T.M., P.N., V.K.K., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA.,Divisions of Genetics and Cardiovascular Medicine, Brigham and Women's Hospital, Boston, MA (V.S.L.-K., D.S.A.)
Deepak S Atri Cardiovascular Disease Initiative (M.W., V.S.L.-K., D.S.A., N.H.E., J.Y., C.W.G., B.T.M., P.N., V.K.K., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA.,Divisions of Genetics and Cardiovascular Medicine, Brigham and Women's Hospital, Boston, MA (V.S.L.-K., D.S.A.)
Nadine H Elowe Cardiovascular Disease Initiative (M.W., V.S.L.-K., D.S.A., N.H.E., J.Y., C.W.G., B.T.M., P.N., V.K.K., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA
John Yu Cardiovascular Disease Initiative (M.W., V.S.L.-K., D.S.A., N.H.E., J.Y., C.W.G., B.T.M., P.N., V.K.K., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA
Colin W Garvie Cardiovascular Disease Initiative (M.W., V.S.L.-K., D.S.A., N.H.E., J.Y., C.W.G., B.T.M., P.N., V.K.K., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA
Hong-Hee Won Samsung Advanced Institute for Health Sciences and Technology (SAIHST), Sungkyunkwan University, Samsung Medical Center, Seoul, Gyeonggi, South Korea (H.-H.W.)
Joseph E Hadaya Program in Medical and Population Genetics (M.W., J.E.H., P.N., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA
Bryan T MacDonald Cardiovascular Disease Initiative (M.W., V.S.L.-K., D.S.A., N.H.E., J.Y., C.W.G., B.T.M., P.N., V.K.K., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA
Kevin Trindade Cardiovascular Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia (K.T., D.J.R.)
Olle Melander Department of Clinical Sciences, Lund University, Malmö, Skåne, Sweden (O.M.).,Department of Internal Medicine, Skåne University Hospital, Malmö, Sweden (O.M.)
Daniel J Rader Cardiovascular Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia (K.T., D.J.R.)
Pradeep Natarajan Program in Medical and Population Genetics (M.W., J.E.H., P.N., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA.,Cardiovascular Disease Initiative (M.W., V.S.L.-K., D.S.A., N.H.E., J.Y., C.W.G., B.T.M., P.N., V.K.K., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA.,Center for Genomic Medicine (M.W., P.N., S.K., A.V.K.), Massachusetts General Hospital, Boston.,Division of Cardiology (P.N., S.K., A.V.K.), Massachusetts General Hospital, Boston
Sekar Kathiresan Center for Genomic Medicine (M.W., P.N., S.K., A.V.K.), Massachusetts General Hospital, Boston.,Division of Cardiology (P.N., S.K., A.V.K.), Massachusetts General Hospital, Boston.,Verve Therapeutics, Cambridge, MA (S.K.)
Virendar K Kaushik Cardiovascular Disease Initiative (M.W., V.S.L.-K., D.S.A., N.H.E., J.Y., C.W.G., B.T.M., P.N., V.K.K., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA
Amit V Khera Program in Medical and Population Genetics (M.W., J.E.H., P.N., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA.,Center for Genomic Medicine (M.W., P.N., S.K., A.V.K.), Massachusetts General Hospital, Boston.,Division of Cardiology (P.N., S.K., A.V.K.), Massachusetts General Hospital, Boston
Rajat M Gupta Program in Medical and Population Genetics (M.W., J.E.H., P.N., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA.,Cardiovascular Disease Initiative (M.W., V.S.L.-K., D.S.A., N.H.E., J.Y., C.W.G., B.T.M., P.N., V.K.K., A.V.K., R.M.G.), Broad Institute of MIT and Harvard, Cambridge, MA

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Gupta RM, Lall M. COVID-19 pandemic and artificial intelligence possibilities: A healthcare perspective. Med J Armed Forces India 2021;77:S242-S244. [PMID: 34334887 PMCID: PMC8313062 DOI: 10.1016/j.mjafi.2021.06.001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2021] [Accepted: 06/02/2021] [Indexed: 11/30/2022] Open

Delorey TM, Ziegler CGK, Heimberg G, Normand R, Yang Y, Segerstolpe Å, Abbondanza D, Fleming SJ, Subramanian A, Montoro DT, Jagadeesh KA, Dey KK, Sen P, Slyper M, Pita-Juárez YH, Phillips D, Biermann J, Bloom-Ackermann Z, Barkas N, Ganna A, Gomez J, Melms JC, Katsyv I, Normandin E, Naderi P, Popov YV, Raju SS, Niezen S, Tsai LTY, Siddle KJ, Sud M, Tran VM, Vellarikkal SK, Wang Y, Amir-Zilberstein L, Atri DS, Beechem J, Brook OR, Chen J, Divakar P, Dorceus P, Engreitz JM, Essene A, Fitzgerald DM, Fropf R, Gazal S, Gould J, Grzyb J, Harvey T, Hecht J, Hether T, Jané-Valbuena J, Leney-Greene M, Ma H, McCabe C, McLoughlin DE, Miller EM, Muus C, Niemi M, Padera R, Pan L, Pant D, Pe’er C, Pfiffner-Borges J, Pinto CJ, Plaisted J, Reeves J, Ross M, Rudy M, Rueckert EH, Siciliano M, Sturm A, Todres E, Waghray A, Warren S, Zhang S, Zollinger DR, Cosimi L, Gupta RM, Hacohen N, Hibshoosh H, Hide W, Price AL, Rajagopal J, Tata PR, Riedel S, Szabo G, Tickle TL, Ellinor PT, Hung D, Sabeti PC, Novak R, Rogers R, Ingber DE, Jiang ZG, Juric D, Babadi M, Farhi SL, Izar B, Stone JR, Vlachos IS, Solomon IH, Ashenberg O, Porter CB, Li B, Shalek AK, Villani AC, Rozenblatt-Rosen O, Regev A. COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets. Nature 2021;595:107-113. [PMID: 33915569 PMCID: PMC8919505 DOI: 10.1038/s41586-021-03570-8] [Citation(s) in RCA: 427] [Impact Index Per Article: 142.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2020] [Accepted: 04/19/2021] [Indexed: 02/02/2023]

Affiliation(s)

Toni M. Delorey Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Carly G. K. Ziegler Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,3Program in Health Sciences & Technology, Harvard Medical School & Massachusetts Institute of Technology, Boston, MA 02115, USA,4Institute for Medical Engineering & Science, Massachusetts Institute of Technology, Cambridge, MA 02139, USA,5Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA,6Ragon Institute of MGH, MIT, and Harvard, Cambridge, MA 02139, USA,7Harvard Graduate Program in Biophysics, Harvard University, Cambridge, MA 02138, USA
Graham Heimberg Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Rachelly Normand Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,8Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA,9Center for Cancer Research, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02114, USA,10Harvard Medical School, Boston, MA 02115, USA,11Massachusetts Institute of Technology, Cambridge, MA 02139, USA
Yiming Yang Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA,8Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Åsa Segerstolpe Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Domenic Abbondanza Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA,2Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Stephen J. Fleming Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA 02142,13Precision Cardiology Laboratory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Ayshwarya Subramanian Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Daniel T. Montoro Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Karthik A. Jagadeesh Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Kushal K. Dey Department of Epidemiology, Harvard School of Public Health
Pritha Sen Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,8Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA,15Division of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA,16Department of Medicine, Harvard Medical School, Boston, MA 02115, USA
Michal Slyper Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Yered H. Pita-Juárez Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,10Harvard Medical School, Boston, MA 02115, USA,17Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA,18Harvard Medical School Initiative for RNA Medicine, Boston, MA 02115, USA,19Cancer Research Institute, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA
Devan Phillips Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Jana Biermann Department of Medicine, Division of Hematology/Oncology, Columbia University Irving Medical Center, New York, NY,21Columbia Center for Translational Immunology, New York, NY
Zohar Bloom-Ackermann Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Nick Barkas Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA 02142
Andrea Ganna Institute for Molecular Medicine Finland, Helsinki, Finland,24Analytical & Translational Genetics Unit, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02115, USA
James Gomez Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Johannes C. Melms Department of Medicine, Division of Hematology/Oncology, Columbia University Irving Medical Center, New York, NY,21Columbia Center for Translational Immunology, New York, NY
Igor Katsyv Department of Pathology and Cell Biology, Columbia University Irving Medical Center, New York, NY
Erica Normandin Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,10Harvard Medical School, Boston, MA 02115, USA
Pourya Naderi Harvard Medical School, Boston, MA 02115, USA,17Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA,18Harvard Medical School Initiative for RNA Medicine, Boston, MA 02115, USA
Yury V. Popov Harvard Medical School, Boston, MA 02115, USA,26Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA,27Division of Gastroenterology, Hepatology and Nutrition, Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA 02215, USA
Siddharth S. Raju Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,28Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA,29FAS Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA
Sebastian Niezen Harvard Medical School, Boston, MA 02115, USA,26Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA,27Division of Gastroenterology, Hepatology and Nutrition, Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA 02215, USA
Linus T.-Y. Tsai Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,10Harvard Medical School, Boston, MA 02115, USA,26Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA,30Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA 02115,31Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core Boston, MA 02115, USA
Katherine J. Siddle Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,32Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, USA
Malika Sud Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Victoria M. Tran Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Shamsudheen K. Vellarikkal Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,33Divisions of Cardiovascular Medicine and Genetics, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA 02115, USA
Yiping Wang Department of Medicine, Division of Hematology/Oncology, Columbia University Irving Medical Center, New York, NY,21Columbia Center for Translational Immunology, New York, NY
Liat Amir-Zilberstein Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Deepak S. Atri Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,33Divisions of Cardiovascular Medicine and Genetics, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA 02115, USA
Joseph Beechem NanoString Technologies Inc., Seattle, WA 98109, USA
Olga R. Brook Department of Radiology, Beth Israel Deaconess Medical Center, Boston, MA 02215, USA
Jonathan Chen Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,36Department of Pathology, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02115, USA
Prajan Divakar NanoString Technologies Inc., Seattle, WA 98109, USA
Phylicia Dorceus Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Jesse M. Engreitz Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,37Department of Genetics and BASE Initiative, Stanford University School of Medicine
Adam Essene Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA,30Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA 02115,31Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core Boston, MA 02115, USA
Donna M. Fitzgerald Massachusetts General Hospital Cancer Center, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Robin Fropf NanoString Technologies Inc., Seattle, WA 98109, USA
Steven Gazal Center for Genetic Epidemiology, Department of Preventive Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA
Joshua Gould Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA 02142
John Grzyb Department of Pathology, Brigham and Women’s Hospital, Boston, MA 02115
Tyler Harvey Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Jonathan Hecht Harvard Medical School, Boston, MA 02115, USA,17Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA
Tyler Hether NanoString Technologies Inc., Seattle, WA 98109, USA
Judit Jané-Valbuena Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Michael Leney-Greene Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Hui Ma Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA,8Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Cristin McCabe Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Daniel E. McLoughlin Massachusetts General Hospital Cancer Center, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Eric M. Miller NanoString Technologies Inc., Seattle, WA 98109, USA
Christoph Muus Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,41John A. Paulson School of Engineering and Applied Sciences, Harvard University, Cambridge, MA 02138
Mari Niemi Institute for Molecular Medicine Finland, Helsinki, Finland
Robert Padera Department of Pathology, Brigham and Women’s Hospital, Boston, MA 02115,42Harvard-MIT Division of Health Sciences and Technology, Cambridge MA,43Department of Pathology, Harvard Medical School, Boston, MA 02115, USA
Liuliu Pan NanoString Technologies Inc., Seattle, WA 98109, USA
Deepti Pant Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA,30Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA 02115,31Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core Boston, MA 02115, USA
Carmel Pe’er Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Jenna Pfiffner-Borges Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Christopher J. Pinto Department of Medicine, Harvard Medical School, Boston, MA 02115, USA,38Massachusetts General Hospital Cancer Center, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Jacob Plaisted Department of Pathology, Brigham and Women’s Hospital, Boston, MA 02115
Jason Reeves NanoString Technologies Inc., Seattle, WA 98109, USA
Marty Ross NanoString Technologies Inc., Seattle, WA 98109, USA
Melissa Rudy Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Erroll H. Rueckert NanoString Technologies Inc., Seattle, WA 98109, USA
Michelle Siciliano Department of Pathology, Brigham and Women’s Hospital, Boston, MA 02115
Alexander Sturm Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Ellen Todres Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Avinash Waghray Harvard Stem Cell Institute, Cambridge, MA, USA,45Center for Regenerative Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Sarah Warren NanoString Technologies Inc., Seattle, WA 98109, USA
Shuting Zhang Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Daniel R. Zollinger NanoString Technologies Inc., Seattle, WA 98109, USA
Lisa Cosimi Infectious Diseases Division, Department of Medicine, Brigham and Women’s Hospital, Boston, MA, USA
Rajat M. Gupta Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,33Divisions of Cardiovascular Medicine and Genetics, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA 02115, USA
Nir Hacohen Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,9Center for Cancer Research, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02114, USA,47Department of Medicine, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02114, USA
Hanina Hibshoosh Department of Pathology and Cell Biology, Columbia University Irving Medical Center, New York, NY
Winston Hide Harvard Medical School, Boston, MA 02115, USA,17Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA,18Harvard Medical School Initiative for RNA Medicine, Boston, MA 02115, USA,19Cancer Research Institute, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA
Alkes L. Price Department of Epidemiology, Harvard School of Public Health
Jayaraj Rajagopal Massachusetts General Hospital Cancer Center, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Purushothama Rao Tata Department of Cell Biology, Duke University School of Medicine, Durham, NC, USA
Stefan Riedel Harvard Medical School, Boston, MA 02115, USA,17Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA
Gyongyi Szabo Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,10Harvard Medical School, Boston, MA 02115, USA,26Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA
Timothy L. Tickle Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA,12Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA 02142
Patrick T. Ellinor Cardiovascular Disease Initiative, The Broad Institute of MIT and Harvard, Cambridge, MA
Deborah Hung Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,50Department of Genetics, Harvard Medical School, Boston, MA 02115, USA,51Department of Molecular Biology and Center for Computational and Integrative Biology, Massachusetts General Hospital, Boston, MA 02114, USA
Pardis C. Sabeti Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,32Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, USA,52Department of Immunology and Infectious Diseases, Harvard T.H. Chan School of Public Health, Harvard University, Boston, MA, USA,53Howard Hughes Medical Institute, Chevy Chase, MD, USA,54Massachusetts Consortium on Pathogen Readiness, Boston, MA, USA
Richard Novak Wyss Institute for Biologically Inspired Engineering, Harvard University
Robert Rogers Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA,56Massachusetts General Hospital, MA 02114, USA
Donald E. Ingber John A. Paulson School of Engineering and Applied Sciences, Harvard University, Cambridge, MA 02138,55Wyss Institute for Biologically Inspired Engineering, Harvard University,57Vascular Biology Program and Department of Surgery, Boston Children’s Hospital, Harvard Medical School, Boston, MA USA
Z. Gordon Jiang Harvard Medical School, Boston, MA 02115, USA,26Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA,27Division of Gastroenterology, Hepatology and Nutrition, Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA 02215, USA
Dejan Juric Department of Medicine, Harvard Medical School, Boston, MA 02115, USA,38Massachusetts General Hospital Cancer Center, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Mehrtash Babadi Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA 02142,13Precision Cardiology Laboratory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Samouil L. Farhi Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA,2Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Benjamin Izar Department of Medicine, Division of Hematology/Oncology, Columbia University Irving Medical Center, New York, NY,21Columbia Center for Translational Immunology, New York, NY,58Herbert Irving Comprehensive Cancer Center, Columbia University Irving Medical Center, New York, NY,59Program for Mathematical Genomics, Columbia University Irving Medical Center, New York, NY
James R. Stone Department of Pathology, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02115, USA
Ioannis S. Vlachos Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,10Harvard Medical School, Boston, MA 02115, USA,17Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA,18Harvard Medical School Initiative for RNA Medicine, Boston, MA 02115, USA,19Cancer Research Institute, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA
Isaac H. Solomon Department of Pathology, Brigham and Women’s Hospital, Boston, MA 02115
Orr Ashenberg Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Caroline B.M. Porter Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Bo Li Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA,8Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA,16Department of Medicine, Harvard Medical School, Boston, MA 02115, USA
Alex K. Shalek Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,3Program in Health Sciences & Technology, Harvard Medical School & Massachusetts Institute of Technology, Boston, MA 02115, USA,4Institute for Medical Engineering & Science, Massachusetts Institute of Technology, Cambridge, MA 02139, USA,5Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA,6Ragon Institute of MGH, MIT, and Harvard, Cambridge, MA 02139, USA,7Harvard Graduate Program in Biophysics, Harvard University, Cambridge, MA 02138, USA,10Harvard Medical School, Boston, MA 02115, USA,44Harvard Stem Cell Institute, Cambridge, MA, USA,60Program in Computational & Systems Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA,61Program in Immunology, Harvard Medical School, Boston, MA 02115, USA,62Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
Alexandra-Chloé Villani Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA,8Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA,9Center for Cancer Research, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02114, USA,16Department of Medicine, Harvard Medical School, Boston, MA 02115, USA
Orit Rozenblatt-Rosen Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA,63Current address: Genentech, 1 DNA Way, South San Francisco, CA, USA
Aviv Regev Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA,5Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA,53Howard Hughes Medical Institute, Chevy Chase, MD, USA,63Current address: Genentech, 1 DNA Way, South San Francisco, CA, USA

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Delorey TM, Ziegler CGK, Heimberg G, Normand R, Yang Y, Segerstolpe A, Abbondanza D, Fleming SJ, Subramanian A, Montoro DT, Jagadeesh KA, Dey KK, Sen P, Slyper M, Pita-Juárez YH, Phillips D, Bloom-Ackerman Z, Barkas N, Ganna A, Gomez J, Normandin E, Naderi P, Popov YV, Raju SS, Niezen S, Tsai LTY, Siddle KJ, Sud M, Tran VM, Vellarikkal SK, Amir-Zilberstein L, Atri DS, Beechem J, Brook OR, Chen J, Divakar P, Dorceus P, Engreitz JM, Essene A, Fitzgerald DM, Fropf R, Gazal S, Gould J, Grzyb J, Harvey T, Hecht J, Hether T, Jane-Valbuena J, Leney-Greene M, Ma H, McCabe C, McLoughlin DE, Miller EM, Muus C, Niemi M, Padera R, Pan L, Pant D, Pe’er C, Pfiffner-Borges J, Pinto CJ, Plaisted J, Reeves J, Ross M, Rudy M, Rueckert EH, Siciliano M, Sturm A, Todres E, Waghray A, Warren S, Zhang S, Zollinger DR, Cosimi L, Gupta RM, Hacohen N, Hide W, Price AL, Rajagopal J, Tata PR, Riedel S, Szabo G, Tickle TL, Hung D, Sabeti PC, Novak R, Rogers R, Ingber DE, Jiang ZG, Juric D, Babadi M, Farhi SL, Stone JR, Vlachos IS, Solomon IH, Ashenberg O, Porter CB, Li B, Shalek AK, Villani AC, Rozenblatt-Rosen O, Regev A. A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2. bioRxiv 2021:2021.02.25.430130. [PMID: 33655247 PMCID: PMC7924267 DOI: 10.1101/2021.02.25.430130] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]

Abstract

The SARS-CoV-2 pandemic has caused over 1 million deaths globally, mostly due to acute lung injury and acute respiratory distress syndrome, or direct complications resulting in multiple-organ failures. Little is known about the host tissue immune and cellular responses associated with COVID-19 infection, symptoms, and lethality. To address this, we collected tissues from 11 organs during the clinical autopsy of 17 individuals who succumbed to COVID-19, resulting in a tissue bank of approximately 420 specimens. We generated comprehensive cellular maps capturing COVID-19 biology related to patients' demise through single-cell and single-nucleus RNA-Seq of lung, kidney, liver and heart tissues, and further contextualized our findings through spatial RNA profiling of distinct lung regions. We developed a computational framework that incorporates removal of ambient RNA and automated cell type annotation to facilitate comparison with other healthy and diseased tissue atlases. In the lung, we uncovered significantly altered transcriptional programs within the epithelial, immune, and stromal compartments and cell intrinsic changes in multiple cell types relative to lung tissue from healthy controls. We observed evidence of: alveolar type 2 (AT2) differentiation replacing depleted alveolar type 1 (AT1) lung epithelial cells, as previously seen in fibrosis; a concomitant increase in myofibroblasts reflective of defective tissue repair; and, putative TP63+ intrapulmonary basal-like progenitor (IPBLP) cells, similar to cells identified in H1N1 influenza, that may serve as an emergency cellular reserve for severely damaged alveoli. Together, these findings suggest the activation and failure of multiple avenues for regeneration of the epithelium in these terminal lungs. SARS-CoV-2 RNA reads were enriched in lung mononuclear phagocytic cells and endothelial cells, and these cells expressed distinct host response transcriptional programs. We corroborated the compositional and transcriptional changes in lung tissue through spatial analysis of RNA profiles in situ and distinguished unique tissue host responses between regions with and without viral RNA, and in COVID-19 donor tissues relative to healthy lung. Finally, we analyzed genetic regions implicated in COVID-19 GWAS with transcriptomic data to implicate specific cell types and genes associated with disease severity. Overall, our COVID-19 cell atlas is a foundational dataset to better understand the biological impact of SARS-CoV-2 infection across the human body and empowers the identification of new therapeutic interventions and prevention strategies.

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Affiliation(s)

Toni M. Delorey Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Carly G. K. Ziegler Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Program in Health Sciences & Technology, Harvard Medical School & Massachusetts Institute of Technology, Boston, MA 02115, USA Institute for Medical Engineering & Science, Massachusetts Institute of Technology, Cambridge, MA 02139, USA Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA Ragon Institute of MGH, MIT, and Harvard, Cambridge, MA 02139, USA Harvard Graduate Program in Biophysics, Harvard University, Cambridge, MA 02138, USA
Graham Heimberg Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Rachelly Normand Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA Center for Cancer Research, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02114, USA Harvard Medical School, Boston, MA 02115, USA Massachusetts Institute of Technology, Cambridge, MA 02139, USA
Yiming Yang Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Asa Segerstolpe Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Domenic Abbondanza Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Stephen J. Fleming Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA 02142 Precision Cardiology Laboratory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Ayshwarya Subramanian Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Daniel T. Montoro Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Karthik A. Jagadeesh Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Kushal K. Dey Department of Epidemiology, Harvard School of Public Health
Pritha Sen Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA Division of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA Department of Medicine, Harvard Medical School, Boston, MA 02115, USA
Michal Slyper Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Yered H. Pita-Juárez Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Harvard Medical School, Boston, MA 02115, USA Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA Harvard Medical School Initiative for RNA Medicine, Boston, MA 02115, USA Cancer Research Institute, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA
Devan Phillips Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Zohar Bloom-Ackerman Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Nick Barkas Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA 02142
Andrea Ganna Institute for Molecular Medicine Finland, Helsinki, Finland Analytical & Translational Genetics Unit, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02115, USA
James Gomez Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Erica Normandin Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Harvard Medical School, Boston, MA 02115, USA
Pourya Naderi Harvard Medical School, Boston, MA 02115, USA Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA Harvard Medical School Initiative for RNA Medicine, Boston, MA 02115, USA
Yury V. Popov Harvard Medical School, Boston, MA 02115, USA Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA Division of Gastroenterology, Hepatology and Nutrition, Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA 02215, USA
Siddharth S. Raju Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA FAS Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA
Sebastian Niezen Harvard Medical School, Boston, MA 02115, USA Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA Division of Gastroenterology, Hepatology and Nutrition, Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA 02215, USA
Linus T.-Y. Tsai Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Harvard Medical School, Boston, MA 02115, USA Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA 02115 Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core Boston, MA 02115, USA
Katherine J. Siddle Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, USA
Malika Sud Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Victoria M. Tran Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Shamsudheen K. Vellarikkal Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Divisions of Cardiovascular Medicine and Genetics, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA 02115, USA
Liat Amir-Zilberstein Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Deepak S. Atri Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Divisions of Cardiovascular Medicine and Genetics, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA 02115, USA
Joseph Beechem NanoString Technologies Inc., Seattle, WA 98109, USA
Olga R. Brook Department of Radiology, Beth Israel Deaconess Medical Center, Boston, MA 02215, USA
Jonathan Chen Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Department of Pathology, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02115, USA
Prajan Divakar NanoString Technologies Inc., Seattle, WA 98109, USA
Phylicia Dorceus Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Jesse M. Engreitz Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Department of Genetics and BASE Initiative, Stanford University School of Medicine
Adam Essene Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA 02115 Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core Boston, MA 02115, USA
Donna M. Fitzgerald Massachusetts General Hospital Cancer Center, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Robin Fropf NanoString Technologies Inc., Seattle, WA 98109, USA
Steven Gazal Center for Genetic Epidemiology, Department of Preventive Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA
Joshua Gould Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA 02142
John Grzyb Department of Pathology, Brigham and Women’s Hospital, Boston, MA 02115
Tyler Harvey Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Jonathan Hecht Harvard Medical School, Boston, MA 02115, USA Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA
Tyler Hether NanoString Technologies Inc., Seattle, WA 98109, USA
Judit Jane-Valbuena Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Michael Leney-Greene Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Hui Ma Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Cristin McCabe Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Daniel E. McLoughlin Massachusetts General Hospital Cancer Center, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Eric M. Miller NanoString Technologies Inc., Seattle, WA 98109, USA
Christoph Muus Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA John A. Paulson School of Engineering and Applied Sciences, Harvard University, Cambridge, MA 02138
Mari Niemi Institute for Molecular Medicine Finland, Helsinki, Finland
Robert Padera Department of Pathology, Brigham and Women’s Hospital, Boston, MA 02115 Harvard-MIT Division of Health Sciences and Technology, Cambridge MA Department of Pathology, Harvard Medical School, Boston, MA 02115, USA
Liuliu Pan NanoString Technologies Inc., Seattle, WA 98109, USA
Deepti Pant Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA 02115 Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core Boston, MA 02115, USA
Carmel Pe’er Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Jenna Pfiffner-Borges Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Christopher J. Pinto Department of Medicine, Harvard Medical School, Boston, MA 02115, USA Massachusetts General Hospital Cancer Center, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Jacob Plaisted Department of Pathology, Brigham and Women’s Hospital, Boston, MA 02115
Jason Reeves NanoString Technologies Inc., Seattle, WA 98109, USA
Marty Ross NanoString Technologies Inc., Seattle, WA 98109, USA
Melissa Rudy Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Erroll H. Rueckert NanoString Technologies Inc., Seattle, WA 98109, USA
Michelle Siciliano Department of Pathology, Brigham and Women’s Hospital, Boston, MA 02115
Alexander Sturm Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Ellen Todres Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Avinash Waghray Harvard Stem Cell Institute, Cambridge, MA, USA Center for Regenerative Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Sarah Warren NanoString Technologies Inc., Seattle, WA 98109, USA
Shuting Zhang Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Daniel R. Zollinger NanoString Technologies Inc., Seattle, WA 98109, USA
Lisa Cosimi Infectious Diseases Division, Department of Medicine, Brigham and Women’s Hospital, Boston, MA, USA
Rajat M. Gupta Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Divisions of Cardiovascular Medicine and Genetics, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA 02115, USA
Nir Hacohen Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Center for Cancer Research, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02114, USA Department of Medicine, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02114, USA
Winston Hide Harvard Medical School, Boston, MA 02115, USA Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA Harvard Medical School Initiative for RNA Medicine, Boston, MA 02115, USA Cancer Research Institute, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA
Alkes L. Price Department of Epidemiology, Harvard School of Public Health
Jayaraj Rajagopal Massachusetts General Hospital Cancer Center, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Purushothama Rao Tata Duke University School of Medicine, Durham, NC
Stefan Riedel Harvard Medical School, Boston, MA 02115, USA Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA
Gyongyi Szabo Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Harvard Medical School, Boston, MA 02115, USA Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA
Timothy L. Tickle Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA 02142
Deborah Hung Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Department of Genetics, Harvard Medical School, Boston, MA 02115, USA Department of Molecular Biology and Center for Computational and Integrative Biology, Massachusetts General Hospital, Boston, MA 02114, USA
Pardis C. Sabeti Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, USA Department of Immunology and Infectious Diseases, Harvard T.H. Chan School of Public Health, Harvard University, Boston, MA, USA Howard Hughes Medical Institute, Chevy Chase, MD, USA Massachusetts Consortium on Pathogen Readiness, Boston, MA, USA
Richard Novak Wyss Institute for Biologically Inspired Engineering, Harvard University
Robert Rogers Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA Massachusetts General Hospital, MA 02114, USA
Donald E. Ingber John A. Paulson School of Engineering and Applied Sciences, Harvard University, Cambridge, MA 02138 Wyss Institute for Biologically Inspired Engineering, Harvard University Vascular Biology Program and Department of Surgery, Boston Children’s Hospital, Harvard Medical School, Boston, MA USA
Z. Gordon Jiang Harvard Medical School, Boston, MA 02115, USA Department of Medicine, Beth Israel Deaconess Medical Center, MA 02115, USA Division of Gastroenterology, Hepatology and Nutrition, Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA 02215, USA
Dejan Juric Department of Medicine, Harvard Medical School, Boston, MA 02115, USA Massachusetts General Hospital Cancer Center, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA
Mehrtash Babadi Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA 02142 Precision Cardiology Laboratory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
Samouil L. Farhi Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
James R. Stone Department of Pathology, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02115, USA
Ioannis S. Vlachos Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Harvard Medical School, Boston, MA 02115, USA Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA Harvard Medical School Initiative for RNA Medicine, Boston, MA 02115, USA Cancer Research Institute, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA
Isaac H. Solomon Department of Pathology, Brigham and Women’s Hospital, Boston, MA 02115
Orr Ashenberg Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Caroline B.M. Porter Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA
Bo Li Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA Department of Medicine, Harvard Medical School, Boston, MA 02115, USA
Alex K. Shalek Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Program in Health Sciences & Technology, Harvard Medical School & Massachusetts Institute of Technology, Boston, MA 02115, USA Institute for Medical Engineering & Science, Massachusetts Institute of Technology, Cambridge, MA 02139, USA Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA Ragon Institute of MGH, MIT, and Harvard, Cambridge, MA 02139, USA Harvard Graduate Program in Biophysics, Harvard University, Cambridge, MA 02138, USA Harvard Medical School, Boston, MA 02115, USA Harvard Stem Cell Institute, Cambridge, MA, USA Program in Computational & Systems Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA Program in Immunology, Harvard Medical School, Boston, MA 02115, USA Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
Alexandra-Chloé Villani Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA Center for Cancer Research, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02114, USA Department of Medicine, Harvard Medical School, Boston, MA 02115, USA
Orit Rozenblatt-Rosen Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA Current address: Genentech, 1 DNA Way, South San Francisco, CA, USA
Aviv Regev Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA, USA Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA Howard Hughes Medical Institute, Chevy Chase, MD, USA Current address: Genentech, 1 DNA Way, South San Francisco, CA, USA

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Karade S, Sen S, Shergill SPS, Jani K, Shouche Y, Gupta RM. Whole genome sequence of colistin-resistant Escherichia coli from western India. Med J Armed Forces India 2020;77:297-301. [PMID: 34305283 DOI: 10.1016/j.mjafi.2020.10.008] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2020] [Accepted: 10/09/2020] [Indexed: 02/05/2023] Open

Kunte R, Yadav AK, Faujdar DS, Sahu R, Basannar D, Patrikar S, Chatterjee K, Gupta RM, Naithani N. Prophylactic use of hydroxychloroquine among healthcare workers in a case-control study. Indian J Med Res 2020;152:127-128. [PMID: 32773428 PMCID: PMC7853269 DOI: 10.4103/ijmr.ijmr_2434_20] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open

Gupta RM, Lee-Kim VS, Libby P. The March of Monocytes in Atherosclerosis: One Cell at a Time. Circ Res 2020;126:1324-1326. [PMID: 32379573 DOI: 10.1161/circresaha.120.316981] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]

Gupta RM, Libby P, Barton M. Linking regulation of nitric oxide to endothelin-1: The Yin and Yang of vascular tone in the atherosclerotic plaque. Atherosclerosis 2020;292:201-203. [PMID: 31810569 PMCID: PMC7447109 DOI: 10.1016/j.atherosclerosis.2019.11.001] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/30/2019] [Accepted: 11/12/2019] [Indexed: 02/06/2023]

Kalluri AS, Vellarikkal SK, Edelman ER, Nguyen L, Subramanian A, Ellinor PT, Regev A, Kathiresan S, Gupta RM. Single-Cell Analysis of the Normal Mouse Aorta Reveals Functionally Distinct Endothelial Cell Populations. Circulation 2019;140:147-163. [PMID: 31146585 DOI: 10.1161/circulationaha.118.038362] [Citation(s) in RCA: 177] [Impact Index Per Article: 35.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]

Affiliation(s)

Aditya S Kalluri Broad Institute of MIT and Harvard University, Cambridge, MA (A.S.K., S.K.V., L.N., A.S., P.T.E., A.R., S.K., R.M.G.).,Institute for Medical Engineering and Science, Massachusetts Institute of Technology, Cambridge (A.S.K., E.R.E.)
Shamsudheen K Vellarikkal Broad Institute of MIT and Harvard University, Cambridge, MA (A.S.K., S.K.V., L.N., A.S., P.T.E., A.R., S.K., R.M.G.).,Center for Genomic Medicine (S.K.V., S.K., R.M.G.), Massachusetts General Hospital, Boston
Elazer R Edelman Institute for Medical Engineering and Science, Massachusetts Institute of Technology, Cambridge (A.S.K., E.R.E.).,Division of Cardiovascular Medicine, Department of Medicine (E.R.E., R.M.G.), Brigham and Women's Hospital, Boston MA
Lan Nguyen Broad Institute of MIT and Harvard University, Cambridge, MA (A.S.K., S.K.V., L.N., A.S., P.T.E., A.R., S.K., R.M.G.)
Ayshwarya Subramanian Broad Institute of MIT and Harvard University, Cambridge, MA (A.S.K., S.K.V., L.N., A.S., P.T.E., A.R., S.K., R.M.G.)
Patrick T Ellinor Broad Institute of MIT and Harvard University, Cambridge, MA (A.S.K., S.K.V., L.N., A.S., P.T.E., A.R., S.K., R.M.G.).,Cardiology Division, Department of Medicine (P.T.E., S.K.), Massachusetts General Hospital, Boston
Aviv Regev Broad Institute of MIT and Harvard University, Cambridge, MA (A.S.K., S.K.V., L.N., A.S., P.T.E., A.R., S.K., R.M.G.)
Sekar Kathiresan Broad Institute of MIT and Harvard University, Cambridge, MA (A.S.K., S.K.V., L.N., A.S., P.T.E., A.R., S.K., R.M.G.).,Cardiology Division, Department of Medicine (P.T.E., S.K.), Massachusetts General Hospital, Boston.,Center for Genomic Medicine (S.K.V., S.K., R.M.G.), Massachusetts General Hospital, Boston
Rajat M Gupta Broad Institute of MIT and Harvard University, Cambridge, MA (A.S.K., S.K.V., L.N., A.S., P.T.E., A.R., S.K., R.M.G.).,Division of Cardiovascular Medicine, Department of Medicine (E.R.E., R.M.G.), Brigham and Women's Hospital, Boston MA.,Division of Genetics (R.M.G.), Brigham and Women's Hospital, Boston MA.,Center for Genomic Medicine (S.K.V., S.K., R.M.G.), Massachusetts General Hospital, Boston

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Raychaudhuri S, Gupta RM. Immunoprofiling comes of age. Nat Med 2019;25:362-364. [PMID: 30842672 DOI: 10.1038/s41591-019-0387-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]

Roy P, Patel A, Lole K, Gupta RM, Kumar A, Hazra S. Prevalence and genotyping pattern of hepatitis C virus among patients on maintenance hemodialysis at five centers in Pune, India. Med J Armed Forces India 2018;75:74-80. [PMID: 30705482 DOI: 10.1016/j.mjafi.2018.08.001] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2016] [Accepted: 08/07/2018] [Indexed: 01/05/2023] Open

Gupta RM. Hippo Pathway Looms Large for the Function of the JCAD (Junctional Protein Associated With Coronary Artery Disease) on Endothelial Cells. Arterioscler Thromb Vasc Biol 2018;38:2546-2547. [PMID: 30354250 DOI: 10.1161/atvbaha.118.311342] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]

Tandel K, Kumar M, Shergill SPS, Sahai K, Gupta RM. Molecular characterization and phylogenetic analysis of Chikungunya virus from Delhi, India. Med J Armed Forces India 2018;75:266-273. [PMID: 31388228 DOI: 10.1016/j.mjafi.2018.02.004] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2017] [Accepted: 02/16/2018] [Indexed: 11/27/2022] Open

Chandola P, Gupta RM, Lall M, Sen S, Shergill SPS, Dutta V. Molecular detection of bla_NDM-1 (New Delhi metallobetalactamase-1) in nosocomial Enterobacteriaceae isolates by nested, multiplex polymerase chain reaction. Med J Armed Forces India 2018;74:108-115. [PMID: 29692474 DOI: 10.1016/j.mjafi.2017.02.009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2016] [Accepted: 02/17/2017] [Indexed: 02/05/2023] Open

Abstract

BACKGROUND

Carbapenems are considered "drugs of last resort" in many life-threatening infections. Advent of carbapenemases like KPC, OXA-48, VIM, IMP, and NDM have greatly affected the efficacy of these drugs, posing serious threat to global health and infection control. NDM bears special significance to the India subcontinent, labeled as place of origin and reservoir. NDM tends to escape detection by routine phenotypic methods, requiring molecular confirmation. This study utilizes nested, multiplex polymerase chain reaction (PCR) for reliable detection of bla_NDM-1 in nosocomial Enterobacteriaceae isolates.

METHODS

This study was conducted to detect prevalence of bla_NDM-1, bla_IMP, bla_VIMand bla_KPC genes by multiplex PCR among multidrug/carbapenem-resistant nosocomial Enterobacteriaceae isolates. From March 2013 to April 2014, 100 consecutive non-repeat isolates of Enterobacteriaceae from various inpatient clinical samples were analyzed. Imipenem-resistant isolates identified by Kirby Bauer disk diffusion method with Clinical and Laboratory Standards Institute guidelines were further subjected to nested, multiplex PCR to simultaneously detect bla_NDM-1, bla_IMP, bla_VIMand bla_KPC genes.

RESULTS

Out of 100 isolates, 17 (17%) were found to be imipenem-resistant. bla_NDM-1 was detected in all 17 isolates by nested, multiplex PCR. bla_VIM was co-carried in 4 isolates while one isolate co-harbored bla_IMP with bla_NDM-1. Imipenem resistance and NDM-1 carriage was predominant amongst Klebsiella isolates. Maximum NDM-1 producers were isolated from the intensive care unit (70.6%).

CONCLUSION

NDM-1 prevalence in nosocomial Enterobacteriaceae isolates in our hospital was found to be 17%. A nested, multiplex PCR was used for rapid detection of various carbapenemase genes with high sensitivity and specificity which is essential not only for favorable patient outcome but also for timely implementation of appropriate infection control practices to prevent further spread of such organisms.

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Musunuru K, Sheikh F, Gupta RM, Houser SR, Maher KO, Milan DJ, Terzic A, Wu JC. Induced Pluripotent Stem Cells for Cardiovascular Disease Modeling and Precision Medicine: A Scientific Statement From the American Heart Association. Circ Genom Precis Med 2018;11:e000043. [PMID: 29874173 PMCID: PMC6708586 DOI: 10.1161/hcg.0000000000000043] [Citation(s) in RCA: 125] [Impact Index Per Article: 20.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]

Abstract

Induced pluripotent stem cells (iPSCs) offer an unprece-dented opportunity to study human physiology and disease at the cellular level. They also have the potential to be leveraged in the practice of precision medicine, for example, personalized drug testing. This statement comprehensively describes the provenance of iPSC lines, their use for cardiovascular disease modeling, their use for precision medicine, and strategies through which to promote their wider use for biomedical applications. Human iPSCs exhibit properties that render them uniquely qualified as model systems for studying human diseases: they are of human origin, which means they carry human genomes; they are pluripotent, which means that in principle, they can be differentiated into any of the human body's somatic cell types; and they are stem cells, which means they can be expanded from a single cell into millions or even billions of cell progeny. iPSCs offer the opportunity to study cells that are genetically matched to individual patients, and genome-editing tools allow introduction or correction of genetic variants. Initial progress has been made in using iPSCs to better understand cardiomyopathies, rhythm disorders, valvular and vascular disorders, and metabolic risk factors for ischemic heart disease. This promising work is still in its infancy. Similarly, iPSCs are only just starting to be used to identify the optimal medications to be used in patients from whom the cells were derived. This statement is intended to (1) summarize the state of the science with respect to the use of iPSCs for modeling of cardiovascular traits and disorders and for therapeutic screening; (2) identify opportunities and challenges in the use of iPSCs for disease modeling and precision medicine; and (3) outline strategies that will facilitate the use of iPSCs for biomedical applications. This statement is not intended to address the use of stem cells as regenerative therapy, such as transplantation into the body to treat ischemic heart disease or heart failure.

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Khan ID, Sahni AK, Sen S, Gupta RM, Basu A. Outbreak of Prototheca wickerhamii algaemia and sepsis in a tertiary care chemotherapy oncology unit. Med J Armed Forces India 2017;74:358-364. [PMID: 30449922 DOI: 10.1016/j.mjafi.2017.07.012] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2016] [Accepted: 07/31/2017] [Indexed: 02/05/2023] Open

Abstract

BACKGROUND

Prototheca is an emerging, opportunistic, pathogenic, zoonotic achlorophyllous green alga, expanding in pathogenicity and host range, causing localized and disseminated infections. This outbreak of Prototheca wickerhamii algaemia and sepsis in a tertiary care 30-bedded chemotherapy oncology unit is the first human outbreak to the best of our knowledge.

METHODS

P. wickerhamii algaemia was confirmed on consecutive isolation. Person to person transmission was hypothesized considering all patients in the unit at risk. Clinico-demographic, diagnostic and treatment profile were correlated. Both manual and automated systems were used for blood culture, isolation, identification and susceptibility of Prototheca. Liposomal amphotericin B was given. Outbreak surveillance of faeces, fingertips and environmental reservoirs, retrospective surveillance during past 15 years and prospective surveillance was continued for two years.

RESULTS

The outbreak affected 12 neutropenic patients over 50 days. No specific clinical features were noted. The hypothesis could not be substantiated. P. wickerhamii was isolated as yeast-like colonies revealing Gram positive yeast-like cells without budding and pseudohyphae which were confirmed by automated system. Post amphotericin B blood cultures were negative for Prototheca. Surveillance studies were not contributory.

CONCLUSION

P. wickerhamii has no documented reservoirs or transmission. Endogenous colonization in the gut followed by translocation during chemotherapy induced immunosuppression is likely to cause algaemia and sepsis. Outbreaks are difficult to detect and control as incubation period is variable and clinical presentation is muted, emphasizing the need to strengthen hospital and laboratory based surveillance systems to ensure adequate preparedness, rapid detection and response to outbreaks.

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Gupta RM, Hadaya J, Trehan A, Zekavat SM, Roselli C, Klarin D, Emdin CA, Hilvering CRE, Bianchi V, Mueller C, Khera AV, Ryan RJH, Engreitz JM, Issner R, Shoresh N, Epstein CB, de Laat W, Brown JD, Schnabel RB, Bernstein BE, Kathiresan S. A Genetic Variant Associated with Five Vascular Diseases Is a Distal Regulator of Endothelin-1 Gene Expression. Cell 2017;170:522-533.e15. [PMID: 28753427 PMCID: PMC5785707 DOI: 10.1016/j.cell.2017.06.049] [Citation(s) in RCA: 286] [Impact Index Per Article: 40.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2016] [Revised: 04/13/2017] [Accepted: 06/29/2017] [Indexed: 01/20/2023]

Affiliation(s)

Rajat M Gupta Broad Institute of MIT and Harvard University, Cambridge, MA, USA; Cardiology Division, Department of Medicine, Massachusetts General Hospital and Harvard Medical School, Boston, MA USA; Center for Genomic Medicine, Department of Medicine, Massachusetts General Hospital and Harvard Medical School, Boston, MA, USA.
Joseph Hadaya Broad Institute of MIT and Harvard University, Cambridge, MA, USA
Aditi Trehan Broad Institute of MIT and Harvard University, Cambridge, MA, USA
Seyedeh M Zekavat Broad Institute of MIT and Harvard University, Cambridge, MA, USA
Carolina Roselli Broad Institute of MIT and Harvard University, Cambridge, MA, USA
Derek Klarin Broad Institute of MIT and Harvard University, Cambridge, MA, USA
Connor A Emdin Broad Institute of MIT and Harvard University, Cambridge, MA, USA
Catharina R E Hilvering Hubrecht Institute, University Medical Center Utrecht, Utrecht, the Netherlands
Valerio Bianchi Hubrecht Institute, University Medical Center Utrecht, Utrecht, the Netherlands
Christian Mueller Department of General and Interventional Cardiology, University Heart Center Hamburg-Eppendorf, Hamburg, Germany
Amit V Khera Broad Institute of MIT and Harvard University, Cambridge, MA, USA; Cardiology Division, Department of Medicine, Massachusetts General Hospital and Harvard Medical School, Boston, MA USA; Center for Genomic Medicine, Department of Medicine, Massachusetts General Hospital and Harvard Medical School, Boston, MA, USA
Russell J H Ryan Broad Institute of MIT and Harvard University, Cambridge, MA, USA; Department of Pathology, Massachusetts General Hospital and Harvard Medical School, Boston, MA, USA
Jesse M Engreitz Broad Institute of MIT and Harvard University, Cambridge, MA, USA
Robbyn Issner Broad Institute of MIT and Harvard University, Cambridge, MA, USA
Noam Shoresh Broad Institute of MIT and Harvard University, Cambridge, MA, USA
Charles B Epstein Broad Institute of MIT and Harvard University, Cambridge, MA, USA
Wouter de Laat Hubrecht Institute, University Medical Center Utrecht, Utrecht, the Netherlands
Jonathan D Brown Division of Cardiovascular Medicine, Vanderbilt University Medical Center, Nashville, TN, USA
Renate B Schnabel Department of General and Interventional Cardiology, University Heart Center Hamburg-Eppendorf, Hamburg, Germany
Bradley E Bernstein Broad Institute of MIT and Harvard University, Cambridge, MA, USA; Department of Pathology, Massachusetts General Hospital and Harvard Medical School, Boston, MA, USA
Sekar Kathiresan Broad Institute of MIT and Harvard University, Cambridge, MA, USA; Cardiology Division, Department of Medicine, Massachusetts General Hospital and Harvard Medical School, Boston, MA USA; Center for Genomic Medicine, Department of Medicine, Massachusetts General Hospital and Harvard Medical School, Boston, MA, USA.

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Hinson JT, Chopra A, Lowe A, Sheng CC, Gupta RM, Kuppusamy R, O’Sullivan J, Rowe G, Wakimoto H, Gorham J, Burke MA, Zhang K, Musunuru K, Gerszten RE, Wu SM, Chen CS, Seidman JG, Seidman CE. Integrative Analysis of PRKAG2 Cardiomyopathy iPS and Microtissue Models Identifies AMPK as a Regulator of Metabolism, Survival, and Fibrosis. Cell Rep 2017;19:2410. [DOI: 10.1016/j.celrep.2017.05.038] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open

Mital S, Musunuru K, Garg V, Russell MW, Lanfear DE, Gupta RM, Hickey KT, Ackerman MJ, Perez MV, Roden DM, Woo D, Fox CS, Ware S. Enhancing Literacy in Cardiovascular Genetics: A Scientific Statement From the American Heart Association. ACTA ACUST UNITED AC 2016;9:448-467. [PMID: 27672144 DOI: 10.1161/hcg.0000000000000031] [Citation(s) in RCA: 53] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]

Gupta RM, Meissner TB, Cowan CA, Musunuru K. Genome-Edited Human Pluripotent Stem Cell-Derived Macrophages as a Model of Reverse Cholesterol Transport--Brief Report. Arterioscler Thromb Vasc Biol 2015;36:15-8. [PMID: 26543098 DOI: 10.1161/atvbaha.115.305956] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2015] [Accepted: 10/22/2015] [Indexed: 01/26/2023]

Beaudoin M, Gupta RM, Won HH, Lo KS, Do R, Henderson CA, Lavoie-St-Amour C, Langlois S, Rivas D, Lehoux S, Kathiresan S, Tardif JC, Musunuru K, Lettre G. Myocardial Infarction-Associated SNP at 6p24 Interferes With MEF2 Binding and Associates With PHACTR1 Expression Levels in Human Coronary Arteries. Arterioscler Thromb Vasc Biol 2015;35:1472-1479. [PMID: 25838425 DOI: 10.1161/atvbaha.115.305534] [Citation(s) in RCA: 70] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2014] [Accepted: 03/18/2015] [Indexed: 12/24/2022]

Affiliation(s)

Mélissa Beaudoin Montreal Heart Institute, 5000 Bélanger Street, Montréal, Québec, H1T 1C8, Canada
Rajat M Gupta Department of Stem Cell and Regenerative Biology, Harvard University, and Harvard Stem Cell Institute, Cambridge, Massachusetts 02138, USA Division of Cardiovascular Medicine, Brigham and Women's Hospital, Boston, Massachusetts 02115, USA
Hong-Hee Won Center of Human Genetic Research, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA Department of Medicine, Harvard Medical School, Boston, MA, USA Program in Medical and Population Genetics, Broad Institute, Cambridge, MA, USA
Ken Sin Lo Montreal Heart Institute, 5000 Bélanger Street, Montréal, Québec, H1T 1C8, Canada
Ron Do Center of Human Genetic Research, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA Department of Medicine, Harvard Medical School, Boston, MA, USA Program in Medical and Population Genetics, Broad Institute, Cambridge, MA, USA
Christopher A Henderson Department of Stem Cell and Regenerative Biology, Harvard University, and Harvard Stem Cell Institute, Cambridge, Massachusetts 02138, USA
Claire Lavoie-St-Amour Montreal Heart Institute, 5000 Bélanger Street, Montréal, Québec, H1T 1C8, Canada
Simon Langlois Montreal Heart Institute, 5000 Bélanger Street, Montréal, Québec, H1T 1C8, Canada
Daniel Rivas Lady Davis Institute for Medical Research, McGill University, 3755 Côte Sainte-Catherine, Montreal, Quebec, H3T 1E2, Canada
Stephanie Lehoux Lady Davis Institute for Medical Research, McGill University, 3755 Côte Sainte-Catherine, Montreal, Quebec, H3T 1E2, Canada
Sekar Kathiresan Center of Human Genetic Research, Massachusetts General Hospital, Boston, MA, USA Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA Department of Medicine, Harvard Medical School, Boston, MA, USA Program in Medical and Population Genetics, Broad Institute, Cambridge, MA, USA
Jean-Claude Tardif Montreal Heart Institute, 5000 Bélanger Street, Montréal, Québec, H1T 1C8, Canada Department of Medicine, Université de Montréal, 2900 Boul. Édouard-Montpetit, Montréal, Québec, H3T 1J4, Canada
Kiran Musunuru Department of Stem Cell and Regenerative Biology, Harvard University, and Harvard Stem Cell Institute, Cambridge, Massachusetts 02138, USA Division of Cardiovascular Medicine, Brigham and Women's Hospital, Boston, Massachusetts 02115, USA
Guillaume Lettre Montreal Heart Institute, 5000 Bélanger Street, Montréal, Québec, H1T 1C8, Canada Department of Medicine, Université de Montréal, 2900 Boul. Édouard-Montpetit, Montréal, Québec, H3T 1J4, Canada

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Gupta RM, Pilbrow AP, Weeke PE. Top advances in functional genomics and translational biology for 2014. Circ Cardiovasc Genet 2015;8:207-10. [PMID: 25691690 DOI: 10.1161/circgenetics.115.001021] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]

Gupta RM. One-shot, one cure with genome editing for dyslipidemia. ACTA ACUST UNITED AC 2014;7:967-8. [PMID: 25516627 DOI: 10.1161/circgenetics.114.000958] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]

Arora D, Gupta RM, Kochar SPS. Efficacy of single dose Nevirapine in reducing viral load in HIV positive mother in labour and transmission of HIV infection to new born babies as part of prevention of parent to child transmission. Med J Armed Forces India 2014;70:309-14. [PMID: 25382902 DOI: 10.1016/j.mjafi.2014.09.005] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2011] [Accepted: 09/03/2014] [Indexed: 11/24/2022] Open

Gupta RM. Digenic inheritance of myocardial infarction risk implicates dysfunctional nitric oxide signaling. ACTA ACUST UNITED AC 2014;7:93-4. [PMID: 24550432 DOI: 10.1161/circgenetics.114.000502] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]

Gupta RM, Musunuru K. Expanding the genetic editing tool kit: ZFNs, TALENs, and CRISPR-Cas9. J Clin Invest 2014;124:4154-61. [PMID: 25271723 DOI: 10.1172/jci72992] [Citation(s) in RCA: 270] [Impact Index Per Article: 27.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open

Gupta RM. Exome sequencing in congenital heart disease points to importance of DNA methylation. ACTA ACUST UNITED AC 2014;6:522. [PMID: 24129593 DOI: 10.1161/circgenetics.113.000325] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]

Ding Q, Gupta RM, Raghavan A, Musunuru K. Abstract 70: KLF14 is a Novel Regulator of Human Metabolism. Arterioscler Thromb Vasc Biol 2014. [DOI: 10.1161/atvb.34.suppl_1.70] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]

Abstract Human genetic studies have identified DNA variants near the KLF14 gene to be strongly associated with HDL cholesterol levels, triglyceride levels, risk of type 2 diabetes mellitus, and risk of coronary artery disease. Furthermore, the same variants are associated with both the expression level of KLF14 ( cis eQTL) and the expression levels of ten other genes related to metabolic traits located on different chromosomes ( trans eQTL) in human adipose tissues, suggesting that KLF14 may be a master regulator of gene expression in adipose tissue and a key player in human metabolism. In order to evaluate this hypothesis , we have rapidly and efficiently generated both KLF14 knockout human adipocytes (differentiated from human pluripotent stem cells) and Klf14 knockout mice through the use of clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated (Cas) systems. We have analyzed the KLF14 knockout adipocytes and the Klf14 knockout mice for metabolic phenotypes at several different levels. At an organismic level, we found Klf14 knockout mice displayed a variety of metabolic phenotypes—increased levels of triglycerides (up 61%), free fatty acids (up 75%), free glycerol (up 43%), and cholesterol levels (up 12%) in the blood. At a tissue level, we found Klf14 knockout adipose showed a broad activation of genes related to lipid synthesis and downregulation of groups of genes involved in muscle function and development, suggesting a switch between muscle (energy usage) and adipose (energy storage) programs. We also confirmed in Klf14 knockout adipose tissue significant changes in several of the ten trans eQTL genes reported in human adipose tissue. At a cellular level, we found in vitro differentiated Klf14 knockout adipocytes had increased adipogenesis with larger lipid droplets and more triglyceride accumulation (increased >50%) compared to wild-type adipocytes. Thus, using novel genome-editing techniques, we were able to rapidly evaluate KLF14 function in mouse and human model systems. Taken together, the obtained data establish that KLF14 is a causal regulator of human metabolism, acting at least in part by modulating adipocyte function. Further studies in other metabolically active tissues such as liver and muscle are underway. Collapse

Kashif AW, Aggarwal S, Verma T, Gupta RM. JAK2 V617F negative essential thrombocythemia. Med J Armed Forces India 2014;69:294-6. [PMID: 24600127 DOI: 10.1016/j.mjafi.2012.09.006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2012] [Accepted: 09/02/2012] [Indexed: 10/27/2022] Open

Patrikar S, Basannar DR, Bhatti VK, Kotwal A, Gupta RM, Grewal RS. Rate of decline in CD4 count in HIV patients not on antiretroviral therapy. Med J Armed Forces India 2013;70:134-8. [PMID: 24843201 DOI: 10.1016/j.mjafi.2013.08.005] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2013] [Accepted: 08/29/2013] [Indexed: 11/17/2022] Open

Abstract

BACKGROUND

The progressive decline in the CD4 count in HIV patients leads to a more general decline in immune functioning. The study has been carried out to determine the decline in CD4 count in HIV patients.

METHODS

The study was conducted in a medical college hospital at Maharashtra. The information on baseline CD4 count was gathered from positive patient records registered in the central disease registry. The baseline CD4 count was the first count of CD4 obtained when the patient is diagnosed as HIV positive and further two subsequent readings. The time from baseline (t1) till the last CD4 count (t2) was divided into the different quartiles and the median decline in CD4 count in each quartile was determined. As the time between the two CD4 count measurements was not uniform the rate of change in CD4 was measured with respect to time as [X (t2) - X (t1)/(t2 - t1)]. Correlation was assessed using correlation coefficient.

RESULTS

As the CD4 counts were following skewed distribution, the normality was achieved by cuberoot transformation. The overall rate of decline in CD4 count was estimated to be 35 cells/μL per year with 95% confidence interval (CI) as (17.01, 85.04). The correlation coefficient between decline in CD4 and the initial CD4 count in the four time quartiles was (r = -0.51; p = 0.001, r = -0.79; p = 0.000, r = -0.48; p = 0.015 and r = -0.80; p = 0.000) respectively. The median decline in the CD4 count in 0-6 months was 3 cells/μL, in (6-11) months was approximately 26 cells/μL, in (11-21.5) months was 30 cells/μL and in more than 21.5 months the median decline was 52 cells/μL.

CONCLUSIONS

There was a progressive decline in the CD4 count following HIV infection. An understanding of the influence of decline in CD4 count in HIV patients not on ART is important for clinical management of HIV disease.

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Gupta RM, Musunuru K. Mapping Novel Pathways in Cardiovascular Disease Using eQTL Data: The Past, Present, and Future of Gene Expression Analysis. Front Genet 2013;3:232. [PMID: 23755065 PMCID: PMC3668154 DOI: 10.3389/fgene.2012.00232] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2012] [Accepted: 10/15/2012] [Indexed: 01/11/2023] Open

Kumar S, Gupta RM, Sen S, Sarkar RS, Philip J, Kotwal A, Sumathi SH. Seroprevalence of human parvovirus B19 in healthy blood donors. Med J Armed Forces India 2013;69:268-72. [PMID: 24600121 DOI: 10.1016/j.mjafi.2012.11.009] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2011] [Accepted: 11/10/2012] [Indexed: 02/08/2023] Open

Ding Q, Lee YK, Schaefer EAK, Peters DT, Veres A, Kim K, Kuperwasser N, Motola DL, Meissner TB, Hendriks WT, Trevisan M, Gupta RM, Moisan A, Banks E, Friesen M, Schinzel RT, Xia F, Tang A, Xia Y, Figueroa E, Wann A, Ahfeldt T, Daheron L, Zhang F, Rubin LL, Peng LF, Chung RT, Musunuru K, Cowan CA. A TALEN genome-editing system for generating human stem cell-based disease models. Cell Stem Cell 2012;12:238-51. [PMID: 23246482 DOI: 10.1016/j.stem.2012.11.011] [Citation(s) in RCA: 376] [Impact Index Per Article: 31.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2012] [Revised: 10/19/2012] [Accepted: 11/12/2012] [Indexed: 10/27/2022]

Gupta RM, Weiner RB, Baggish AL, Fifer MA. Still a kid at heart: hypertrophic cardiomyopathy in the elderly. Circulation 2011;124:857-63. [PMID: 21844092 DOI: 10.1161/circulationaha.111.037135] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]

Lahiri KK, Sahni AK, Gupta RM, Duhan SD, Kapila K, Jena J. Hepatitis B e Antigen Negative Chronic Hepatitis in Indian Patients : A Reality. Med J Armed Forces India 2011;63:318-21. [PMID: 27408038 DOI: 10.1016/s0377-1237(07)80004-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2005] [Accepted: 10/13/2006] [Indexed: 10/18/2022] Open

Sen S, Vyas A, Sanghi S, Shanmuganandan K, Gupta RM, Kapila BK, Praharaj AK, Kumar S, Batra RB. Correlation of CD4+ T cell Count with Total Lymphocyte Count, Haemoglobin and Erythrocyte Sedimentation Rate Levels in Human Immunodeficiency Virus Type-1 Disease. Med J Armed Forces India 2011;67:15-20. [PMID: 27365755 DOI: 10.1016/s0377-1237(11)80005-5] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2010] [Accepted: 12/13/2010] [Indexed: 02/05/2023] Open

Banerjee A, Sahni AK, Gupta RM, Grewal VS, Singh Z. Outbreak of Rubella Among Cadets in an Academy. Med J Armed Forces India 2011;63:141-3. [PMID: 27407970 DOI: 10.1016/s0377-1237(07)80058-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2004] [Accepted: 05/09/2005] [Indexed: 10/18/2022] Open

Anand AC, Singh KJ, Sharma P, Kumar S, Gupta RM. Incidence of Hepatitis E Virus Infection in Recipients of Blood or Blood Products Transfusion. Med J Armed Forces India 2010;66:204-7. [PMID: 27408301 DOI: 10.1016/s0377-1237(10)80037-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2009] [Accepted: 04/10/2010] [Indexed: 10/18/2022] Open