HIV Transmission Networks in the San Diego-Tijuana Border Region

Autor: Mehta, SR, Wertheim, JO, Brouwer, KC, Wagner, KD, Chaillon, A, Strathdee, S, Patterson, TL, Rangel, MG, Vargas, M, Murrell, B, Garfein, R, Little, SJ, Smith, DM

Publikováno v: Mehta, SR; Wertheim, JO; Brouwer, KC; Wagner, KD; Chaillon, A; Strathdee, S; et al.(2015). HIV Transmission Networks in the San Diego-Tijuana Border Region. EBioMedicine, 2(10), 1456-1463. doi: 10.1016/j.ebiom.2015.07.024. UC San Diego: Retrieved from: http://www.escholarship.org/uc/item/5jc2v3k6
EBioMedicine, vol 2, iss 10
Mehta, SR; Wertheim, JO; Brouwer, KC; Wagner, KD; Chaillon, A; Strathdee, S; et al.(2015). HIV Transmission Networks in the San Diego-Tijuana Border Region. EBioMedicine. doi: 10.1016/j.ebiom.2015.07.024. UC San Diego: Retrieved from: http://www.escholarship.org/uc/item/4bg1p7d4

© 2015. Background: HIV sequence data can be used to reconstruct local transmission networks. Along international borders, like the San Diego-Tijuana region, understanding the dynamics of HIV transmission across reported risks, racial/ethnic groups,

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=dedup_wf_001::5110129798b8062a7ed56644f620d243
http://www.escholarship.org/uc/item/5jc2v3k6

Genetic tracing of market wildlife and viruses at the epicenter of the COVID-19 pandemic.

Autor: Crits-Christoph A; Independent researcher., Levy JI; Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, San Diego, CA 92037, USA., Pekar JE; Department of Biomedical Informatics, University of California, San Diego, La Jolla, San Diego, CA, USA., Goldstein SA; Department of Human Genetics, University of Utah School of Medicine, Salt Lake City, UT, USA., Singh R; Vaccine and Infectious Disease Organization, University of Saskatchewan, Saskatoon, SK, Canada., Hensel Z; ITQB NOVA, Universidade NOVA de Lisboa, Av. da República, Oeiras, Lisbon 2780-157, Portugal., Gangavarapu K; Department of Human Genetics, University of California, Los Angeles, Los Angeles, CA 90024, USA., Rogers MB; Vaccine and Infectious Disease Organization, University of Saskatchewan, Saskatoon, SK, Canada., Moshiri N; Department of Computer Science & Engineering, University of California, San Diego, La Jolla, San Diego, CA, USA., Garry RF; Tulane University, School of Medicine, Department of Microbiology and Immunology, New Orleans, LA 70112, USA; Zalgen Labs, Frederick, MD 21703, USA; Global Virus Network (GVN), Baltimore, MD 21201, USA., Holmes EC; School of Medical Sciences, The University of Sydney, Sydney, NSW 2006, Australia., Koopmans MPG; Department of Viroscience, and Pandemic and Disaster Preparedness Centre, Erasmus Medical Centre, Rotterdam, the Netherlands., Lemey P; Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven, Leuven, Belgium., Peacock TP; The Pirbright Institute, Woking GU24 0NF, Surrey, UK; Department of Infectious Disease, Imperial College London, London W2 1P, UK., Popescu S; University of Maryland, School of Medicine, Department of Epidemiology & Public Health, Baltimore, MD 21201, USA., Rambaut A; Institute of Ecology and Evolution, University of Edinburgh, Edinburgh, UK., Robertson DL; MRC-University of Glasgow Center for Virus Research, Glasgow G61 1QH, UK., Suchard MA; Department of Biostatistics, University of California, Los Angeles, Los Angeles, CA 90024, USA., Wertheim JO; Department of Medicine, University of California, San Diego, La Jolla, San Diego, CA, USA., Rasmussen AL; Vaccine and Infectious Disease Organization, University of Saskatchewan, Saskatoon, SK, Canada., Andersen KG; Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, San Diego, CA 92037, USA. Electronic address: andersen@scripps.edu., Worobey M; Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, USA. Electronic address: worobey@arizona.edu., Débarre F; Institut d'Écologie et des Sciences de l'Environnement (IEES-Paris, UMR 7618), CNRS, Sorbonne Université, UPEC, IRD, INRAE, Paris, France. Electronic address: florence.debarre@sorbonne-universite.fr.

Publikováno v: Cell [Cell] 2024 Sep 19; Vol. 187 (19), pp. 5468-5482.e11.

Genomic epidemiology reveals 2022 mpox epidemic in New York City governed by heavy-tailed sexual contact networks.

Autor: Pekar JE; Bioinformatics and Systems Biology Graduate Program, University of California San Diego, La Jolla, CA 92093, USA.; Department of Biomedical Informatics, University of California San Diego, La Jolla, CA 92093, USA.; Department of Medicine, University of California San Diego, La Jolla, CA 92093, USA., Wang Y; Department of Computer Science and Engineering, University of California San Diego, La Jolla, CA 92093, USA., Wang JC; New York City Department of Health and Mental Hygiene, Public Health Laboratory, New York, NY 11101, USA., Shao Y; Department of Biostatistics, Fielding School of Public Health, University of California Los Angeles, Los Angeles, CA 90095, USA., Taki F; New York City Department of Health and Mental Hygiene, Public Health Laboratory, New York, NY 11101, USA., Forgione LA; New York City Department of Health and Mental Hygiene, Bureau of Hepatitis, HIV, and Sexually Transmitted Infections, Long Island City, NY 11101, USA., Amin H; New York City Department of Health and Mental Hygiene, Public Health Laboratory, New York, NY 11101, USA., Clabby T; New York City Department of Health and Mental Hygiene, Public Health Laboratory, New York, NY 11101, USA., Johnson K; New York City Department of Health and Mental Hygiene, Bureau of Hepatitis, HIV, and Sexually Transmitted Infections, Long Island City, NY 11101, USA., Torian LV; New York City Department of Health and Mental Hygiene, Bureau of Hepatitis, HIV, and Sexually Transmitted Infections, Long Island City, NY 11101, USA., Braunstein SL; New York City Department of Health and Mental Hygiene, Bureau of Hepatitis, HIV, and Sexually Transmitted Infections, Long Island City, NY 11101, USA., Pathela P; New York City Department of Health and Mental Hygiene, Bureau of Hepatitis, HIV, and Sexually Transmitted Infections, Long Island City, NY 11101, USA., Omoregie E; New York City Department of Health and Mental Hygiene, Public Health Laboratory, New York, NY 11101, USA., Hughes S; New York City Department of Health and Mental Hygiene, Public Health Laboratory, New York, NY 11101, USA., Suchard MA; Department of Biostatistics, Fielding School of Public Health, University of California Los Angeles, Los Angeles, CA 90095, USA.; Department of Biomathematics, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, CA 90095, USA.; Department of Human Genetics, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, CA 90095, USA., Vasylyeva TI; Department of Population Health and Disease Prevention, University of California Irvine, Irvine, CA 92617, USA., Lemey P; Department of Microbiology, Immunology and Transplantation, Rega Institute, Laboratory for Clinical and Epidemiological Virology, KU Leuven, Leuven, Belgium., Wertheim JO; Department of Medicine, University of California San Diego, La Jolla, CA 92093, USA.

Publikováno v: MedRxiv : the preprint server for health sciences [medRxiv] 2024 Aug 01. Date of Electronic Publication: 2024 Aug 01.

The role of socio-economic disparities in the relative success and persistence of SARS-CoV-2 variants in New York City in early 2021.

Autor: Vasylyeva TI; Department of Population Health and Disease Prevention, University of California Irvine, Irvine, California, United States of America., Havens JL; Bioinformatics and Systems Biology Graduate Program, University of California San Diego, La Jolla, California, United States of America., Wang JC; New York City Public Health Laboratory, New York City Department of Health and Mental Hygiene, New York, New York, United States of America., Luoma E; Bureau of Communicable Disease, New York City Department of Health and Mental Hygiene, New York, New York, United States of America., Hassler GW; Department of Computational Medicine, University of California Los Angeles, Los Angeles, California, United States of America., Amin H; New York City Public Health Laboratory, New York City Department of Health and Mental Hygiene, New York, New York, United States of America., Di Lonardo S; New York City Public Health Laboratory, New York City Department of Health and Mental Hygiene, New York, New York, United States of America., Taki F; New York City Public Health Laboratory, New York City Department of Health and Mental Hygiene, New York, New York, United States of America., Omoregie E; New York City Public Health Laboratory, New York City Department of Health and Mental Hygiene, New York, New York, United States of America., Hughes S; New York City Public Health Laboratory, New York City Department of Health and Mental Hygiene, New York, New York, United States of America., Wertheim JO; Department of Medicine, University of California San Diego, La Jolla, California, United States of America.

Publikováno v: PLoS pathogens [PLoS Pathog] 2024 Jun 20; Vol. 20 (6), pp. e1012288. Date of Electronic Publication: 2024 Jun 20 (Print Publication: 2024).

Integrated Genomic and Social Network Analyses of SARS-CoV-2 Transmission in the Healthcare Setting.

Autor: Keehner J; Division of Infectious Diseases, Department of Medicine, University of California-SanFrancisco, San Francisco, California, USA.; Division of Infectious Diseases and Global Public Health, Department of Medicine, UC San Diego Health, San Diego, California, USA., Abeles SR; Division of Infectious Diseases and Global Public Health, Department of Medicine, UC San Diego Health, San Diego, California, USA.; Infection Prevention and Clinical Epidemiology Unit, UC San Diego Health, San Diego, California, USA., Longhurst CA; Division of Biomedical Informatics, Department of Medicine, UC San Diego Health, La Jolla, California, USA.; Department of Pediatrics, University of California-San Diego, La Jolla, California, USA., Horton LE; Division of Infectious Diseases and Global Public Health, Department of Medicine, UC San Diego Health, San Diego, California, USA.; Infection Prevention and Clinical Epidemiology Unit, UC San Diego Health, San Diego, California, USA.; Vaccine Research and Development Unit, Pfizer Inc, San Diego, California, USA., Myers FE; Infection Prevention and Clinical Epidemiology Unit, UC San Diego Health, San Diego, California, USA., Riggs-Rodriguez L; Population Health Services Organization-Programs and Strategy, UC San Diego Health, San Diego, California, USA., Ahmad M; Information Services EMR, UC San Diego Health, San Diego, California, USA., Baxter S; Division of Biomedical Informatics at the University of California-San Diego, San Diego, California, USA., Boussina A; Division of Biomedical Informatics, University of California-San Diego, La Jolla, California, USA., Cantrell K; Department of Computer Science & Engineering, Jacobs School of Engineering, University of California, San Diego, California, USA., Cardenas P; UC San Diego Health's Contact Tracing Team, Infection Prevention and Clinical Epidemiology Unit, UC San Diego Health, San Diego, California, USA., De Hoff P; Sanford Consortium of Regenerative Medicine, University of California-San Diego, La Jolla, California, USA.; Expedited COVID Identification Environment Laboratory, Department of Pediatrics, University of California-San Diego, La Jolla, California, USA.; Division of Maternal Fetal Medicine, Department of Obstetrics, Gynecology, and Reproductive Sciences, UC San Diego Health, San Diego, California, USA., El-Kareh R; Division of Biomedical Informatics, Department of Medicine, UC San Diego Health, La Jolla, California, USA.; Division of Hospital Medicine, Department of Medicine, UC San Diego Health, La Jolla, California, USA., Holland J; Analytics and Population Health Department, UC San Diego Health, San Diego, California, USA., Ikeda D; UC San Diego Health's Contact Tracing Team, Infection Prevention and Clinical Epidemiology Unit, UC San Diego Health, San Diego, California, USA., Kurashige K; Analytics and Population Health Department, UC San Diego Health, San Diego, California, USA., Laurent LC; Sanford Consortium of Regenerative Medicine, University of California-San Diego, La Jolla, California, USA.; Expedited COVID Identification Environment Laboratory, Department of Pediatrics, University of California-San Diego, La Jolla, California, USA.; Division of Maternal Fetal Medicine, Department of Obstetrics, Gynecology, and Reproductive Sciences, UC San Diego Health, San Diego, California, USA., Lucas A; Information Services EMR, UC San Diego Health, San Diego, California, USA., Pride D; Division of Infectious Diseases and Global Public Health, Department of Medicine, UC San Diego Health, San Diego, California, USA.; Department of Pathology, UC San Diego Health, La Jolla, California, USA., Sathe S; Sanford Consortium of Regenerative Medicine, University of California-San Diego, La Jolla, California, USA.; Department of Cellular and Molecular Medicine, University of California-San Diego, La Jolla, California, USA.; Expedited COVID Identification Environment Laboratory, Department of Pediatrics, University of California-San Diego, La Jolla, California, USA., Tran AR; Information Services EMR, UC San Diego Health, San Diego, California, USA., Vasylyeva TI; Division of Infectious Diseases and Global Public Health, Department of Medicine, UC San Diego Health, San Diego, California, USA., Yeo G; Sanford Consortium of Regenerative Medicine, University of California-San Diego, La Jolla, California, USA.; Department of Cellular and Molecular Medicine, University of California-San Diego, La Jolla, California, USA.; Expedited COVID Identification Environment Laboratory, Department of Pediatrics, University of California-San Diego, La Jolla, California, USA., Knight R; Department of Pediatrics, University of California-San Diego, La Jolla, California, USA.; Department of Bioengineering, University of California-San Diego, La Jolla, California, USA.; Department of Computer Science and Engineering, University of California-San Diego, La Jolla, California, USA.; Expedited COVID Identification Environment Laboratory, Department of Pediatrics, University of California-San Diego, La Jolla, California, USA.; Center for Microbiome Innovation, University of California-San Diego, La Jolla, California, USA., Wertheim JO; Division of Infectious Diseases and Global Public Health, Department of Medicine, UC San Diego Health, San Diego, California, USA., Torriani FJ; Division of Infectious Diseases and Global Public Health, Department of Medicine, UC San Diego Health, San Diego, California, USA.; Infection Prevention and Clinical Epidemiology Unit, UC San Diego Health, San Diego, California, USA.

Publikováno v: Clinical infectious diseases : an official publication of the Infectious Diseases Society of America [Clin Infect Dis] 2024 May 15; Vol. 78 (5), pp. 1204-1213.