DengueSeq: a pan-serotype whole genome amplicon sequencing protocol for dengue virus.

Autor: Vogels CBF; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, USA. chantal.vogels@yale.edu.; Yale Institute for Global Health, Yale University, New Haven, Connecticut, USA. chantal.vogels@yale.edu., Hill V; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, USA., Breban MI; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, USA., Chaguza C; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, USA.; Yale Institute for Global Health, Yale University, New Haven, Connecticut, USA., Paul LM; Department of Biological Sciences, College of Arts and Sciences, Florida Gulf Coast University, Fort Myers, Florida, USA., Sodeinde A; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, USA., Taylor-Salmon E; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, USA.; Department of Pediatrics, Yale School of Medicine, New Haven, Connecticut, USA., Ott IM; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, USA., Petrone ME; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, USA.; Sydney Institute for Infectious Diseases, School of Medical Sciences, University of Sydney, Sydney, NSW, Australia., Dijk D; Department of Medical Microbiology & Infection Prevention, Amsterdam UMC Location AMC, Amsterdam, The Netherlands., Jonges M; Department of Medical Microbiology & Infection Prevention, Amsterdam UMC Location AMC, Amsterdam, The Netherlands., Welkers MRA; Department of Medical Microbiology & Infection Prevention, Amsterdam UMC Location AMC, Amsterdam, The Netherlands.; Department of Infectious Diseases, Public Health Service of Amsterdam, Amsterdam, The Netherlands., Locksmith T; Bureau of Public Health Laboratories, Division of Disease Control and Health Protection, Florida Department of Health, Tampa, FL, USA., Dong Y; Bureau of Public Health Laboratories, Division of Disease Control and Health Protection, Florida Department of Health, Jacksonville, FL, USA., Tarigopula N; Bureau of Public Health Laboratories, Division of Disease Control and Health Protection, Florida Department of Health, Jacksonville, FL, USA., Tekin O; Bureau of Public Health Laboratories, Division of Disease Control and Health Protection, Florida Department of Health, Jacksonville, FL, USA., Schmedes S; Bureau of Public Health Laboratories, Division of Disease Control and Health Protection, Florida Department of Health, Jacksonville, FL, USA., Bunch S; Bureau of Public Health Laboratories, Division of Disease Control and Health Protection, Florida Department of Health, Tampa, FL, USA., Cano N; Bureau of Public Health Laboratories, Division of Disease Control and Health Protection, Florida Department of Health, Tampa, FL, USA., Jaber R; Bureau of Public Health Laboratories, Division of Disease Control and Health Protection, Florida Department of Health, Tampa, FL, USA., Panzera C; Bureau of Public Health Laboratories, Division of Disease Control and Health Protection, Florida Department of Health, Tampa, FL, USA., Stryker I; Bureau of Public Health Laboratories, Division of Disease Control and Health Protection, Florida Department of Health, Tampa, FL, USA., Vergara J; Bureau of Public Health Laboratories, Division of Disease Control and Health Protection, Florida Department of Health, Tampa, FL, USA., Zimler R; Bureau of Epidemiology, Division of Disease Control and Health Protection, Florida Department of Health, Tallahassee, FL, USA., Kopp E; Bureau of Public Health Laboratories, Division of Disease Control and Health Protection, Florida Department of Health, Tampa, FL, USA., Heberlein L; Bureau of Public Health Laboratories, Division of Disease Control and Health Protection, Florida Department of Health, Tampa, FL, USA., Herzog KS; Department of Epidemiology, University of Nebraska Medical Center, Omaha, Nebraska, USA., Fauver JR; Department of Epidemiology, University of Nebraska Medical Center, Omaha, Nebraska, USA., Morrison AM; Bureau of Epidemiology, Division of Disease Control and Health Protection, Florida Department of Health, Tallahassee, FL, USA., Michael SF; Department of Biological Sciences, College of Arts and Sciences, Florida Gulf Coast University, Fort Myers, Florida, USA., Grubaugh ND; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, USA. nathan.grubaugh@yale.edu.; Yale Institute for Global Health, Yale University, New Haven, Connecticut, USA. nathan.grubaugh@yale.edu.; Department of Ecology and Evolutionary Biology, Yale University, New Haven, Connecticut, USA. nathan.grubaugh@yale.edu.; Public Health Modeling Unit, Yale School of Public Health, New Haven, Connecticut, USA. nathan.grubaugh@yale.edu.

Publikováno v: BMC genomics [BMC Genomics] 2024 May 01; Vol. 25 (1), pp. 433. Date of Electronic Publication: 2024 May 01.

Distinguishing features of long COVID identified through immune profiling.

Autor: Klein J; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Wood J; Abilities Research Center, Icahn School of Medicine at Mount Sinai, New York, NY, USA., Jaycox JR; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Dhodapkar RM; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA.; Department of Ophthalmology, USC Keck School of Medicine, Los Angeles, CA, USA., Lu P; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Gehlhausen JR; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA.; Department of Dermatology, Yale School of Medicine, New Haven, CT, USA., Tabachnikova A; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Greene K; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Tabacof L; Abilities Research Center, Icahn School of Medicine at Mount Sinai, New York, NY, USA., Malik AA; Yale Institute for Global Health, Yale School of Public Health, New Haven, CT, USA., Silva Monteiro V; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Silva J; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Kamath K; SerImmune, Goleta, CA, USA., Zhang M; SerImmune, Goleta, CA, USA., Dhal A; SerImmune, Goleta, CA, USA., Ott IM; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Valle G; Department of Internal Medicine (Pulmonary, Critical Care and Sleep Medicine), Yale School of Medicine, New Haven, CT, USA., Peña-Hernández M; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA.; Department of Microbiology, Yale School of Medicine, New Haven, CT, USA., Mao T; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Bhattacharjee B; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Takahashi T; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Lucas C; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA.; Center for Infection and Immunity, Yale School of Medicine, New Haven, CT, USA., Song E; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., McCarthy D; Abilities Research Center, Icahn School of Medicine at Mount Sinai, New York, NY, USA., Breyman E; Abilities Research Center, Icahn School of Medicine at Mount Sinai, New York, NY, USA., Tosto-Mancuso J; Abilities Research Center, Icahn School of Medicine at Mount Sinai, New York, NY, USA., Dai Y; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Perotti E; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Akduman K; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Tzeng TJ; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Xu L; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA., Geraghty AC; Department of Neurology and Neurological Sciences, Stanford University, Palo Alto, CA, USA., Monje M; Department of Neurology and Neurological Sciences, Stanford University, Palo Alto, CA, USA.; Howard Hughes Medical Institute, Chevy Chase, MD, USA., Yildirim I; Yale Institute for Global Health, Yale School of Public Health, New Haven, CT, USA.; Center for Infection and Immunity, Yale School of Medicine, New Haven, CT, USA.; Department of Pediatrics (Infectious Diseases), Yale New Haven Hospital, New Haven, CT, USA.; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, USA., Shon J; SerImmune, Goleta, CA, USA., Medzhitov R; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA.; Center for Infection and Immunity, Yale School of Medicine, New Haven, CT, USA.; Howard Hughes Medical Institute, Chevy Chase, MD, USA., Lutchmansingh D; Department of Internal Medicine (Pulmonary, Critical Care and Sleep Medicine), Yale School of Medicine, New Haven, CT, USA., Possick JD; Department of Internal Medicine (Pulmonary, Critical Care and Sleep Medicine), Yale School of Medicine, New Haven, CT, USA., Kaminski N; Department of Internal Medicine (Pulmonary, Critical Care and Sleep Medicine), Yale School of Medicine, New Haven, CT, USA., Omer SB; Yale Institute for Global Health, Yale School of Public Health, New Haven, CT, USA.; Center for Infection and Immunity, Yale School of Medicine, New Haven, CT, USA.; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, USA.; Department of Internal Medicine (Infectious Diseases), Yale School of Medicine, New Haven, CT, USA., Krumholz HM; Center for Infection and Immunity, Yale School of Medicine, New Haven, CT, USA.; Center for Outcomes Research and Evaluation, Yale New Haven Hospital, New Haven, CT, USA.; Section of Cardiovascular Medicine, Department of Internal Medicine, Yale School of Medicine, New Haven, CT, USA.; Department of Health Policy and Management, Yale School of Public Health, New Haven, CT, USA., Guan L; Center for Infection and Immunity, Yale School of Medicine, New Haven, CT, USA.; Department of Biostatistics, Yale School of Public Health, New Haven, CT, USA., Dela Cruz CS; Department of Internal Medicine (Pulmonary, Critical Care and Sleep Medicine), Yale School of Medicine, New Haven, CT, USA.; Center for Infection and Immunity, Yale School of Medicine, New Haven, CT, USA., van Dijk D; Center for Infection and Immunity, Yale School of Medicine, New Haven, CT, USA. david.vandijk@yale.edu.; Department of Computer Science, Yale University, New Haven, CT, USA. david.vandijk@yale.edu.; Department of Internal Medicine (Cardiology), Yale School of Medicine, New Haven, CT, USA. david.vandijk@yale.edu., Ring AM; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA. aaron.ring@yale.edu.; Center for Infection and Immunity, Yale School of Medicine, New Haven, CT, USA. aaron.ring@yale.edu., Putrino D; Abilities Research Center, Icahn School of Medicine at Mount Sinai, New York, NY, USA. david.putrino@mountsinai.org.; Department of Rehabilitation and Human Performance, Icahn School of Medicine at Mount Sinai, New York, NY, USA. david.putrino@mountsinai.org., Iwasaki A; Department of Immunobiology, Yale School of Medicine, New Haven, CT, USA. akiko.iwasaki@yale.edu.; Center for Infection and Immunity, Yale School of Medicine, New Haven, CT, USA. akiko.iwasaki@yale.edu.; Howard Hughes Medical Institute, Chevy Chase, MD, USA. akiko.iwasaki@yale.edu.

Publikováno v: Nature [Nature] 2023 Nov; Vol. 623 (7985), pp. 139-148. Date of Electronic Publication: 2023 Sep 25.

Method versatility in RNA extraction-free PCR detection of SARS-CoV-2 in saliva samples.

Autor: Allicock OM; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA. Electronic address: orchid.allicock@yale.edu., Yolda-Carr D; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Earnest R; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Breban MI; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Vega N; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Ott IM; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Kalinich C; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Alpert T; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Petrone ME; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Wyllie AL; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA.

Publikováno v: Progress in biophysics and molecular biology [Prog Biophys Mol Biol] 2023 Sep; Vol. 182, pp. 103-108. Date of Electronic Publication: 2023 Jun 25.

Detection of pneumococcus during hospitalization for SARS-CoV-2.

Autor: Stahlfeld A; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, LEPH823, 60 College St, New Haven, CT 06510, United States., Glick LR; Yale School of Medicine, 333 Cedar St, New Haven, CT 06511, United States., Ott IM; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, LEPH823, 60 College St, New Haven, CT 06510, United States., Craft SB; Yale School of Medicine, 333 Cedar St, New Haven, CT 06511, United States., Yolda-Carr D; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, LEPH823, 60 College St, New Haven, CT 06510, United States., Harden CA; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, LEPH823, 60 College St, New Haven, CT 06510, United States., Nakahata M; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, LEPH823, 60 College St, New Haven, CT 06510, United States., Farhadian SF; Yale School of Medicine, 333 Cedar St, New Haven, CT 06511, United States., Grant LR; Medical and Scientific Affairs, Pfizer Inc, 500 Arcola Rd, Collegeville, PA 19426, United States., Alexander-Parrish R; Medical and Scientific Affairs, Pfizer Inc, 500 Arcola Rd, Collegeville, PA 19426, United States., Arguedas A; Medical and Scientific Affairs, Pfizer Inc, 500 Arcola Rd, Collegeville, PA 19426, United States., Gessner BD; Medical and Scientific Affairs, Pfizer Inc, 500 Arcola Rd, Collegeville, PA 19426, United States., Weinberger DM; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, LEPH823, 60 College St, New Haven, CT 06510, United States., Wyllie AL; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, LEPH823, 60 College St, New Haven, CT 06510, United States.

Publikováno v: FEMS microbes [FEMS Microbes] 2022 Oct 16; Vol. 3, pp. xtac026. Date of Electronic Publication: 2022 Oct 16 (Print Publication: 2022).

Combining genomic and epidemiological data to compare the transmissibility of SARS-CoV-2 variants Alpha and Iota.

Autor: Petrone ME; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA. mary.petrone@yale.edu., Rothman JE; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Breban MI; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Ott IM; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Russell A; Wadsworth Center, New York State Department of Health, Albany, NY, 12208, USA., Lasek-Nesselquist E; Wadsworth Center, New York State Department of Health, Albany, NY, 12208, USA.; Department of Biomedical Sciences, University at Albany, SUNY, Albany, NY, 12222, USA., Badr H; Department of Civil and Systems Engineering, Johns Hopkins University, Baltimore, 21218, MD, USA., Kelly K; The Jackson Laboratory for Genomic Medicine, Farmington, CT, 06032, USA., Omerza G; The Jackson Laboratory for Genomic Medicine, Farmington, CT, 06032, USA., Renzette N; The Jackson Laboratory for Genomic Medicine, Farmington, CT, 06032, USA., Watkins AE; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Kalinich CC; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Alpert T; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Brito AF; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Earnest R; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Tikhonova IR; Yale Center for Genome Analysis, Yale University, New Haven, CT, 06510, USA., Castaldi C; Yale Center for Genome Analysis, Yale University, New Haven, CT, 06510, USA., Kelly JP; Wadsworth Center, New York State Department of Health, Albany, NY, 12208, USA., Shudt M; Wadsworth Center, New York State Department of Health, Albany, NY, 12208, USA., Plitnick J; Wadsworth Center, New York State Department of Health, Albany, NY, 12208, USA.; Department of Biomedical Sciences, University at Albany, SUNY, Albany, NY, 12222, USA., Schneider E; Wadsworth Center, New York State Department of Health, Albany, NY, 12208, USA.; Department of Biomedical Sciences, University at Albany, SUNY, Albany, NY, 12222, USA., Murphy S; Murphy Medical Associates, Greenwich, CT, 06830, USA., Neal C; Murphy Medical Associates, Greenwich, CT, 06830, USA., Laszlo E; Murphy Medical Associates, Greenwich, CT, 06830, USA., Altajar A; Murphy Medical Associates, Greenwich, CT, 06830, USA., Pearson C; Connecticut State Department of Public Health, Rocky Hill, CT, 06067, USA., Muyombwe A; Connecticut State Department of Public Health, Rocky Hill, CT, 06067, USA., Downing R; Connecticut State Department of Public Health, Rocky Hill, CT, 06067, USA., Razeq J; Connecticut State Department of Public Health, Rocky Hill, CT, 06067, USA., Niccolai L; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Wilson MS; Yale Health Center, Yale University, New Haven, CT, 06510, USA., Anderson ML; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Wang J; Department of Pathology, Yale University School of Medicine, New Haven, CT, 06510, USA., Liu C; Department of Pathology, Yale University School of Medicine, New Haven, CT, 06510, USA., Hui P; Department of Pathology, Yale University School of Medicine, New Haven, CT, 06510, USA., Mane S; Yale Center for Genome Analysis, Yale University, New Haven, CT, 06510, USA., Taylor BP; Center for Communicable Disease Dynamics, Department of Epidemiology, Harvard T. H. Chan School of Public Health, Boston, MA, 02115, USA., Hanage WP; Center for Communicable Disease Dynamics, Department of Epidemiology, Harvard T. H. Chan School of Public Health, Boston, MA, 02115, USA., Landry ML; Departments of Laboratory Medicine and Medicine, Yale University School of Medicine, New Haven, CT, 06510, USA., Peaper DR; Departments of Laboratory Medicine and Medicine, Yale University School of Medicine, New Haven, CT, 06510, USA., Bilguvar K; Yale Center for Genome Analysis, Yale University, New Haven, CT, 06510, USA.; Department of Genetics, Yale University School of Medicine, New Haven, CT, 06510, USA., Fauver JR; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Vogels CBF; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., Gardner LM; Department of Civil and Systems Engineering, Johns Hopkins University, Baltimore, 21218, MD, USA., Pitzer VE; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA., St George K; Wadsworth Center, New York State Department of Health, Albany, NY, 12208, USA.; Department of Biomedical Sciences, University at Albany, SUNY, Albany, NY, 12222, USA., Adams MD; The Jackson Laboratory for Genomic Medicine, Farmington, CT, 06032, USA., Grubaugh ND; Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, CT, 06510, USA. nathan.grubaugh@yale.edu.; Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT, 06510, USA. nathan.grubaugh@yale.edu.

Publikováno v: Communications biology [Commun Biol] 2022 May 11; Vol. 5 (1), pp. 439. Date of Electronic Publication: 2022 May 11.