Dan Kelly, MD

After graduating from Princeton University, Dan Kelly, MD MPH PhD, went to Albert Einstein College of Medicine, where he pursued a Global Health Fellowship after his third year. In Sierra Leone, a local doctor and he were inspired to start Wellbody Alliance, a health and human rights non-profit organization that provides high-quality healthcare to the rural poor. Wellbody Alliance cared for the half million people living in rural Kono district and was severely affected by the 2013-2016 Ebola epidemic.

After a close friend died of Ebola in August 2014, Dan decided to take a leave of absence from infectious disease fellowship at UCSF and his MPH training at Berkeley to focus full-time on the Ebola response in Sierra Leone. Dan reached out to his long-time mentor Paul Farmer and established a coalition with Partners In Health in Sierra Leone. Dan led multiple frontiers of work, ranging from Ebola care to clinical trials of innovative Ebola diagnostics, and integrated Wellbody Alliance into Partners In Health. After the Ebola epidemic was no longer a humanitarian crisis, Dan returned from Sierra Leone to the San Francisco Bay Area and finished his MPH at Berkeley as well as his infectious disease fellowship and PhD in epidemiology at UCSF.

Dan continues to conduct Ebola research in Sierra Leone and Liberia and pivoted to incorporate COVID-19 research when the 2020 pandemic hit, developing a robust COVID-19 and respiratory viral research program in San Francisco. Dan uses his clinical and epidemiological research training to identify treatments for "Long Ebola" and to prevent future pandemics through evaluations of vaccine-induced immune protection against Ebola. Dan studies the natural history of acute and post-acute COVID-19, including "Long COVID". At UCSF, Dan leads the "Long COVID" prevention agenda and RECOVER observational research project (NIH consortium) in collaboration with others on the LIINC leadership team. Dan also has a robust "big data" research program at the SFVA using national cohorts to study vaccine effectiveness against COVID-19, RSV, and other respiratory viral infections using target trial emulation and other modern epidemiological methods. Overall, these research projects aim to prevent, treat, and discover cures for viral infections with pandemic potential.

Dan has published this high-impact work on Ebola and/or COVID-19 in New England Journal of Medicine, Nature, The Lancet, Annuals of Internal Medicine, and JAMA.

Publications:

Long-COVID incidence proportion in adults and children between 2020 and 2024.

Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Mandel H, Yoo YJ, Allen AJ, Abedian S, Verzani Z, Karlson EW, Kleinman LC, Mudumbi PC, Oliveira CR, Muszynski JA, Gross RS, Carton TW, Kim C, Taylor E, Park H, Divers J, Kelly JD, Arnold J, Geary CR, Zang C, Tantisira KG, Rhee KE, Koropsak M, Mohandas S, Vasey A, Mohammad Mosa AS, Haendel M, Chute CG, Murphy SN, O'Brien L, Szmuszkovicz J, Guthe N, Santana JL, De A, Bogie AL, Halabi KC, Mohanraj L, Kinser PA, Packard SE, Tuttle KR, Hirabayashi K, Kaushal R, Pfaff E, Weiner MG, Thorpe LE, Moffitt RA

The Impact of Posterior and Posterior Superior (PPS) Labral Injuries and The Effect of Their Treatment on Glenohumeral Kinematics in the Deceleration and Follow-Through Phase of Throwing: A Biomechanical Study.

Journal of shoulder and elbow surgery

Malige A, Thomas S, Fraipont G, Hung VT, McGarry MH, Paul RW, Gupta R, Ciccotti MG, Kelly JD, Ben Kibler W, Lee TQ

2024 Update of the RECOVER-Adult Long COVID Research Index.

JAMA

Geng LN, Erlandson KM, Hornig M, Letts R, Selvaggi C, Ashktorab H, Atieh O, Bartram L, Brim H, Brosnahan SB, Brown J, Castro M, Charney A, Chen P, Deeks SG, Erdmann N, Flaherman VJ, Ghamloush MA, Goepfert P, Goldman JD, Han JE, Hess R, Hirshberg E, Hoover SE, Katz SD, Kelly JD, Klein JD, Krishnan JA, Lee-Iannotti J, Levitan EB, Marconi VC, Metz TD, Modes ME, Nikolich JŽ, Novak RM, Ofotokun I, Okumura MJ, Parthasarathy S, Patterson TF, Peluso MJ, Poppas A, Quintero Cardona O, Scott J, Shellito J, Sherif ZA, Singer NG, Taylor BS, Thaweethai T, Verduzco-Gutierrez M, Wisnivesky J, McComsey GA, Horwitz LI, Foulkes AS, RECOVER Consortium

Long COVID is associated with lower percentages of mature, cytotoxic NK cell phenotypes.

The Journal of clinical investigation

Tsao T, Buck AM, Grimbert L, LaFranchi BH, Altamirano Poblano B, Fehrman EA, Dalhuisen T, Hsue PY, Kelly JD, Martin JN, Deeks SG, Hunt PW, Peluso MJ, Aguilar OA, Henrich TJ

Post-SARS-CoV-2 Onset Myalgic Encephalomyelitis/Chronic Fatigue Syndrome Symptoms in Two Cohort Studies of COVID-19 Recovery.

medRxiv : the preprint server for health sciences

Jamal A, Dalhuisen T, Gallego Márquez N, Dziarski AD, Uy J, Walch SN, Thomas SA, Fehrman EA, Romero AE, Zelaya AS, Akasreku EA, Adeagbo TV, Pasetes EC, Akbas SY, Azola AM, Deeks SG, Kelly JD, Martin JN, Henrich TJ, Landay AL, Peluso MJ, Antar AAR

Measurement of circulating viral antigens post-SARS-CoV-2 infection in a multicohort study.

Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases

Swank Z, Borberg E, Chen Y, Senussi Y, Chalise S, Manickas-Hill Z, Yu XG, Li JZ, Alter G, Henrich TJ, Kelly JD, Hoh R, Goldberg SA, Deeks SG, Martin JN, Peluso MJ, Talla A, Li X, Skene P, Bumol TF, Torgerson TR, Czartoski JL, McElrath MJ, Karlson EW, Walt DR, RECOVER consortium authors

Early biological markers of post-acute sequelae of SARS-CoV-2 infection.

Nature communications

Lu S, Peluso MJ, Glidden DV, Davidson MC, Lugtu K, Pineda-Ramirez J, Tassetto M, Garcia-Knight M, Zhang A, Goldberg SA, Chen JY, Fortes-Cobby M, Park S, Martinez A, So M, Donovan A, Viswanathan B, Hoh R, Donohue K, McIlwain DR, Gaudiliere B, Anglin K, Yee BC, Chenna A, Winslow JW, Petropoulos CJ, Deeks SG, Briggs-Hagen M, Andino R, Midgley CM, Martin JN, Saydah S, Kelly JD

Differentiation of Prior SARS-CoV-2 Infection and Postacute Sequelae by Standard Clinical Laboratory Measurements in the RECOVER Cohort.

Annals of internal medicine

Erlandson KM, Geng LN, Selvaggi CA, Thaweethai T, Chen P, Erdmann NB, Goldman JD, Henrich TJ, Hornig M, Karlson EW, Katz SD, Kim C, Cribbs SK, Laiyemo AO, Letts R, Lin JY, Marathe J, Parthasarathy S, Patterson TF, Taylor BD, Duffy ER, Haack M, Julg B, Maranga G, Hernandez C, Singer NG, Han J, Pemu P, Brim H, Ashktorab H, Charney AW, Wisnivesky J, Lin JJ, Chu HY, Go M, Singh U, Levitan EB, Goepfert PA, Nikolich JŽ, Hsu H, Peluso MJ, Kelly JD, Okumura MJ, Flaherman VJ, Quigley JG, Krishnan JA, Scholand MB, Hess R, Metz TD, Costantine MM, Rouse DJ, Taylor BS, Goldberg MP, Marshall GD, Wood J, Warren D, Horwitz L, Foulkes AS, McComsey GA, RECOVER-Adult Cohort

Tissue-based T cell activation and viral RNA persist for up to 2 years after SARS-CoV-2 infection.

Science translational medicine

Peluso MJ, Ryder D, Flavell RR, Wang Y, Levi J, LaFranchi BH, Deveau TM, Buck AM, Munter SE, Asare KA, Aslam M, Koch W, Szabo G, Hoh R, Deswal M, Rodriguez AE, Buitrago M, Tai V, Shrestha U, Lu S, Goldberg SA, Dalhuisen T, Vasquez JJ, Durstenfeld MS, Hsue PY, Kelly JD, Kumar N, Martin JN, Gambhir A, Somsouk M, Seo Y, Deeks SG, Laszik ZG, VanBrocklin HF, Henrich TJ

Re-thinking all-cause COVID-19 hospitalizations as a surrogate measure for severe illness in observational surveillance studies.

Scientific reports

Kelly JD, Leonard S, Boscardin WJ, Hoggatt KJ, Lum EN, Austin CC, Byers AL, Tien PC, Bravata DM, Keyhani S

Prevalence, patterns, and predictors of SARS-CoV-2 RNA and culturable virus in tears of case-ascertained household cohort.

American journal of ophthalmology

So M, Goldberg SA, Lu S, Garcia-Knight M, Davidson MC, Tassetto M, Murray VW, Anglin K, Pineda-Ramirez J, Chen JY, Rugart PR, Richardson ET, Hagen MB, Midgley CM, Andino R, Seitzman GD, Gonzales J, Peluso MJ, Martin JN, Kelly JD

Infection prevention and control studies for care of patients with suspected or confirmed filovirus disease in healthcare settings, with focus on Ebola and Marburg: an integrative review.

BMJ public health

Frankfurter RG, Willet V, Richardson ET, Rutherford GW, Baller A, Daniel Kelly J

Plasma-based antigen persistence in the post-acute phase of COVID-19.

The Lancet. Infectious diseases

Peluso MJ, Swank ZN, Goldberg SA, Lu S, Dalhuisen T, Borberg E, Senussi Y, Luna MA, Chang Song C, Clark A, Zamora A, Lew M, Viswanathan B, Huang B, Anglin K, Hoh R, Hsue PY, Durstenfeld MS, Spinelli MA, Glidden DV, Henrich TJ, Kelly JD, Deeks SG, Walt DR, Martin JN

Comparing frequency of booster vaccination to prevent severe COVID-19 by risk group in the United States.

Nature communications

Park HJ, Gonsalves GS, Tan ST, Kelly JD, Rutherford GW, Wachter RM, Schechter R, Paltiel AD, Lo NC

Representations of an Ebola 'outbreak' through Story Technologies.

BMJ global health

Frankfurter R, Malik M, Kpakiwa SD, McGinnis T, Malik MM, Chitre S, Barrie MB, Dibba Y, Mulalu L, Baldwinson R, Fallah M, Rashid I, Kelly JD, Richardson ET

Long COVID manifests with T cell dysregulation, inflammation and an uncoordinated adaptive immune response to SARS-CoV-2.

Nature immunology

Yin K, Peluso MJ, Luo X, Thomas R, Shin MG, Neidleman J, Andrew A, Young KC, Ma T, Hoh R, Anglin K, Huang B, Argueta U, Lopez M, Valdivieso D, Asare K, Deveau TM, Munter SE, Ibrahim R, Ständker L, Lu S, Goldberg SA, Lee SA, Lynch KL, Kelly JD, Martin JN, Münch J, Deeks SG, Henrich TJ, Roan NR

Plasma-based antigen persistence in the post-acute phase of SARS-CoV-2 infection.

medRxiv : the preprint server for health sciences

The breadth of the neutralizing antibody response to original SARS-CoV-2 infection is linked to the presence of Long COVID symptoms.

Journal of medical virology

Buck AM, Deitchman AN, Takahashi S, Lu S, Goldberg SA, Bodansky A, Kung A, Hoh R, Williams MC, Kerbleski M, Maison DP, Deveau TM, Munter SE, Lombardo J, Wrin T, Petropoulos CJ, Durstenfeld MS, Hsue PY, Kelly JD, Greenhouse B, Martin JN, Deeks SG, Peluso MJ, Henrich TJ

SARS-CoV-2 Serology Across Scales: A Framework for Unbiased Estimation of Cumulative Incidence Incorporating Antibody Kinetics and Epidemic Recency.

American journal of epidemiology

Takahashi S, Peluso MJ, Hakim J, Turcios K, Janson O, Routledge I, Busch MP, Hoh R, Tai V, Kelly JD, Martin JN, Deeks SG, Henrich TJ, Greenhouse B, Rodríguez-Barraquer I

Reduced Exercise Capacity, Chronotropic Incompetence, and Early Systemic Inflammation in Cardiopulmonary Phenotype Long Coronavirus Disease 2019.

The Journal of infectious diseases

Durstenfeld MS, Peluso MJ, Kaveti P, Hill C, Li D, Sander E, Swaminathan S, Arechiga VM, Lu S, Goldberg SA, Hoh R, Chenna A, Yee BC, Winslow JW, Petropoulos CJ, Kelly JD, Glidden DV, Henrich TJ, Martin JN, Lee YJ, Aras MA, Long CS, Grandis DJ, Deeks SG, Hsue PY

Longitudinal clinical phenotyping of post COVID condition in Mexican adults recovering from severe COVID-19: a prospective cohort study.

Frontiers in medicine

Núñez I, Gillard J, Fragoso-Saavedra S, Feyaerts D, Islas-Weinstein L, Gallegos-Guzmán AA, Valente-García U, Meyerowitz J, Kelly JD, Chen H, Ganio E, Benkendorff A, Flores-Gouyonnet J, Dammann-Beltrán P, Heredia-González JF, Rangel-Gutiérrez GA, Blish CA, Nadeau KC, Nolan G, Crispín JC, McIlwain DR, Gaudillière B, Valdés-Ferrer SI

Long COVID manifests with T cell dysregulation, inflammation, and an uncoordinated adaptive immune response to SARS-CoV-2.

bioRxiv : the preprint server for biology

Yin K, Peluso MJ, Luo X, Thomas R, Shin MG, Neidleman J, Andrew A, Young K, Ma T, Hoh R, Anglin K, Huang B, Argueta U, Lopez M, Valdivieso D, Asare K, Deveau TM, Munter SE, Ibrahim R, Ständker L, Lu S, Goldberg SA, Lee SA, Lynch KL, Kelly JD, Martin JN, Münch J, Deeks SG, Henrich TJ, Roan NR

Multimodal Molecular Imaging Reveals Tissue-Based T Cell Activation and Viral RNA Persistence for Up to 2 Years Following COVID-19.

medRxiv : the preprint server for health sciences

Peluso MJ, Ryder D, Flavell R, Wang Y, Levi J, LaFranchi BH, Deveau TM, Buck AM, Munter SE, Asare KA, Aslam M, Koch W, Szabo G, Hoh R, Deswal M, Rodriguez A, Buitrago M, Tai V, Shrestha U, Lu S, Goldberg SA, Dalhuisen T, Durstenfeld MS, Hsue PY, Kelly JD, Kumar N, Martin JN, Gambir A, Somsouk M, Seo Y, Deeks SG, Laszik ZG, VanBrocklin HF, Henrich TJ

Viral Determinants of Acute COVID-19 Symptoms in a Nonhospitalized Adult Population in the Pre-Omicron Era.

Open Forum Infectious Diseases

Goldberg SA, Lu S, Garcia-Knight M, Davidson MC, Tassetto M, Anglin K, Pineda-Ramirez J, Chen JY, Rugart PR, Mathur S, Forman CA, Donohue KC, Abedi GR, Saydah S, Briggs-Hagen M, Midgley CM, Andino R, Peluso MJ, Glidden DV, Martin JN, Kelly JD

A common allele of HLA is associated with asymptomatic SARS-CoV-2 infection.

Nature

Augusto DG, Murdolo LD, Chatzileontiadou DSM, Sabatino JJ, Yusufali T, Peyser ND, Butcher X, Kizer K, Guthrie K, Murray VW, Pae V, Sarvadhavabhatla S, Beltran F, Gill GS, Lynch KL, Yun C, Maguire CT, Peluso MJ, Hoh R, Henrich TJ, Deeks SG, Davidson M, Lu S, Goldberg SA, Kelly JD, Martin JN, Vierra-Green CA, Spellman SR, Langton DJ, Dewar-Oldis MJ, Smith C, Barnard PJ, Lee S, Marcus GM, Olgin JE, Pletcher MJ, Maiers M, Gras S, Hollenbach JA

SARS-CoV-2 post-acute sequelae in previously hospitalised patients: systematic literature review and meta-analysis.

European respiratory review : an official journal of the European Respiratory Society

Kelly JD, Curteis T, Rawal A, Murton M, Clark LJ, Jafry Z, Shah-Gupta R, Berry M, Espinueva A, Chen L, Abdelghany M, Sweeney DA, Quint JK

Performance of Blood-Based Nucleocapsid Antigen Tests for Diagnosis of Severe Acute Respiratory Syndrome Coronavirus 2 Infection and Infectious Viral Shedding: A Systematic Review.

Open Forum Infectious Diseases

Mathur S, So M, Tahir P, Peluso MJ, Martin JN, Kelly JD

Risk of herpes zoster ophthalmicus after COVID-19 vaccination in a large US healthcare claims database.

American journal of ophthalmology

Akpandak I, Sechrist SJ, Miller DC, Sun Y, Arnold BF, Kelly JD, Acharya NR

Researching COVID to Enhance Recovery (RECOVER) adult study protocol: Rationale, objectives, and design.

PloS one

Horwitz LI, Thaweethai T, Brosnahan SB, Cicek MS, Fitzgerald ML, Goldman JD, Hess R, Hodder SL, Jacoby VL, Jordan MR, Krishnan JA, Laiyemo AO, Metz TD, Nichols L, Patzer RE, Sekar A, Singer NG, Stiles LE, Taylor BS, Ahmed S, Algren HA, Anglin K, Aponte-Soto L, Ashktorab H, Bassett IV, Bedi B, Bhadelia N, Bime C, Bind MC, Black LJ, Blomkalns AL, Brim H, Castro M, Chan J, Charney AW, Chen BK, Chen LQ, Chen P, Chestek D, Chibnik LB, Chow DC, Chu HY, Clifton RG, Collins S, Costantine MM, Cribbs SK, Deeks SG, Dickinson JD, Donohue SE, Durstenfeld MS, Emery IF, Erlandson KM, Facelli JC, Farah-Abraham R, Finn AV, Fischer MS, Flaherman VJ, Fleurimont J, Fonseca V, Gallagher EJ, Gander JC, Gennaro ML, Gibson KS, Go M, Goodman SN, Granger JP, Greenway FL, Hafner JW, Han JE, Harkins MS, Hauser KSP, Heath JR, Hernandez CR, Ho O, Hoffman MK, Hoover SE, Horowitz CR, Hsu H, Hsue PY, Hughes BL, Jagannathan P, James JA, John J, Jolley S, Judd SE, Juskowich JJ, Kanjilal DG, Karlson EW, Katz SD, Kelly JD, Kelly SW, Kim AY, Kirwan JP, Knox KS, Kumar A, Lamendola-Essel MF, Lanca M, Lee-Lannotti JK, Lefebvre RC, Levy BD, Lin JY, Logarbo BP, Logue JK, Longo MT, Luciano CA, Lutrick K, Malakooti SK, Mallett G, Maranga G, Marathe JG, Marconi VC, Marshall GD, Martin CF, Martin JN, May HT, McComsey GA, McDonald D, Mendez-Figueroa H, Miele L, Mittleman MA, Mohandas S, Mouchati C, Mullington JM, Nadkarni GN, Nahin ER, Neuman RB, Newman LT, Nguyen A, Nikolich JZ, Ofotokun I, Ogbogu PU, Palatnik A, Palomares KTS, Parimon T, Parry S, Parthasarathy S, Patterson TF, Pearman A, Peluso MJ, Pemu P, Pettker CM, Plunkett BA, Pogreba-Brown K, Poppas A, Porterfield JZ, Quigley JG, Quinn DK, Raissy H, Rebello CJ, Reddy UM, Reece R, Reeder HT, Rischard FP, Rosas JM, Rosen CJ, Rouphael NG, Rouse DJ, Ruff AM, Saint Jean C, Sandoval GJ, Santana JL, Schlater SM, Sciurba FC, Selvaggi C, Seshadri S, Sesso HD, Shah DP, Shemesh E, Sherif ZA, Shinnick DJ, Simhan HN, Singh U, Sowles A, Subbian V, Sun J, Suthar MS, Teunis LJ, Thorp JM, Ticotsky A, Tita ATN, Tragus R, Tuttle KR, Urdaneta AE, Utz PJ, VanWagoner TM, Vasey A, Vernon SD, Vidal C, Walker T, Ward HD, Warren DE, Weeks RM, Weiner SJ, Weyer JC, Wheeler JL, Whiteheart SW, Wiley Z, Williams NJ, Wisnivesky JP, Wood JC, Yee LM, Young NM, Zisis SN, Foulkes AS

Longitudinal and quantitative fecal shedding dynamics of SARS-CoV-2, pepper mild mottle virus, and crAssphage.

mSphere

Arts PJ, Kelly JD, Midgley CM, Anglin K, Lu S, Abedi GR, Andino R, Bakker KM, Banman B, Boehm AB, Briggs-Hagen M, Brouwer AF, Davidson MC, Eisenberg MC, Garcia-Knight M, Knight S, Peluso MJ, Pineda-Ramirez J, Diaz Sanchez R, Saydah S, Tassetto M, Martin JN, Wigginton KR

Association of Culturable-Virus Detection and Household Transmission of SARS-CoV-2, California and Tennessee, 2020-2022.

The Journal of infectious diseases

Deyoe JE, Kelly JD, Grijalva CG, Bonenfant G, Lu S, Anglin K, Garcia-Knight M, Pineda-Ramirez J, Hagen MB, Saydah S, Abedi GR, Goldberg SA, Tassetto M, Zhang A, Donohue KC, Davidson MC, Sanchez RD, Djomaleu M, Mathur S, Shak JR, Deeks SG, Peluso MJ, Chiu CY, Zhu Y, Halasa NB, Chappell JD, Mellis A, Reed C, Andino R, Martin JN, Zhou B, Talbot HK, Midgley CM, Rolfes MA

Development of a Definition of Postacute Sequelae of SARS-CoV-2 Infection.

JAMA

Thaweethai T, Jolley SE, Karlson EW, Levitan EB, Levy B, McComsey GA, McCorkell L, Nadkarni GN, Parthasarathy S, Singh U, Walker TA, Selvaggi CA, Shinnick DJ, Schulte CCM, Atchley-Challenner R, Alba GA, Alicic R, Altman N, Anglin K, Argueta U, Ashktorab H, Baslet G, Bassett IV, Bateman L, Bedi B, Bhattacharyya S, Bind MA, Blomkalns AL, Bonilla H, Bush PA, Castro M, Chan J, Charney AW, Chen P, Chibnik LB, Chu HY, Clifton RG, Costantine MM, Cribbs SK, Davila Nieves SI, Deeks SG, Duven A, Emery IF, Erdmann N, Erlandson KM, Ernst KC, Farah-Abraham R, Farner CE, Feuerriegel EM, Fleurimont J, Fonseca V, Franko N, Gainer V, Gander JC, Gardner EM, Geng LN, Gibson KS, Go M, Goldman JD, Grebe H, Greenway FL, Habli M, Hafner J, Han JE, Hanson KA, Heath J, Hernandez C, Hess R, Hodder SL, Hoffman MK, Hoover SE, Huang B, Hughes BL, Jagannathan P, John J, Jordan MR, Katz SD, Kaufman ES, Kelly JD, Kelly SW, Kemp MM, Kirwan JP, Klein JD, Knox KS, Krishnan JA, Kumar A, Laiyemo AO, Lambert AA, Lanca M, Lee-Iannotti JK, Logarbo BP, Longo MT, Luciano CA, Lutrick K, Maley JH, Marathe JG, Marconi V, Marshall GD, Martin CF, Matusov Y, Mehari A, Mendez-Figueroa H, Mermelstein R, Metz TD, Morse R, Mosier J, Mouchati C, Mullington J, Murphy SN, Neuman RB, Nikolich JZ, Ofotokun I, Ojemakinde E, Palatnik A, Palomares K, Parimon T, Parry S, Patterson JE, Patterson TF, Patzer RE, Peluso MJ, Pemu P, Pettker CM, Plunkett BA, Pogreba-Brown K, Poppas A, Quigley JG, Reddy U, Reece R, Reeder H, Reeves WB, Reiman EM, Rischard F, Rosand J, Rouse DJ, Ruff A, Saade G, Sandoval GJ, Schlater SM, Shepherd F, Sherif ZA, Simhan H, Singer NG, Skupski DW, Sowles A, Sparks JA, Sukhera FI, Taylor BS, Teunis L, Thomas RJ, Thorp JM, Thuluvath P, Ticotsky A, Tita AT, Tuttle KR, Urdaneta AE, Valdivieso D, VanWagoner TM, Vasey A, Verduzco-Gutierrez M, Wallace ZS, Ward HD, Warren DE, Weiner SJ, Welch S, Whiteheart SW, Wiley Z, Wisnivesky JP, Yee LM, Zisis S, Horwitz LI, Foulkes AS, RECOVER Consortium

Autoantigen profiling reveals a shared post-COVID signature in fully recovered and long COVID patients.

JCI insight

Bodansky A, Wang CY, Saxena A, Mitchell A, Kung AF, Takahashi S, Anglin K, Huang B, Hoh R, Lu S, Goldberg SA, Romero J, Tran B, Kirtikar R, Grebe H, So M, Greenhouse B, Durstenfeld MS, Hsue PY, Hellmuth J, Kelly JD, Martin JN, Anderson MS, Deeks SG, Henrich TJ, DeRisi JL, Peluso MJ

Comparative mRNA booster effectiveness against death or hospitalization with COVID-19 pneumonia across at-risk US Veteran populations.

Nature communications

Kelly JD, Leonard S, Boscardin WJ, Hoggatt KJ, Lum EN, Austin CC, Byers A, Tien PC, Austin PC, Bravata DM, Keyhani S

MultiSero: An Open-Source Multiplex-ELISA Platform for Measuring Antibody Responses to Infection.

Pathogens (Basel, Switzerland)

Byrum JR, Waltari E, Janson O, Guo SM, Folkesson J, Chhun BB, Vinden J, Ivanov IE, Forst ML, Li H, Larson AG, Blackmon L, Liu Z, Wu W, Ahyong V, Tato CM, McCutcheon KM, Hoh R, Kelly JD, Martin JN, Peluso MJ, Henrich TJ, Deeks SG, Prakash M, Greenhouse B, Mehta SB, Pak JE

Identifying pauci-/asymptomatic and unrecognized Ebola virus disease among close contacts based on exposure risk assessments and screening algorithms.

The Journal of infectious diseases

Gayedyu-Dennis D, Fallah MP, Drew C, Badio M, Moses JS, Fayiah T, Johnson K, Richardson ET, Weiser SD, Porco TC, Martin JN, Sneller MC, Rutherford GW, Reilly C, Lindan CP, Kelly JD

The Breadth of the Neutralizing Antibody Response to Original SARS-CoV-2 Infection is Linked to the Presence of Long COVID Symptoms.

medRxiv : the preprint server for health sciences

Buck AM, Deitchman AN, Takahashi S, Lu S, Goldberg SA, Hoh R, Williams MC, Kerbleski M, Deveau TM, Munter SE, Lombardo J, Wrin T, Petropoulos CJ, Durstenfeld MS, Hsue PY, Kelly JD, Greenhouse B, Martin JN, Deeks SG, Peluso MJ, Henrich TJ

Impact of COVID-19 on the Reported Case Volume of Orthopaedic Sports Medicine Fellows in the United States.

Orthopaedic journal of sports medicine

Silvestre J, Nelson CL, Kelly JD, Thompson TL

Autoantigen profiling reveals a shared post-COVID signature in fully recovered and Long COVID patients.

medRxiv : the preprint server for health sciences

Bodansky A, Wang CY, Saxena A, Mitchell A, Takahashi S, Anglin K, Huang B, Hoh R, Lu S, Goldberg SA, Romero J, Tran B, Kirtikar R, Grebe H, So M, Greenhouse B, Durstenfeld MS, Hsue PY, Hellmuth J, Kelly JD, Martin JN, Anderson MS, Deeks SG, Henrich TJ, DeRisi JL, Peluso MJ

Chronic viral coinfections differentially affect the likelihood of developing long COVID.

The Journal of clinical investigation

Peluso MJ, Deveau TM, Munter SE, Ryder D, Buck A, Beck-Engeser G, Chan F, Lu S, Goldberg SA, Hoh R, Tai V, Torres L, Iyer NS, Deswal M, Ngo LH, Buitrago M, Rodriguez A, Chen JY, Yee BC, Chenna A, Winslow JW, Petropoulos CJ, Deitchman AN, Hellmuth J, Spinelli MA, Durstenfeld MS, Hsue PY, Kelly JD, Martin JN, Deeks SG, Hunt PW, Henrich TJ

Low Prevalence of Interferon α Autoantibodies in People Experiencing Symptoms of Post-Coronavirus Disease 2019 (COVID-19) Conditions, or Long COVID.

The Journal of infectious diseases

Peluso MJ, Mitchell A, Wang CY, Takahashi S, Hoh R, Tai V, Durstenfeld MS, Hsue PY, Kelly JD, Martin JN, Wilson MR, Greenhouse B, Deeks SG, DeRisi JL, Henrich TJ

Neutralizing Immunity Induced Against the Omicron BA.1 and BA.2 Variants in Vaccine Breakthrough Infections.

The Journal of infectious diseases

Brazer N, Morris MK, Servellita V, Anglin K, Saldhi P, Garcia-Knight M, Bethancourt S, Sotomayor-Gonzalez A, Wang B, Foresythe A, Nguyen J, Gliwa AS, Pineda-Ramirez J, Sanchez RD, Zhang Y, Ott M, Wadford DA, Andino R, Kelly JD, Hanson C, Chiu CY

Social Network Analysis of Ebola Virus Disease During the 2014 Outbreak in Sukudu, Sierra Leone.

Open Forum Infectious Diseases

Hazel A, Davidson MC, Rogers A, Barrie MB, Freeman A, Mbayoh M, Kamara M, Blumberg S, Lietman TM, Rutherford GW, Jones JH, Porco TC, Richardson ET, Kelly JD

Assessment of Herpes Zoster Risk Among Recipients of COVID-19 Vaccine.

JAMA network open

Akpandak I, Miller DC, Sun Y, Arnold BF, Kelly JD, Acharya NR

Long-term consequences of food insecurity among Ebola virus disease-affected households after the 2013-2016 epidemic in rural communities of Kono District, Sierra Leone: A qualitative study.

PLOS global public health

Djomaleu ML, Rogers AB, Barrie MB, Rutherford GW, Weiser SD, Kelly JD

Evaluation of Severe Acute Respiratory Syndrome Coronavirus 2 Nucleocapsid Antigen in the Blood as a Diagnostic Test for Infection and Infectious Viral Shedding.

Open Forum Infectious Diseases

Mathur S, Davidson MC, Anglin K, Lu S, Goldberg SA, Garcia-Knight M, Tassetto M, Zhang A, Romero M, Pineda-Ramirez J, Diaz-Sanchez R, Rugart P, Chen JY, Donohue K, Shak JR, Chenna A, Winslow JW, Petropoulos CJ, Yee BC, Lambert J, Glidden DV, Rutherford GW, Deeks SG, Peluso MJ, Andino R, Martin JN, Kelly JD

Incidence of Severe COVID-19 Illness Following Vaccination and Booster With BNT162b2, mRNA-1273, and Ad26.COV2.S Vaccines.

JAMA

Kelly JD, Leonard S, Hoggatt KJ, Boscardin WJ, Lum EN, Moss-Vazquez TA, Andino R, Wong JK, Byers A, Bravata DM, Tien PC, Keyhani S

Magnitude and determinants of SARS-CoV-2 household transmission: a longitudinal cohort study.

Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Daniel Kelly J, Lu S, Anglin K, Garcia-Knight M, Pineda-Ramirez J, Goldberg SA, Tassetto M, Zhang A, Donohue K, Davidson MC, Romero M, Sanchez RD, Djomaleu M, Mathur S, Chen JY, Forman CA, Servellita V, Montejano RD, Shak JR, Rutherford GW, Deeks SG, Abedi GR, Rolfes MA, Saydah S, Briggs-Hagen M, Peluso MJ, Chiu C, Midgley CM, Andino R, Martin JN

Markers of fungal translocation are elevated during post-acute sequelae of SARS-CoV-2 and induce NF-κB signaling.

JCI insight

Giron LB, Peluso MJ, Ding J, Kenny G, Zilberstein NF, Koshy J, Hong KY, Rasmussen H, Miller GE, Bishehsari F, Balk RA, Moy JN, Hoh R, Lu S, Goldman AR, Tang HY, Yee BC, Chenna A, Winslow JW, Petropoulos CJ, Kelly JD, Wasse H, Martin JN, Liu Q, Keshavarzian A, Landay A, Deeks SG, Henrich TJ, Abdel-Mohsen M

Infectious viral shedding of SARS-CoV-2 Delta following vaccination: A longitudinal cohort study.

PLoS pathogens

Garcia-Knight M, Anglin K, Tassetto M, Lu S, Zhang A, Goldberg SA, Catching A, Davidson MC, Shak JR, Romero M, Pineda-Ramirez J, Diaz-Sanchez R, Rugart P, Donohue K, Massachi J, Sans HM, Djomaleu M, Mathur S, Servellita V, McIlwain D, Gaudiliere B, Chen J, Martinez EO, Tavs JM, Bronstone G, Weiss J, Watson JT, Briggs-Hagen M, Abedi GR, Rutherford GW, Deeks SG, Chiu C, Saydah S, Peluso MJ, Midgley CM, Martin JN, Andino R, Kelly JD

Detection of Higher Cycle Threshold Values in Culturable SARS-CoV-2 Omicron BA.1 Sublineage Compared with Pre-Omicron Variant Specimens - San Francisco Bay Area, California, July 2021-March 2022.

MMWR. Morbidity and mortality weekly report

Tassetto M, Garcia-Knight M, Anglin K, Lu S, Zhang A, Romero M, Pineda-Ramirez J, Sanchez RD, Donohue KC, Pfister K, Chan C, Saydah S, Briggs-Hagen M, Peluso MJ, Martin JN, Andino R, Midgley CM, Kelly JD

Postacute sequelae and adaptive immune responses in people with HIV recovering from SARS-COV-2 infection.

AIDS (London, England)

Peluso MJ, Spinelli MA, Deveau TM, Forman CA, Munter SE, Mathur S, Tang AF, Lu S, Goldberg SA, Arreguin MI, Hoh R, Tai V, Chen JY, Martinez EO, Yee BC, Chenna A, Winslow JW, Petropoulos CJ, Sette A, Weiskopf D, Kumar N, Lynch KL, Hunt PW, Durstenfeld MS, Hsue PY, Kelly JD, Martin JN, Glidden DV, Gandhi M, Deeks SG, Rutishauser RL, Henrich TJ

Integrated plasma proteomic and single-cell immune signaling network signatures demarcate mild, moderate, and severe COVID-19.

Cell reports. Medicine

Feyaerts D, Hédou J, Gillard J, Chen H, Tsai ES, Peterson LS, Ando K, Manohar M, Do E, Dhondalay GKR, Fitzpatrick J, Artandi M, Chang I, Snow TT, Chinthrajah RS, Warren CM, Wittman R, Meyerowitz JG, Ganio EA, Stelzer IA, Han X, Verdonk F, Gaudillière DK, Mukherjee N, Tsai AS, Rumer KK, Jacobsen DR, Bjornson-Hooper ZB, Jiang S, Saavedra SF, Valdés Ferrer SI, Kelly JD, Furman D, Aghaeepour N, Angst MS, Boyd SD, Pinsky BA, Nolan GP, Nadeau KC, Gaudillière B, McIlwain DR

Effect of Oral Nirmatrelvir on Long COVID Symptoms: 4 Cases and Rationale for Systematic Studies.

Pathogens & immunity

Peluso MJ, Anglin K, Durstenfeld MS, Martin JN, Kelly JD, Hsue PY, Henrich TJ, Deeks SG

Plasma Markers of Neurologic Injury and Inflammation in People With Self-Reported Neurologic Postacute Sequelae of SARS-CoV-2 Infection.

Neurology(R) neuroimmunology & neuroinflammation

Peluso MJ, Sans HM, Forman CA, Nylander AN, Ho HE, Lu S, Goldberg SA, Hoh R, Tai V, Munter SE, Chenna A, Yee BC, Winslow JW, Petropoulos CJ, Martin JN, Kelly JD, Durstenfeld MS, Hsue PY, Hunt PW, Greene M, Chow FC, Hellmuth J, Henrich TJ, Glidden DV, Deeks SG

Role of antibodies, inflammatory markers, and echocardiographic findings in postacute cardiopulmonary symptoms after SARS-CoV-2 infection.

JCI insight

Durstenfeld MS, Peluso MJ, Kelly JD, Win S, Swaminathan S, Li D, Arechiga VM, Zepeda V, Sun K, Shao S, Hill C, Arreguin MI, Lu S, Hoh R, Tai V, Chenna A, Yee BC, Winslow JW, Petropoulos CJ, Kornak J, Henrich TJ, Martin JN, Deeks SG, Hsue PY

Correction: Zoonotic risk factors associated with seroprevalence of Ebola virus GP antibodies in the absence of diagnosed Ebola virus disease in the Democratic Republic of Congo.

PLoS neglected tropical diseases

Bratcher A, Hoff NA, Doshi RH, Gadoth A, Halbrook M, Mukadi P, Musene K, Ilunga-Kebela B, Spencer D, Bramble MS, McIlwain D, Kelly JD, Mukadi D, Kingebeni PM, Ahuka S, Okitolonda-Wemakoy E, -Jacques Muyembe-Tamfum J, Rimoin AW

Clinical sequelae among individuals with pauci-symptomatic or asymptomatic Ebola virus infection and unrecognised Ebola virus disease in Liberia: a longitudinal cohort study.

The Lancet. Infectious diseases

Kelly JD, Van Ryn C, Badio M, Fayiah T, Johnson K, Gayedyu-Dennis D, Weiser SD, Porco TC, Martin JN, Sneller MC, Rutherford GW, Reilly C, Fallah MP, Moses JS

SARS-CoV-2 and Mitochondrial Proteins in Neural-Derived Exosomes of COVID-19.

Annals of neurology

Peluso MJ, Deeks SG, Mustapic M, Kapogiannis D, Henrich TJ, Lu S, Goldberg SA, Hoh R, Chen JY, Martinez EO, Kelly JD, Martin JN, Goetzl EJ

Association of Lower Exposure Risk With Paucisymptomatic/Asymptomatic Infection, Less Severe Disease, and Unrecognized Ebola Virus Disease: A Seroepidemiological Study.

Open Forum Infectious Diseases

Kelly JD, Frankfurter RG, Tavs JM, Barrie MB, McGinnis T, Kamara M, Freeman A, Quiwah K, Davidson MC, Dighero-Kemp B, Gichini H, Elliott E, Reilly C, Hensley LE, Lane HC, Weiser SD, Porco TC, Rutherford GW, Richardson ET

Immunogenicity of rVSV?G-ZEBOV-GP Ebola vaccination in exposed and potentially exposed persons in the Democratic Republic of the Congo.

Proceedings of the National Academy of Sciences of the United States of America

Hoff NA, Bratcher A, Kelly JD, Musene K, Kompany JP, Kabamba M, Mbala-Kingebeni P, Dighero-Kemp B, Kocher G, Elliott E, Reilly C, Halbrook M, Ilunga Kebela B, Gadoth A, Ngoie Mwamba G, Tambu M, McIlwain DR, Mukadi P, Hensley LE, Ahuka-Mundeke S, Rutherford GW, Muyembe-Tamfum JJ, Rimoin AW

A post-outbreak assessment of exposure proximity and Ebola virus disease-related stigma among community members in Kono District, Sierra Leone: A cross-sectional study.

SSM. Mental health

Davidson MC, Lu S, Barrie MB, Freeman A, Mbayoh M, Kamara M, Tsai AC, Crea T, Rutherford GW, Weiser SD, Kelly JD

Risk factors and abnormal cerebrospinal fluid associate with cognitive symptoms after mild COVID-19.

Annals of clinical and translational neurology

Apple AC, Oddi A, Peluso MJ, Asken BM, Henrich TJ, Kelly JD, Pleasure SJ, Deeks SG, Allen IE, Martin JN, Ndhlovu LC, Miller BL, Stephens ML, Hellmuth J

Comparing Azithromycin to Amoxicillin in the Management of Uncomplicated Severe Acute Malnutrition in Burkina Faso: A Pilot Randomized Trial.

The American journal of tropical medicine and hygiene

O'Brien KS, Sié A, Dah C, Ourohiré M, Ouedraogo M, Boudo V, Arzika A, Lebas E, Nyatigo F, Godwin W, Kelly JD, Arnold BF, Oldenburg CE

Persistence, Magnitude, and Patterns of Postacute Symptoms and Quality of Life Following Onset of SARS-CoV-2 Infection: Cohort Description and Approaches for Measurement.

Open Forum Infectious Diseases

Peluso MJ, Kelly JD, Lu S, Goldberg SA, Davidson MC, Mathur S, Durstenfeld MS, Spinelli MA, Hoh R, Tai V, Fehrman EA, Torres L, Hernandez Y, Williams MC, Arreguin MI, Ngo LH, Deswal M, Munter SE, Martinez EO, Anglin KA, Romero MD, Tavs J, Rugart PR, Chen JY, Sans HM, Murray VW, Ellis PK, Donohue KC, Massachi JA, Weiss JO, Mehdi I, Pineda-Ramirez J, Tang AF, Wenger MA, Assenzio MT, Yuan Y, Krone MR, Rutishauser RL, Rodriguez-Barraquer I, Greenhouse B, Sauceda JA, Gandhi M, Scheffler AW, Hsue PY, Henrich TJ, Deeks SG, Martin JN

Characterizing the COVID-19 Illness Experience to Inform the Study of Post-acute Sequelae and Recovery.

International journal of behavioral medicine

Santiago-Rodriguez EI, Maiorana A, Peluso MJ, Hoh R, Tai V, Fehrman EA, Hernandez Y, Torres L, Spinelli MA, Gandhi M, Kelly JD, Martin JN, Henrich TJ, Deeks SG, Sauceda JA

Markers of Immune Activation and Inflammation in Individuals With Postacute Sequelae of Severe Acute Respiratory Syndrome Coronavirus 2 Infection.

The Journal of infectious diseases

Peluso MJ, Lu S, Tang AF, Durstenfeld MS, Ho HE, Goldberg SA, Forman CA, Munter SE, Hoh R, Tai V, Chenna A, Yee BC, Winslow JW, Petropoulos CJ, Greenhouse B, Hunt PW, Hsue PY, Martin JN, Daniel Kelly J, Glidden DV, Deeks SG, Henrich TJ

Increasing Ebola transmission behaviors 6 months post-vaccination: Comparing vaccinated and unvaccinated populations near 2018 Mbandaka Ebola outbreak in the Democratic Republic of Congo.

Vaccine

Hoff NA, Bratcher A, Mukadi P, Ahuka S, Kabamba M, Musene K, Halbrook M, Dzogong C, Mwamba GN, Mbala P, Kelly JD, Kompany JP, Tambu M, Kaba D, Kebela-Ilunga B, Muyemebe-Tamfum JJ, Rimoin AW

SARS-CoV-2 antibody prevalence in Sierra Leone, March 2021: a cross-sectional, nationally representative, age-stratified serosurvey.

BMJ global health

Barrie MB, Lakoh S, Kelly JD, Kanu JS, Squire JS, Koroma Z, Bah S, Sankoh O, Brima A, Ansumana R, Goldberg SA, Chitre S, Osuagwu C, Frankfurter R, Maeda J, Barekye B, Numbere TW, Abdulaziz M, Mounts A, Blanton C, Singh T, Samai M, Vandi M, Richardson ET

Triangulating Evidence to Infer Pathways that Influence Ebola Virus Disease-Related Stigma and Clinical Findings among Survivors: An Observational Cohort Study.

The American journal of tropical medicine and hygiene

Kelly JD, Badio M, Drew C, Wilson B, Cooper JB, Glayweon M, Johnson K, Moses SJ, Dennis D, Torres JM, Oldenburg C, Davidson M, Huang CY, Steward WT, Sneller MC, Rutherford GW, Reilly C, Fallah MP, Weiser SD

SARS-CoV-2 serology across scales: a framework for unbiased seroprevalence estimation incorporating antibody kinetics and epidemic recency.

medRxiv : the preprint server for health sciences

Takahashi S, Peluso MJ, Hakim J, Turcios K, Janson O, Routledge I, Busch MP, Hoh R, Tai V, Kelly JD, Martin JN, Deeks SG, Henrich TJ, Greenhouse B, Rodríguez-Barraquer I

Zoonotic risk factors associated with seroprevalence of Ebola virus GP antibodies in the absence of diagnosed Ebola virus disease in the Democratic Republic of Congo.

PLoS neglected tropical diseases

Bratcher A, Hoff NA, Doshi RH, Gadoth A, Halbrook M, Mukadi P, Musene K, Ilunga-Kebela B, Spencer D, Bramble MS, McIlwan D, Kelly JD, Mukadi D, Kingebeni PM, Ahuka S, Okitolonda-Wemakoy E, Muyembe-Tamfum JJ, Rimoin AW

Severe Acute Respiratory Syndrome Coronavirus 2 Reinfection Cases Corroborated by Sequencing.

The American journal of tropical medicine and hygiene

Massachi J, Donohue KC, Kelly JD

Long-term SARS-CoV-2-specific immune and inflammatory responses in individuals recovering from COVID-19 with and without post-acute symptoms.

Cell reports

Peluso MJ, Deitchman AN, Torres L, Iyer NS, Munter SE, Nixon CC, Donatelli J, Thanh C, Takahashi S, Hakim J, Turcios K, Janson O, Hoh R, Tai V, Hernandez Y, Fehrman EA, Spinelli MA, Gandhi M, Trinh L, Wrin T, Petropoulos CJ, Aweeka FT, Rodriguez-Barraquer I, Kelly JD, Martin JN, Deeks SG, Greenhouse B, Rutishauser RL, Henrich TJ

SARS-CoV-2 antibody magnitude and detectability are driven by disease severity, timing, and assay.

Science advances

Peluso MJ, Takahashi S, Hakim J, Kelly JD, Torres L, Iyer NS, Turcios K, Janson O, Munter SE, Thanh C, Donatelli J, Nixon CC, Hoh R, Tai V, Fehrman EA, Hernandez Y, Spinelli MA, Gandhi M, Palafox MA, Vallari A, Rodgers MA, Prostko J, Hackett J, Trinh L, Wrin T, Petropoulos CJ, Chiu CY, Norris PJ, DiGermanio C, Stone M, Busch MP, Elledge SK, Zhou XX, Wells JA, Shu A, Kurtz TW, Pak JE, Wu W, Burbelo PD, Cohen JI, Rutishauser RL, Martin JN, Deeks SG, Henrich TJ, Rodriguez-Barraquer I, Greenhouse B

Equitable and Feasible Distribution of SARS-CoV-2 Vaccines for All in Africa.

The American journal of tropical medicine and hygiene

Rogers AB, Barrie MB, Fallah MP, Kelly JD

Association of Social and Behavioral Risk Factors With Mortality Among US Veterans With COVID-19.

JAMA network open

Kelly JD, Bravata DM, Bent S, Wray CM, Leonard SJ, Boscardin WJ, Myers LJ, Keyhani S

A telehealth-based randomized controlled trial: A model for outpatient trials of off-label medications during the COVID-19 pandemic.

Clinical trials (London, England)

Keyhani S, Kelly JD, Bent S, Boscardin WJ, Shlipak MG, Leonard S, Abraham A, Lum E, Lau N, Austin C, Oldenburg CE, Zillich A, Lopez L, Zhang Y, Lietman T, Bravata DM

Empiric use of anticoagulation in hospitalized patients with COVID-19: a propensity score-matched study of risks and benefits.

Biomarker research

Yu B, Gutierrez VP, Carlos A, Hoge G, Pillai A, Kelly JD, Menon V

Rapid implementation of a cohort for the study of post-acute sequelae of SARS-CoV-2 infection/COVID-19.

medRxiv : the preprint server for health sciences

Peluso MJ, Kelly JD, Lu S, Goldberg SA, Davidson MC, Mathur S, Durstenfeld MS, Spinelli MA, Hoh R, Tai V, Fehrman EA, Torres L, Hernandez Y, Williams MC, Arreguin MI, Bautista JA, Ngo LH, Deswal M, Munter SE, Martinez EO, Anglin KA, Romero MD, Tavs J, Rugart PR, Chen JY, Sans HM, Murray VW, Ellis PK, Donohue KC, Massachi JA, Weiss JO, Mehdi I, Pineda-Ramirez J, Tang AF, Wenger M, Assenzio M, Yuan Y, Krone M, Rutishauser RL, Rodriguez-Barraquer I, Greenhouse B, Sauceda JA, Gandhi M, Hsue PY, Henrich TJ, Deeks SG, Martin JN

Characterization and Biomarker Analyses of Post-COVID-19 Complications and Neurological Manifestations.

Cells

Sun B, Tang N, Peluso MJ, Iyer NS, Torres L, Donatelli JL, Munter SE, Nixon CC, Rutishauser RL, Rodriguez-Barraquer I, Greenhouse B, Kelly JD, Martin JN, Deeks SG, Henrich TJ, Pulliam L

Integrated plasma proteomic and single-cell immune signaling network signatures demarcate mild, moderate, and severe COVID-19.

bioRxiv : the preprint server for biology

Feyaerts D, Hédou J, Gillard J, Chen H, Tsai ES, Peterson LS, Ando K, Manohar M, Do E, Dhondalay GKR, Fitzpatrick J, Artandi M, Chang I, Snow TT, Chinthrajah RS, Warren CM, Wittman R, Meyerowitz JG, Ganio EA, Stelzer IA, Han X, Verdonk F, Gaudillière DK, Mukherjee N, Tsai AS, Rumer KK, Jiang S, Valdés Ferrer SI, Kelly JD, Furman D, Aghaeepour N, Angst MS, Boyd SD, Pinsky BA, Nolan GP, Nadeau KC, Gaudillière B, McIlwain DR

Persistent COVID-19-associated neurocognitive symptoms in non-hospitalized patients.

Journal of neurovirology

Hellmuth J, Barnett TA, Asken BM, Kelly JD, Torres L, Stephens ML, Greenhouse B, Martin JN, Chow FC, Deeks SG, Greene M, Miller BL, Annan W, Henrich TJ, Peluso MJ

Prone Positioning in Moderate to Severe Acute Respiratory Distress Syndrome Due to COVID-19: A Cohort Study and Analysis of Physiology.

Journal of intensive care medicine

Shelhamer MC, Wesson PD, Solari IL, Jensen DL, Steele WA, Dimitrov VG, Kelly JD, Aziz S, Gutierrez VP, Vittinghoff E, Chung KK, Menon VP, Ambris HA, Baxi SM

The impact of different types of violence on Ebola virus disease transmission during the 2018-2020 outbreak in the Democratic Republic of the Congo.

The Journal of infectious diseases

Kelly JD, Wannier SR, Sinai C, Moe CA, Hoff NA, Blumberg S, Selo B, Mossoko M, Chowell-Puente G, Jones JH, Okitolonda-Wemakoy E, Rutherford GW, Lietman TM, Muyembe-Tamfum JJ, Rimoin AW, Porco TC, Richardson ET

Assessing Onchocerciasis Subcriticality from Pre-Intervention Cross-Sectional Surveys.

The American journal of tropical medicine and hygiene

Kelly JD, Rebollo Polo M, Marie Zoure HG, Oldenburg CE, Keenan JD, Porco TC, Lietman TM

Projections of epidemic transmission and estimation of vaccination impact during an ongoing Ebola virus disease outbreak in Northeastern Democratic Republic of Congo, as of Feb. 25, 2019.

PLoS neglected tropical diseases

Worden L, Wannier R, Hoff NA, Musene K, Selo B, Mossoko M, Okitolonda-Wemakoy E, Muyembe Tamfum JJ, Rutherford GW, Lietman TM, Rimoin AW, Porco TC, Kelly JD

Estimating the impact of violent events on transmission in Ebola virus disease outbreak, Democratic Republic of the Congo, 2018-2019.

Epidemics

Wannier SR, Worden L, Hoff NA, Amezcua E, Selo B, Sinai C, Mossoko M, Njoloko B, Okitolonda-Wemakoy E, Mbala-Kingebeni P, Ahuka-Mundeke S, Muyembe-Tamfum JJ, Richardson ET, Rutherford GW, Jones JH, Lietman TM, Rimoin AW, Porco TC, Kelly JD

Real-time predictions of the 2018-2019 Ebola virus disease outbreak in the Democratic Republic of the Congo using Hawkes point process models.

Epidemics

Kelly JD, Park J, Harrigan RJ, Hoff NA, Lee SD, Wannier R, Selo B, Mossoko M, Njoloko B, Okitolonda-Wemakoy E, Mbala-Kingebeni P, Rutherford GW, Smith TB, Ahuka-Mundeke S, Muyembe-Tamfum JJ, Rimoin AW, Schoenberg FP

Antibiotic Prescription Patterns among Children Younger than 5 Years in Nouna District, Burkina Faso.

The American journal of tropical medicine and hygiene

Sié A, Coulibaly B, Adama S, Ouermi L, Dah C, Tapsoba C, Bärnighausen T, Kelly JD, Doan T, Lietman TM, Keenan JD, Oldenburg CE

Neurological, Cognitive, and Psychological Findings Among Survivors of Ebola Virus Disease From the 1995 Ebola Outbreak in Kikwit, Democratic Republic of Congo: A Cross-sectional Study.

Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Kelly JD, Hoff NA, Spencer D, Musene K, Bramble MS, McIlwain D, Okitundu D, Porco TC, Rutherford GW, Glymour MM, Bjornson Z, Mukadi P, Okitolonda-Wemakoy E, Nolan GP, Muyembe-Tamfum JJ, Rimoin AW

Projections of Ebola outbreak size and duration with and without vaccine use in Équateur, Democratic Republic of Congo, as of May 27, 2018.

PloS one

Kelly JD, Worden L, Wannier SR, Hoff NA, Mukadi P, Sinai C, Ackley S, Chen X, Gao D, Selo B, Mossoko M, Okitolonda-Wemakoy E, Richardson ET, Rutherford GW, Lietman TM, Muyembe-Tamfum JJ, Rimoin AW, Porco TC

Ebola virus disease-related stigma among survivors declined in Liberia over an 18-month, post-outbreak period: An observational cohort study.

PLoS neglected tropical diseases

Kelly JD, Weiser SD, Wilson B, Cooper JB, Glayweon M, Sneller MC, Drew C, Steward WT, Reilly C, Johnson K, Fallah MP

Evaluation of a community-based ART programme after tapering home visits in rural Sierra Leone: a 24-month retrospective study.

SAHARA J : journal of Social Aspects of HIV/AIDS Research Alliance

Kelly JD, Frankfurter R, Lurton G, Conteh S, Empson SF, Daboh F, Kargbo B, Giordano T, Mukherjee J, Barrie MB

Understanding why HIV-infected persons disengaged from pre-ART care in Freetown, Sierra Leone: a qualitative study.

AIDS care

Kelly JD, Hickey MD, Schlough GW, Conteh S, Sesay M, Rutherford GW, Giordano TP, Weiser SD

Deploying RDTs in the DRC Ebola outbreak.

Lancet (London, England)

Dhillon RS, Srikrishna D, Kelly JD

Beyond vaccines: improving survival rates in the DRC Ebola outbreak.

Lancet (London, England)

Kelly JD, Mukadi P, Dhillon RS

Anatomy of a Hotspot: Chain and Seroepidemiology of Ebola Virus Transmission, Sukudu, Sierra Leone, 2015-16.

The Journal of infectious diseases

Kelly JD, Barrie MB, Mesman AW, Karku S, Quiwa K, Drasher M, Schlough GW, Dierberg K, Koedoyoma S, Lindan CP, Jones JH, Chamie G, Worden L, Greenhouse B, Weiser SD, Porco TC, Rutherford GW, Richardson ET

Food Insecurity as a Risk Factor for Outcomes Related to Ebola Virus Disease in Kono District, Sierra Leone: A Cross-Sectional Study.

The American journal of tropical medicine and hygiene

Kelly JD, Richardson ET, Drasher M, Barrie MB, Karku S, Kamara M, Hann K, Dierberg K, Hubbard A, Lindan CP, Farmer PE, Rutherford GW, Weiser SD

The symbolic violence of 'outbreak': A mixed methods, quasi-experimental impact evaluation of social protection on Ebola survivor wellbeing.

Social science & medicine (1982)

Richardson ET, Kelly JD, Sesay O, Drasher MD, Desai IK, Frankfurter R, Farmer PE, Barrie MB

Community-Level HIV Stigma as a Driver for HIV Transmission Risk Behaviors and Sexually Transmitted Diseases in Sierra Leone: A Population-Based Study.

Journal of acquired immune deficiency syndromes (1999)

Kelly JD, Reid MJ, Lahiff M, Tsai AC, Weiser SD

The predicament of patients with suspected Ebola - Authors' reply.

The Lancet. Global health

Richardson ET, Fallah MP, Kelly JD, Barrie MB

The Ebola suspect's dilemma.

The Lancet. Global health

Richardson ET, Barrie MB, Nutt CT, Kelly JD, Frankfurter R, Fallah MP, Farmer PE

Minimally Symptomatic Infection in an Ebola 'Hotspot': A Cross-Sectional Serosurvey.

PLoS neglected tropical diseases

Richardson ET, Kelly JD, Barrie MB, Mesman AW, Karku S, Quiwa K, Marsh RH, Koedoyoma S, Daboh F, Barron KP, Grady M, Tucker E, Dierberg KL, Rutherford GW, Barry M, Jones JH, Murray MB, Farmer PE

Strengthening Health Systems While Responding to a Health Crisis: Lessons Learned by a Nongovernmental Organization During the Ebola Virus Disease Epidemic in Sierra Leone.

The Journal of infectious diseases

Cancedda C, Davis SM, Dierberg KL, Lascher J, Kelly JD, Barrie MB, Koroma AP, George P, Kamara AA, Marsh R, Sumbuya MS, Nutt CT, Scott KW, Thomas E, Bollbach K, Sesay A, Barrie A, Barrera E, Barron K, Welch J, Bhadelia N, Frankfurter RG, Dahl OM, Das S, Rollins RE, Eustis B, Schwartz A, Pertile P, Pavlopoulos I, Mayfield A, Marsh RH, Dibba Y, Kloepper D, Hall A, Huster K, Grady M, Spray K, Walton DA, Daboh F, Nally C, James S, Warren GS, Chang J, Drasher M, Lamin G, Bangura S, Miller AC, Michaelis AP, McBain R, Broadhurst MJ, Murray M, Richardson ET, Philip T, Gottlieb GL, Mukherjee JS, Farmer PE

Overlooking the importance of immunoassays.

The Lancet. Infectious diseases

Dhillon RS, Kelly JD, Srikrishna D, Garry RF

Biosocial Approaches to the 2013-2016 Ebola Pandemic.

Health and human rights

Richardson ET, Barrie MB, Kelly JD, Dibba Y, Koedoyoma S, Farmer PE

High Rates of Herpes Simplex Virus Type 2 Infection in Homeless Women: Informing Public Health Strategies.

Journal of women's health (2002)

Kelly JD, Cohen J, Grimes B, Philip SS, Weiser SD, Riley ED

Performance of the GeneXpert Ebola Assay for Diagnosis of Ebola Virus Disease in Sierra Leone: A Field Evaluation Study.

PLoS medicine

Semper AE, Broadhurst MJ, Richards J, Foster GM, Simpson AJ, Logue CH, Kelly JD, Miller A, Brooks TJ, Murray M, Pollock NR

The Majority of the Pre-Antiretroviral Population Who Were Lost to Follow-Up Stopped Their Care in Freetown, Sierra Leone: A 12-Month Prospective Cohort Study Starting with HIV Diagnosis.

PloS one

Kelly JD, Schlough GW, Conteh S, Barrie MB, Kargbo B, Giordano TP

Proximate Context of HIV Stigma and Its Association with HIV Testing in Sierra Leone: A Population-Based Study.

AIDS and behavior

Kelly JD, Weiser SD, Tsai AC

Persistent Ebola Virus in the Eye.

The New England journal of medicine

Kelly JD, Richardson ET, Barry M

Community Trust and the Ebola Endgame.

The New England journal of medicine

Dhillon RS, Kelly JD

ReEBOV Antigen Rapid Test kit for point-of-care and laboratory-based testing for Ebola virus disease: a field validation study.

Lancet (London, England)

Broadhurst MJ, Kelly JD, Miller A, Semper A, Bailey D, Groppelli E, Simpson A, Brooks T, Hula S, Nyoni W, Sankoh AB, Kanu S, Jalloh A, Ton Q, Sarchet N, George P, Perkins MD, Wonderly B, Murray M, Pollock NR