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Book ; Online: mrc-ide/covid19_South_Korea_report

Amy Dighe

Response to COVID-19 in South Korea

2020

Abstract: This repository contains data and references pertaining to analysis of "Response to COVID-19 in South Korea and implications for lifting stringent interventions". Analysis of the data up until May 11th is described in Report 25 published by MRC Centre ... ...

Abstract	This repository contains data and references pertaining to analysis of "Response to COVID-19 in South Korea and implications for lifting stringent interventions". Analysis of the data up until May 11th is described in Report 25 published by MRC Centre for Global Infectious Disease Analysis, Imperial College London. You can find the report here ( https://doi.org/10.25561/79388 ) The analysis has now been updated using the full dataset up until July 13th and has been submitted for publication. Contents of the repository Data - systematically extracted from Korean Centers for Disease Control and Prevention (KCDC) daily press releases on COVID-19 between January 20th and July 13th 2020. a. KCDC_case_data.csv: Daily numbers of PCR confirmed cases (cumulative), deaths (cumulative), confirmed cases isolated (prevalent) and suspected cases being tested (incident). b. table_2_long_2020-07-13.csv: Cumulative daily numbers of cases broken down by region and by epi-link type(e.g. whether the case is an imported case, part of the Shincheonji cluster, another cluster, contact of case etc.) c. pie_chart_2020-07-13.csv: Contribution of each type of epi-link to overall case incidence in the last 2 weeks References a. Daily press releases from KCDC between 20th Jan and 13th July b. Other government sources referenced in our analysis that not otherwise have a doi
Keywords	covid19
Subject code	306
Publishing date	2020-08-09
Publishing country	eu
Document type	Book ; Online
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Book ; Online: mrc-ide/covid19_South_Korea_report

Amy Dighe

Response to COVID-19 in South Korea

2020

Abstract	This repository contains data and references pertaining to analysis of "Response to COVID-19 in South Korea and implications for lifting stringent interventions". Analysis of the data up until May 11th is described in Report 25 published by MRC Centre for Global Infectious Disease Analysis, Imperial College London. You can find the report here: https://doi.org/10.25561/79388 The analysis has now been updated using the full dataset up until July 13th and has been submitted for publication. Contents of the repository Data - systematically extracted from Korean Centers for Disease Control and Prevention (KCDC) daily press releases on COVID-19 between January 20th and July 13th 2020. a. KCDC_case_data.csv: Daily numbers of PCR confirmed cases (cumulative), deaths (cumulative), confirmed cases isolated (prevalent) and suspected cases being tested (incident). b. table_2_long_2020-07-13.csv: Cumulative daily numbers of cases broken down by region and by epi-link type(e.g. whether the case is an imported case, part of the Shincheonji cluster, another cluster, contact of case etc.) c. pie_chart_2020-07-13.csv: Contribution of each type of epi-link to overall case incidence in the last 2 weeks as reported daily References a. Daily press releases from KCDC between 20th Jan and 13th July b. Other government sources referenced in our analysis that not otherwise have a doi
Keywords	covid19
Subject code	306
Publishing date	2020-08-10
Publishing country	eu
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Air Pollution and Chronic Eye Disease in Adults: A Scoping Review.

Millen, Amy E / Dighe, Shruti / Kordas, Katarzyna / Aminigo, Boma Zelma / Zafron, Michelle L / Mu, Lina

Ophthalmic epidemiology

2023 Volume 31, Issue 1, Page(s) 1–10

Abstract: Purpose: We conducted a scoping review of studies examining ambient air pollution as a risk factor for chronic eye disease influencing the lens, retina, and intraocular pressure in adults.: Methods: Terms related to air pollution and eye disease ... ...

Abstract	Purpose: We conducted a scoping review of studies examining ambient air pollution as a risk factor for chronic eye disease influencing the lens, retina, and intraocular pressure in adults. Methods: Terms related to air pollution and eye disease outcomes were used to search for publications on Embase, Web of Science Core Collection, Global Health, PubMed, and the Cochrane Central Register of Controlled Trials from January 1, 2010, through April 11, 2022. Results: We identified 27 articles, focusing on the following non-mutually exclusive outcomes: cataract (n = 9), presbyopia (n = 1), retinal vein occlusion or central retinal arteriolar and venular equivalents (n = 5), intraocular pressure (IOP) (n = 3), glaucoma (n = 5), age-related macular degeneration (AMD) (n = 5), diabetic retinopathy (n = 2), and measures of retinal morphology (n = 3). Study designs included cross-sectional (n = 16), case-control (n = 4), and longitudinal (n = 7). Air pollutants were measured in 50% and 95% of the studies on lens and retina or IOP, respectively, and these exposures were assigned to geographic locations. Most research was conducted in global regions with high exposure to air pollution. Consistent associations suggested a possibly increased risk of cataract and retina-associated chronic eye disease with increasing exposure to particulate matter (PM Conclusions: Accumulating research suggests air pollution may be a modifiable risk factor for chronic eye diseases of the lens and retina. The number of studies on each specific lens- or retina-related outcome is limited. Guidelines regarding the role of air pollution in chronic eye disease do not exist.
MeSH term(s)	Adult ; Humans ; Air Pollutants/adverse effects ; Air Pollutants/analysis ; Air Pollution/adverse effects ; Air Pollution/analysis ; Cataract/epidemiology ; Cataract/etiology ; Cross-Sectional Studies ; Environmental Exposure/adverse effects ; Environmental Exposure/analysis ; Eye Diseases/etiology ; Eye Diseases/chemically induced
Chemical Substances	Air Pollutants
Language	English
Publishing date	2023-03-02
Publishing country	England
Document type	Journal Article ; Review
ZDB-ID	1213070-9
ISSN	1744-5086 ; 0928-6586
ISSN (online)	1744-5086
ISSN	0928-6586
DOI	10.1080/09286586.2023.2183513
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Article ; Online: Annual risk of hepatitis E virus infection and seroreversion: Insights from a serological cohort in Sitakunda, Bangladesh.

Dighe, Amy / Khan, Ashraful Islam / Bhuiyan, Taufiqur Rahman / Islam, Md Taufiqul / Khan, Zahid Hasan / Khan, Ishtiakul Islam / Hulse, Juan Dent / Ahmed, Shakeel / Rashid, Mamunur / Hossain, Md Zakir / Rashid, Rumana / Hegde, Sonia T / Gurley, Emily S / Qadri, Firdausi / Azman, Andrew S

Epidemiology and infection

2024 Volume 152, Page(s) e52

Abstract: Hepatitis E virus (HEV) is a major cause of acute jaundice in South Asia. Gaps in our understanding of transmission are driven by non-specific symptoms and scarcity of diagnostics, impeding rational control strategies. In this context, serological data ... ...

Abstract	Hepatitis E virus (HEV) is a major cause of acute jaundice in South Asia. Gaps in our understanding of transmission are driven by non-specific symptoms and scarcity of diagnostics, impeding rational control strategies. In this context, serological data can provide important proxy measures of infection. We enrolled a population-representative serological cohort of 2,337 individuals in Sitakunda, Bangladesh. We estimated the annual risks of HEV infection and seroreversion both using serostatus changes between paired serum samples collected 9 months apart, and by fitting catalytic models to the age-stratified cross-sectional seroprevalence. At baseline, 15% (95 CI: 14-17%) of people were seropositive, with seroprevalence highest in the relatively urban south. During the study, 27 individuals seroreverted (annual seroreversion risk: 15%, 95 CI: 10-21%), and 38 seroconverted (annual infection risk: 3%, 95CI: 2-5%). Relying on cross-sectional seroprevalence data alone, and ignoring seroreversion, underestimated the annual infection risk five-fold (0.6%, 95 CrI: 0.5-0.6%). When we accounted for the observed seroreversion in a reversible catalytic model, infection risk was more consistent with measured seroincidence. Our results quantify HEV infection risk in Sitakunda and highlight the importance of accounting for seroreversion when estimating infection incidence from cross-sectional seroprevalence data.
MeSH term(s)	Humans ; Hepatitis E virus ; Bangladesh/epidemiology ; Seroepidemiologic Studies ; Cross-Sectional Studies ; Hepatitis E ; Hepatitis Antibodies
Chemical Substances	Hepatitis Antibodies
Language	English
Publishing date	2024-03-18
Publishing country	England
Document type	Journal Article
ZDB-ID	632982-2
ISSN	1469-4409 ; 0950-2688
ISSN (online)	1469-4409
ISSN	0950-2688
DOI	10.1017/S0950268824000438
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Article ; Online: A systematic review of MERS-CoV seroprevalence and RNA prevalence in dromedary camels: Implications for animal vaccination.

Dighe, Amy / Jombart, Thibaut / Van Kerkhove, Maria D / Ferguson, Neil

Epidemics

2019 Volume 29, Page(s) 100350

Abstract: Human infection with Middle East Respiratory Syndrome Coronavirus (MERS-CoV) is driven by recurring dromedary-to-human spill-over events, leading decision-makers to consider dromedary vaccination. Dromedary vaccine candidates in the development pipeline ... ...

Abstract	Human infection with Middle East Respiratory Syndrome Coronavirus (MERS-CoV) is driven by recurring dromedary-to-human spill-over events, leading decision-makers to consider dromedary vaccination. Dromedary vaccine candidates in the development pipeline are showing hopeful results, but gaps in our understanding of the epidemiology of MERS-CoV in dromedaries must be addressed to design and evaluate potential vaccination strategies. We aim to bring together existing measures of MERS-CoV infection in dromedary camels to assess the distribution of infection, highlighting knowledge gaps and implications for animal vaccination. We systematically reviewed the published literature on MEDLINE, EMBASE and Web of Science that reported seroprevalence and/or prevalence of active MERS-CoV infection in dromedary camels from both cross-sectional and longitudinal studies. 60 studies met our eligibility criteria. Qualitative syntheses determined that MERS-CoV seroprevalence increased with age up to 80-100% in adult dromedaries supporting geographically widespread endemicity of MERS-CoV in dromedaries in both the Arabian Peninsula and countries exporting dromedaries from Africa. The high prevalence of active infection measured in juveniles and at sites where dromedary populations mix should guide further investigation - particularly of dromedary movement - and inform vaccination strategy design and evaluation through mathematical modelling.
MeSH term(s)	Africa ; Animals ; Camelus ; Coronavirus Infections/epidemiology ; Coronavirus Infections/prevention & control ; Coronavirus Infections/veterinary ; Cross-Sectional Studies ; Middle East Respiratory Syndrome Coronavirus/isolation & purification ; Prevalence ; RNA, Viral ; Seroepidemiologic Studies ; Vaccination ; Viral Vaccines
Chemical Substances	RNA, Viral ; Viral Vaccines
Keywords	covid19
Language	English
Publishing date	2019-06-05
Publishing country	Netherlands
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Systematic Review
ZDB-ID	2467993-8
ISSN	1878-0067 ; 1755-4365
ISSN (online)	1878-0067
ISSN	1755-4365
DOI	10.1016/j.epidem.2019.100350
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Suppression of superoxide/hydrogen peroxide production at mitochondrial site I

Watson, Mark A / Brar, Harmanmeet / Gibbs, Edwin T / Wong, Hoi-Shan / Dighe, Pratiksha A / McKibben, Bryan / Riedmaier, Stephan / Siu, Amy / Polakowski, James S / Segreti, Jason A / Liu, Xiaoqin / Chung, SeungWon / Pliushchev, Y Marina / Gesmundo, Nathan / Wang, Zhi / Vortherms, Timothy A / Brand, Martin D

Free radical biology & medicine

2023 Volume 204, Page(s) 276–286

Abstract: We developed S1QEL1.719, a novel bioavailable S1QEL (suppressor of site ... ...

Abstract	We developed S1QEL1.719, a novel bioavailable S1QEL (suppressor of site I
MeSH term(s)	Mice ; Male ; Animals ; Superoxides/metabolism ; Hydrogen Peroxide/metabolism ; Peroxides ; Insulin ; Diet, High-Fat/adverse effects ; Metabolic Syndrome ; Mice, Inbred C57BL ; Fasting ; Adipose Tissue/metabolism ; Glucose
Chemical Substances	Superoxides (11062-77-4) ; Hydrogen Peroxide (BBX060AN9V) ; Peroxides ; Insulin ; Glucose (IY9XDZ35W2)
Language	English
Publishing date	2023-05-20
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	807032-5
ISSN	1873-4596 ; 0891-5849
ISSN (online)	1873-4596
ISSN	0891-5849
DOI	10.1016/j.freeradbiomed.2023.05.022
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Article: Delayed and Attenuated Antibody Responses to Coronavirus Disease 2019 Vaccination With Poor Cross-Variant Neutralization in Solid-Organ Transplant Recipients-A Prospective Longitudinal Study.

Liew, May Y / Mathews, Josh I / Li, Amy / Singh, Rohan / Jaramillo, Salvador A / Weiss, Zoe F / Bowman, Kathryn / Ankomah, Pierre O / Ghantous, Fadi / Lewis, Gregory D / Neuringer, Isabel / Bitar, Natasha / Lipiner, Taryn / Dighe, Anand S / Kotton, Camille N / Seaman, Michael S / Lemieux, Jacob E / Goldberg, Marcia B

Open forum infectious diseases

2023 Volume 10, Issue 8, Page(s) ofad369

Abstract: Background: Therapeutically immunosuppressed transplant recipients exhibit attenuated responses to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) vaccines. To elucidate the kinetics and variant cross-protection of vaccine-induced ... ...

Abstract	Background: Therapeutically immunosuppressed transplant recipients exhibit attenuated responses to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) vaccines. To elucidate the kinetics and variant cross-protection of vaccine-induced antibodies in this population, we conducted a prospective longitudinal study in heart and lung transplant recipients receiving the SARS-CoV-2 messenger RNA (mRNA) 3-dose vaccination series. Methods: We measured longitudinal serum antibody and neutralization responses against the ancestral and major variants of SARS-CoV-2 in SARS-CoV-2-uninfected lung (n = 18) and heart (n = 17) transplant recipients, non-lung-transplanted patients with cystic fibrosis (n = 7), and healthy controls (n = 12) before, during, and after the primary mRNA vaccination series. Results: Among healthy controls, strong anti-spike responses arose immediately following vaccination and displayed cross-neutralization against all variants. In contrast, among transplant recipients, after the first 2 vaccine doses, increases in antibody concentrations occurred gradually, and cross-neutralization was completely absent against the Omicron B.1.1.529 variant. However, most (73%) of the transplant recipients had a significant response to the third vaccine dose, reaching levels comparable to those of healthy controls, with improved but attenuated neutralization of immune evasive variants, particularly Beta, Gamma, and Omicron. Responses in non-lung-transplanted patients with cystic fibrosis paralleled those in healthy controls. Conclusions: In this prospective, longitudinal analysis of variant-specific antibody responses, lung and heart transplant recipients display delayed and defective responses to the first 2 SARS-CoV-2 vaccine doses but significantly augmented responses to a third dose. Gaps in antibody-mediated immunity among transplant recipients are compounded by decreased neutralization against Omicron variants, leaving many patients with substantially weakened immunity against currently circulating variants.
Language	English
Publishing date	2023-08-10
Publishing country	United States
Document type	Journal Article
ZDB-ID	2757767-3
ISSN	2328-8957
ISSN	2328-8957
DOI	10.1093/ofid/ofad369
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Article ; Online: A systematic review of MERS-CoV (Middle East Respiratory Syndrome Coronavirus) seroprevalence and viral RNA prevalence in dromedary camels: implications for animal vaccination

Dighe, Amy / Jombart, Thibaut / Van Kerkhove, Maria D. / Ferguson, Neil

bioRxiv

Abstract	Human infection with Middle East Respiratory Syndrome Coronavirus (MERS-CoV) is driven by recurring dromedary-to-human spill-over events, leading decision-makers to consider dromedary vaccination. Dromedary vaccine candidates in the development pipeline are showing hopeful results, but gaps in our understanding of the epidemiology of MERS-CoV in dromedaries must be addressed to design and evaluate potential vaccination strategies. We systematically reviewed the published literature reporting seroprevalence and/or prevalence of active MERS-CoV infection in dromedary populations from both cross-sectional and longitudinal studies, including 60 studies in our qualitative syntheses. MERS-CoV seroprevalence increased with age up to 80-100% in adult dromedaries supporting geographically wide spread endemicity of MERS-CoV in dromedaries in both the Arabian Peninsula and countries exporting dromedaries from Africa. The high prevalence of active infection measured in juveniles and at sites where dromedary populations mix should guide further investigation – particularly of dromedary movement – and inform vaccination strategy design.
Keywords	covid19
Publisher	BioRxiv; MedRxiv
Document type	Article ; Online
DOI	10.1101/574103
Database	COVID19

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Article: Clinical and Lifestyle-Related Prognostic Indicators among Esophageal Adenocarcinoma Patients Receiving Treatment at a Comprehensive Cancer Center.

Dighe, Shruti G / Yan, Li / Mukherjee, Sarbajit / McGillicuddy, Cailey S / Hulme, Karen L / Hochwald, Steven N / Yendamuri, Saikrishna / Bain, Andrew J / Robillard, Kevin T / Moysich, Kirsten B / Ambrosone, Christine B / Millen, Amy E / Buas, Matthew F

Cancers

2021 Volume 13, Issue 18

Abstract: Purpose: The incidence of esophageal adenocarcinoma (EAC) has risen substantially in recent decades, while the average 5-year survival remains only ~20%. Disease stage and treatment are the strongest prognostic factors. The role of lifestyle factors in ... ...

Abstract	Purpose: The incidence of esophageal adenocarcinoma (EAC) has risen substantially in recent decades, while the average 5-year survival remains only ~20%. Disease stage and treatment are the strongest prognostic factors. The role of lifestyle factors in relation to survival remains uncertain, with a handful of studies to date investigating associations with obesity, smoking, physical activity, diet, or medications. Methods: This study included patients diagnosed with primary adenocarcinoma of the esophagus, gastroesophageal junction, or cardia (N = 371) at Roswell Park Comprehensive Cancer Center between 2003 and 2019. Leveraging extensive data abstracted from electronic medical records, epidemiologic questionnaires, and a tumor registry, we analyzed clinical, behavioral, and environmental exposures and evaluated stage-specific associations with survival. Survival distributions were visualized using Kaplan-Meier curves. Cox proportional hazards regression models adjusted for age, sex, stage, treatment, and comorbidities were used to estimate the association between each exposure and all-cause or cancer-specific mortality. Results: Among patients presenting with localized/regional tumors (stages I-III), current smoking was associated with increased overall mortality risk (HR = 2.5 [1.42-4.53], Conclusion: Our data suggest that lifestyle exposures may be differentially associated with EAC survival based on disease stage. Future investigation of larger, diverse patient cohorts is essential to validate these findings. Our results may help inform the development of lifestyle-based interventions to improve EAC prognosis and quality of life.
Language	English
Publishing date	2021-09-16
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2527080-1
ISSN	2072-6694
ISSN	2072-6694
DOI	10.3390/cancers13184653
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Article ; Online: Diet patterns and the incidence of age-related macular degeneration in the Atherosclerosis Risk in Communities (ARIC) study.

Dighe, Shruti / Zhao, Jiwei / Steffen, Lyn / Mares, J A / Meuer, Stacy M / Klein, Barbara E K / Klein, Ronald / Millen, Amy E

The British journal of ophthalmology

2019 Volume 104, Issue 8, Page(s) 1070–1076

Abstract: Background: Age-related macular degeneration (AMD) is the leading cause of irreversible vision loss among the elderly.: Objective: This study aimed to determine the association between dietary patterns and food groups (used to make them) with the 18- ... ...

Abstract	Background: Age-related macular degeneration (AMD) is the leading cause of irreversible vision loss among the elderly. Objective: This study aimed to determine the association between dietary patterns and food groups (used to make them) with the 18-year incidence of AMD. Methods: ARIC (Atherosclerosis Risk in Communities) participants who showed change in AMD lesions between retinal photographs taken at visit 3 and visit 5 were graded side by side to determine incident AMD (any=144; early=117; late=27). A 66-line item food frequency questionnaire, administered at visit 1 and visit 3, was used to identify 29 food groups. Principal component analysis was used to derive dietary patterns from average food group servings. Logistic regression was used to estimate ORs and 95% CIs for incident AMD (any, early and late) by tertiles of dietary pattern scores, adjusted for age, race, education, total calories and smoking status. P-trend was estimated using continuous scores. Results: Western (unhealthy) and Prudent (healthy) dietary patterns were identified. No significant associations were observed between either dietary pattern and incident any or incident early AMD. However, a threefold higher incidence of late AMD was observed among participants with a Western pattern score above, as compared with below, the median (OR=3.44 (95% CI 1.33 to 8.87), p-trend=0.014). The risk of developing late AMD was decreased, but not statistically significant, among participants with a Prudent pattern score above, as compared with below, the median (OR=0.51 (95% CI 0.22 to 1.18), p-trend=0.054). Conclusions: Diet patterns were not significantly associated with incident any or incident early AMD. However, consumption of a Western pattern diet may be a risk factor for development of late AMD.
MeSH term(s)	Aged ; Aged, 80 and over ; Atherosclerosis/epidemiology ; Diet/statistics & numerical data ; Diet Surveys ; Diet, Western ; Energy Intake ; Female ; Follow-Up Studies ; Humans ; Incidence ; Macular Degeneration/diagnostic imaging ; Macular Degeneration/epidemiology ; Male ; Middle Aged ; Photography ; Prospective Studies ; Risk Factors ; Surveys and Questionnaires ; United States/epidemiology
Language	English
Publishing date	2019-12-06
Publishing country	England
Document type	Journal Article ; Multicenter Study ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, P.H.S.
ZDB-ID	80078-8
ISSN	1468-2079 ; 0007-1161
ISSN (online)	1468-2079
ISSN	0007-1161
DOI	10.1136/bjophthalmol-2019-314813
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