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Article ; Online: Interview with Seung Yon Rhee.

Rhee, Seung Y

2014 Volume 19, Issue 4, Page(s) 198–199

MeSH term(s)	Biology ; Interdisciplinary Communication ; Plants/metabolism
Language	English
Publishing date	2014-04
Publishing country	England
Document type	Interview
ZDB-ID	1305448-x
ISSN	1878-4372 ; 1360-1385
ISSN (online)	1878-4372
ISSN	1360-1385
DOI	10.1016/j.tplants.2014.02.007
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Article: Interpreting omics data with pathway enrichment analysis.

Zhao, Kangmei / Rhee, Seung Yon

Trends in genetics : TIG

2023 Volume 39, Issue 4, Page(s) 308–319

Abstract: Pathway enrichment analysis is indispensable for interpreting omics datasets and generating hypotheses. However, the foundations of enrichment analysis remain elusive to many biologists. Here, we discuss best practices in interpreting different types of ... ...

Abstract	Pathway enrichment analysis is indispensable for interpreting omics datasets and generating hypotheses. However, the foundations of enrichment analysis remain elusive to many biologists. Here, we discuss best practices in interpreting different types of omics data using pathway enrichment analysis and highlight the importance of considering intrinsic features of various types of omics data. We further explain major components that influence the outcomes of a pathway enrichment analysis, including defining background sets and choosing reference annotation databases. To improve reproducibility, we describe how to standardize reporting methodological details in publications. This article aims to serve as a primer for biologists to leverage the wealth of omics resources and motivate bioinformatics tool developers to enhance the power of pathway enrichment analysis.
MeSH term(s)	Reproducibility of Results ; Computational Biology
Language	English
Publishing date	2023-02-06
Publishing country	England
Document type	Journal Article ; Review ; Research Support, Non-U.S. Gov't
ZDB-ID	619240-3
ISSN	1362-4555 ; 0168-9525 ; 0168-9479
ISSN (online)	1362-4555
ISSN	0168-9525 ; 0168-9479
DOI	10.1016/j.tig.2023.01.003
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Zs.A 2272: Show issues

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Article ; Online: Clinical manifestations of human Mpox infection: A systematic review and meta-analysis.

Yon, Hyunju / Shin, Hyoin / Shin, Jae Il / Shin, Jung U / Shin, Youn Ho / Lee, Jinseok / Rhee, Sang Youl / Koyanagi, Ai / Jacob, Louis / Smith, Lee / Lee, Seung Won / Rahmati, Masoud / Ahmad, Suhana / Cho, Wonyoung / Yon, Dong Keon

Reviews in medical virology

2023 Volume 33, Issue 4, Page(s) e2446

Abstract: Little is known about the ongoing monkeypox (mpox) outbreak, and the clinical features of mpox in patients worldwide have not been rigorously analysed. Thus, we aimed to investigate the clinical features associated with mpox infection and understand the ... ...

Abstract	Little is known about the ongoing monkeypox (mpox) outbreak, and the clinical features of mpox in patients worldwide have not been rigorously analysed. Thus, we aimed to investigate the clinical features associated with mpox infection and understand the pathophysiology and characteristics of the disease. For this systematic review and meta-analysis, we searched PubMed/MEDLINE, Embase, CINAHL, Google Scholar, and the Cochrane Database of Systematic Reviews for articles published till 16 September 2022. We used a random effects model to calculate the pooled prevalence and 95% confidence interval (CI). We used the I
MeSH term(s)	Humans ; Mpox (monkeypox) ; Pharyngitis ; Prevalence ; Exanthema ; Fever
Language	English
Publishing date	2023-04-13
Publishing country	England
Document type	Meta-Analysis ; Systematic Review ; Journal Article ; Review
ZDB-ID	1086043-5
ISSN	1099-1654 ; 1052-9276
ISSN (online)	1099-1654
ISSN	1052-9276
DOI	10.1002/rmv.2446
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Zs.A 3308: Show issues

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Article ; Online: Incident allergic diseases in post-COVID-19 condition: multinational cohort studies from South Korea, Japan and the UK.

Oh, Jiyeon / Lee, Myeongcheol / Kim, Minji / Kim, Hyeon Jin / Lee, Seung Won / Rhee, Sang Youl / Koyanagi, Ai / Smith, Lee / Kim, Min Seo / Lee, Hayeon / Lee, Jinseok / Yon, Dong Keon

Nature communications

2024 Volume 15, Issue 1, Page(s) 2830

Abstract: As mounting evidence suggests a higher incidence of adverse consequences, such as disruption of the immune system, among patients with a history of COVID-19, we aimed to investigate post-COVID-19 conditions on a comprehensive set of allergic diseases ... ...

Abstract	As mounting evidence suggests a higher incidence of adverse consequences, such as disruption of the immune system, among patients with a history of COVID-19, we aimed to investigate post-COVID-19 conditions on a comprehensive set of allergic diseases including asthma, allergic rhinitis, atopic dermatitis, and food allergy. We used nationwide claims-based cohorts in South Korea (K-CoV-N; n = 836,164; main cohort) and Japan (JMDC; n = 2,541,021; replication cohort A) and the UK Biobank cohort (UKB; n = 325,843; replication cohort B) after 1:5 propensity score matching. Among the 836,164 individuals in the main cohort (mean age, 50.25 years [SD, 13.86]; 372,914 [44.6%] women), 147,824 were infected with SARS-CoV-2 during the follow-up period (2020-2021). The risk of developing allergic diseases, beyond the first 30 days of diagnosis of COVID-19, significantly increased (HR, 1.20; 95% CI, 1.13-1.27), notably in asthma (HR, 2.25; 95% CI, 1.80-2.83) and allergic rhinitis (HR, 1.23; 95% CI, 1.15-1.32). This risk gradually decreased over time, but it persisted throughout the follow-up period (≥6 months). In addition, the risk increased with increasing severity of COVID-19. Notably, COVID-19 vaccination of at least two doses had a protective effect against subsequent allergic diseases (HR, 0.81; 95% CI, 0.68-0.96). Similar findings were reported in the replication cohorts A and B. Although the potential for misclassification of pre-existing allergic conditions as incident diseases remains a limitation, ethnic diversity for evidence of incident allergic diseases in post-COVID-19 condition has been validated by utilizing multinational and independent population-based cohorts.
MeSH term(s)	Humans ; Female ; Middle Aged ; Male ; Japan/epidemiology ; COVID-19 Vaccines ; COVID-19/epidemiology ; SARS-CoV-2 ; Asthma ; Cohort Studies ; Rhinitis, Allergic/epidemiology ; Rhinitis, Allergic/diagnosis ; United Kingdom/epidemiology
Chemical Substances	COVID-19 Vaccines
Language	English
Publishing date	2024-04-02
Publishing country	England
Document type	Journal Article
ZDB-ID	2553671-0
ISSN	2041-1723 ; 2041-1723
ISSN (online)	2041-1723
ISSN	2041-1723
DOI	10.1038/s41467-024-47176-w
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Article ; Online: Nationwide Trends in the Prevalence of Cigarette and E-cigarette Smoking among Korean Adults between 2014-2021: A Representative Serial Study of 1.2 Million Individuals.

Kim, Minji / Cho, Wonyoung / Lee, Jinseok / Choi, Yong Sung / Yeo, Seung Geun / Lee, Young Joo / Rhee, Sang Youl / Min, Chanyang / Yon, Dong Keon

Biomedical and environmental sciences : BES

2023 Volume 36, Issue 10, Page(s) 996–998

MeSH term(s)	Humans ; Adult ; Cigarette Smoking/epidemiology ; Prevalence ; Electronic Nicotine Delivery Systems ; Tobacco Products ; Republic of Korea/epidemiology
Language	English
Publishing date	2023-11-06
Publishing country	China
Document type	Letter
ZDB-ID	645083-0
ISSN	2214-0190 ; 0895-3988
ISSN (online)	2214-0190
ISSN	0895-3988
DOI	10.3967/bes2023.127
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Article ; Online: National prevalence and trends in food labeling awareness, comprehension, usage, and COVID-19 pandemic-related factors in South Korea, 2014-2022.

Choi, Yujin / Kim, Hyeon Jin / Park, Jaeyu / Lee, Seung Won / Rahmati, Masoud / Koyanagi, Ai / Smith, Lee / Kim, Min Seo / López Sánchez, Guillermo F / Dragioti, Elena / Lee, Jinseok / Rhee, Sang Youl / Kim, Sunyoung / Lim, Hyunjung / Yon, Dong Keon

Scientific reports

2024 Volume 14, Issue 1, Page(s) 2617

Abstract: Although food labeling on food packages is crucial for promoting a healthy diet, limited research has been conducted on how the COVID-19 pandemic (hereinafter "the pandemic") has affected food labeling awareness. Therefore, this study aims to analyze the ...

Abstract	Although food labeling on food packages is crucial for promoting a healthy diet, limited research has been conducted on how the COVID-19 pandemic (hereinafter "the pandemic") has affected food labeling awareness. Therefore, this study aims to analyze the changes in trends in food labeling awareness, comprehension, and usage in South Korea during the pandemic. We utilized a nationwide, large-scale, and long-term dataset provided by the Korea Community Health Survey (KCHS) from 2014 to 2022 (total = 1,756,847 participants). This allowed the researchers to assess the long-term trends in the prevalence of food labeling awareness, comprehension, and usage. Furthermore, we investigated the factors associated with awareness specifically related to the pandemic. In total, 1,756,847 adults (54.19% women) participated in this study. The upward slope in overall food labeling awareness became less pronounced and even exhibited a downward slope during the pandemic (βdiff - 1.759; 95% CI - 1.874 to - 1.644). The upward slope in food labeling comprehension and usage became more pronounced during the pandemic (comprehension: βdiff 0.535; 95% CI 0.436-0.634; usage: βdiff 0.693; 95% CI 0.601-0.785). The vulnerability factors associated with lower food labeling awareness during the pandemic included older age, male, obesity, residing in rural areas, lower household income, lower educational level, smoking, and increased alcohol consumption. This study analyzed the 9-year trend in the prevalence of food labeling awareness, comprehension, and usage based on nationally representative data of adults in South Korea from 2014 to 2022. Our findings suggest that personalized nutrition strategies are needed to recognize vulnerable groups with risk factors and improve food labeling awareness among Korean adults during the pandemic.
MeSH term(s)	Adult ; Humans ; Male ; Female ; Pandemics ; Prevalence ; Food Labeling ; Comprehension ; Nutrition Surveys ; COVID-19/epidemiology ; Republic of Korea/epidemiology
Language	English
Publishing date	2024-01-31
Publishing country	England
Document type	Journal Article
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-024-51948-1
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Article ; Online: National Trends in Allergic Rhinitis and Chronic Rhinosinusitis and COVID-19 Pandemic-Related Factors in South Korea, from 1998 to 2021.

Lee, Hojae / Park, Jaeyu / Lee, Myeongcheol / Kim, Hyeon Jin / Kim, Minji / Kwon, Rosie / Lee, Seung Won / Koyanagi, Ai / Smith, Lee / Kim, Min Seo / Rhee, Sang Youl / Cho, Joong Ki / Kim, Sunyoung / Rahmati, Masoud / Yon, Dong Keon

International archives of allergy and immunology

2024 Volume 185, Issue 4, Page(s) 355–361

Abstract: Introduction: Existing studies provide insights into the prevalence and environmental factors associated with allergic rhinitis (AR) and chronic rhinosinusitis (CRS) globally. However, limitations still persist in these studies, particularly regarding ... ...

Abstract	Introduction: Existing studies provide insights into the prevalence and environmental factors associated with allergic rhinitis (AR) and chronic rhinosinusitis (CRS) globally. However, limitations still persist in these studies, particularly regarding cohort sizes and the duration of follow-up periods, indicating a need for more comprehensive and long-term research in these fields. Our study aimed to investigate the prevalence, long-term trends, and underlying factors of these conditions in the general population of adult participants (≥19 years) in Korea. Method: We analyzed data from adult participants (≥19 years) from the Korea National Health and Nutrition Examination Survey (KNHANES) study to determine the prevalence of AR and CRS from 1998 to 2021. To analyze prevalence trends before and during the COVID-19 pandemic, we employed a weighted linear regression model and obtained β-coefficients with 95% confidence intervals (CI). Results: Between 1998 and 2021, over a span of 24 years, the comprehensive KNHANES study included 146,264 adult participants (mean age: 47.80 years, standard deviation: 16.49 years; 66,177, 49.3% men). The prevalence of AR and CRS increased from 1998 to 2021, with AR prevalence rising from 5.84% (95% CI, 5.57-6.10) in 1998-2005 to 8.99% (8.09-9.91) in 2021 and CRS from 1.84% (1.70-1.97) in 1998-2005 to 3.70% (3.18-4.23) in 2021. However, the increasing trend has slowed down during the COVID-19 pandemic era. Conclusions: The significance of continuous monitoring and focused interventions for AR and CRS is underscored by this study. The observed deceleration in the rising prevalence of AR and CRS during the pandemic indicates the possibility of beneficial impacts from lifestyle modifications triggered by the pandemic. These findings call for additional research to explore potential protective effects in greater depth.
MeSH term(s)	Adult ; Male ; Humans ; Middle Aged ; Female ; Pandemics ; Rhinitis/epidemiology ; Nutrition Surveys ; Rhinosinusitis ; Risk Factors ; COVID-19/epidemiology ; Rhinitis, Allergic/epidemiology ; Chronic Disease ; Republic of Korea/epidemiology ; Sinusitis/epidemiology ; Prevalence
Language	English
Publishing date	2024-01-05
Publishing country	Switzerland
Document type	News
ZDB-ID	1108932-5
ISSN	1423-0097 ; 1018-2438
ISSN (online)	1423-0097
ISSN	1018-2438
DOI	10.1159/000535648
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Article ; Online: National trends in the prevalence of chronic kidney disease among Korean adults, 2007-2020.

Yoon, Soo-Young / Park, Hye Won / Kim, Hyeon Jin / Kronbichler, Andreas / Koyanagi, Ai / Smith, Lee / Shin, Jae Il / Rhee, Sang Youl / Lee, Seung Won / Kim, Jin Sug / Hwang, Hyeon Seok / Yon, Dong Keon / Jeong, Kyunghwan

Scientific reports

2023 Volume 13, Issue 1, Page(s) 5831

Abstract: Little is known about the prevalence of chronic kidney disease (CKD) during the coronavirus disease 2019 (COVID-19) pandemic. We aimed to investigate the long-term trends in CKD prevalence from South Korea including the early pandemic. We used data from ... ...

Abstract	Little is known about the prevalence of chronic kidney disease (CKD) during the coronavirus disease 2019 (COVID-19) pandemic. We aimed to investigate the long-term trends in CKD prevalence from South Korea including the early pandemic. We used data from 108,152 Korean adults from 2007 to 2020 obtained from a representative longitudinal serial study. We defined CKD as a condition when the participant's estimated glomerular filtration rate was < 60 mL/min/1.73 m
MeSH term(s)	Adult ; Humans ; Prevalence ; COVID-19/epidemiology ; Renal Insufficiency, Chronic/epidemiology ; Glomerular Filtration Rate ; Republic of Korea/epidemiology ; Risk Factors
Language	English
Publishing date	2023-04-10
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-023-33122-1
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Article ; Online: Long-Term Autoimmune Inflammatory Rheumatic Outcomes of COVID-19 : A Binational Cohort Study.

Kim, Min Seo / Lee, Hayeon / Lee, Seung Won / Kwon, Rosie / Rhee, Sang Youl / Lee, Jin A / Koyanagi, Ai / Smith, Lee / Fond, Guillaume / Boyer, Laurent / Lee, Jinseok / Rahmati, Masoud / Shin, Ju-Young / Min, Chanyang / Shin, Jae Il / Yon, Dong Keon

Annals of internal medicine

2024 Volume 177, Issue 3, Page(s) 291–302

Abstract: Background: Some data suggest a higher incidence of diagnosis of autoimmune inflammatory rheumatic diseases (AIRDs) among patients with a history of COVID-19 compared with uninfected patients. However, these studies had methodological shortcomings.: ... ...

Abstract	Background: Some data suggest a higher incidence of diagnosis of autoimmune inflammatory rheumatic diseases (AIRDs) among patients with a history of COVID-19 compared with uninfected patients. However, these studies had methodological shortcomings. Objective: To investigate the effect of COVID-19 on long-term risk for incident AIRD over various follow-up periods. Design: Binational, longitudinal, propensity-matched cohort study. Setting: Nationwide claims-based databases in South Korea (K-COV-N cohort) and Japan (JMDC cohort). Participants: 10 027 506 Korean and 12 218 680 Japanese patients aged 20 years or older, including those with COVID-19 between 1 January 2020 and 31 December 2021, matched to patients with influenza infection and to uninfected control patients. Measurements: The primary outcome was onset of AIRD (per appropriate codes from the International Classification of Diseases, 10th Revision) 1, 6, and 12 months after COVID-19 or influenza infection or the respective matched index date of uninfected control patients. Results: Between 2020 and 2021, among the 10 027 506 Korean participants (mean age, 48.4 years [SD, 13.4]; 50.1% men), 394 274 (3.9%) and 98 596 (0.98%) had a history of COVID-19 or influenza, respectively. After propensity score matching, beyond the first 30 days after infection, patients with COVID-19 were at increased risk for incident AIRD compared with uninfected patients (adjusted hazard ratio, 1.25 [95% CI, 1.18 to 1.31]) and influenza-infected control patients (adjusted hazard ratio, 1.30 [CI, 1.02 to 1.59]). The risk for incident AIRD was higher with more severe acute COVID-19. Similar patterns were observed in the Japanese cohort. Limitations: Referral bias due to the pandemic; residual confounding. Conclusion: SARS-CoV-2 infection was associated with increased risk for incident AIRD compared with matched patients without SARS-CoV-2 infection or with influenza infection. The risk for incident AIRD was higher with greater severity of acute COVID-19. Primary funding source: National Research Foundation of Korea.
MeSH term(s)	Male ; Humans ; Middle Aged ; Female ; COVID-19/epidemiology ; Cohort Studies ; Influenza, Human ; SARS-CoV-2 ; Longitudinal Studies
Language	English
Publishing date	2024-03-05
Publishing country	United States
Document type	Journal Article
ZDB-ID	336-0
ISSN	1539-3704 ; 0003-4819
ISSN (online)	1539-3704
ISSN	0003-4819
DOI	10.7326/M23-1831
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Article ; Online: A novel bivalent chromatin associates with rapid induction of camalexin biosynthesis genes in response to a pathogen signal in

Zhao, Kangmei / Kong, Deze / Jin, Benjamin / Smolke, Christina D / Rhee, Seung Yon

eLife

2021 Volume 10

Abstract: Temporal dynamics of gene expression underpin responses to internal and environmental stimuli. In eukaryotes, regulation of gene induction includes changing chromatin states at target genes and recruiting the transcriptional machinery that includes ... ...

Abstract	Temporal dynamics of gene expression underpin responses to internal and environmental stimuli. In eukaryotes, regulation of gene induction includes changing chromatin states at target genes and recruiting the transcriptional machinery that includes transcription factors. As one of the most potent defense compounds in
MeSH term(s)	Arabidopsis/genetics ; Chromatin ; Epigenesis, Genetic ; Gene Expression Regulation, Plant ; Indoles/metabolism ; Plant Diseases/microbiology ; Thiazoles/metabolism
Chemical Substances	Chromatin ; Indoles ; Thiazoles ; camalexin
Language	English
Publishing date	2021-09-15
Publishing country	England
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
ZDB-ID	2687154-3
ISSN	2050-084X ; 2050-084X
ISSN (online)	2050-084X
ISSN	2050-084X
DOI	10.7554/eLife.69508
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