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Article: Analysis of Nested Case-Control Study Designs: Revisiting the Inverse Probability Weighting Method.

Kim, Ryung S

Communications for statistical applications and methods

2017 Volume 20, Issue 6, Page(s) 455–466

Abstract: ... is illustrated with data from a cohort of children with Wilm's tumor to study the association between ...

Abstract	In nested case-control studies, the most common way to make inference under a proportional hazards model is the conditional logistic approach of Thomas (1977). Inclusion probability methods are more efficient than the conditional logistic approach of Thomas; however, the epidemiology research community has not accepted the methods as a replacement of the Thomas' method. This paper promotes the inverse probability weighting method originally proposed by Samuelsen (1997) in combination with an approximate jackknife standard error that can be easily computed using existing software. Simulation studies demonstrate that this approach yields valid type 1 errors and greater powers than the conditional logistic approach in nested case-control designs across various sample sizes and magnitudes of the hazard ratios. A generalization of the method is also made to incorporate additional matching and the stratified Cox model. The proposed method is illustrated with data from a cohort of children with Wilm's tumor to study the association between histological signatures and relapses.
Language	English
Publishing date	2017-04-11
Publishing country	Korea (South)
Document type	Journal Article
ISSN	2287-7843
ISSN	2287-7843
DOI	10.5351/CSAM.2013.20.6.455
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Prevalence estimation by joint use of big data and health survey

Ryung S. Kim / Viswanathan Shankar

BMC Medical Research Methodology, Vol 20, Iss 1, Pp 1-

a demonstration study using electronic health records in New York city

2020 Volume 10

Abstract: ... and a smaller gold-standard health survey. We first adopted Mosteller’s method that pools two ...

Abstract	Abstract Background Electronic Health Records (EHR) has been increasingly used as a tool to monitor population health. However, subject-level errors in the records can yield biased estimates of health indicators. There is an urgent need for methods to estimate the prevalence of health indicators using large and real-time EHR while correcting the potential bias. Methods We demonstrate joint analyses of EHR and a smaller gold-standard health survey. We first adopted Mosteller’s method that pools two estimators, among which one is potentially biased. It only requires knowing the prevalence estimates from two data sources and their standard errors. Then, we adopted the method of Schenker et al., which uses multiple imputations of subject-level health outcomes that are missing for the subjects in EHR. This procedure requires information to link some subjects between two sources and modeling the mechanism of misclassification in EHR as well as modeling inclusion probabilities to both sources. Results In a simulation study, both estimators yielded negligible bias even when EHR was biased. They performed as well as health survey estimator when EHR bias was large and better than health survey estimator when EHR bias was moderate. It may be challenging to model the misclassification mechanism in real data for the subject-level imputation estimator. We illustrated the methods analyzing six health indicators from 2013 to 14 NYC HANES and the 2013 NYC Macroscope, and a study that linked some subjects in both data sources. Conclusions When a small gold-standard health survey exists, it can serve as a safeguard against potential bias in EHR through the joint analysis of the two sources.
Keywords	Big data ; Electronic health records ; Multiple imputations ; Measurement error ; Selection bias ; Population health surveillance ; Medicine (General) ; R5-920
Subject code	310
Language	English
Publishing date	2020-04-01T00:00:00Z
Publisher	BMC
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Prevalence estimation by joint use of big data and health survey: a demonstration study using electronic health records in New York city.

Kim, Ryung S / Shankar, Viswanathan

BMC medical research methodology

2020 Volume 20, Issue 1, Page(s) 77

Abstract: ... of EHR and a smaller gold-standard health survey. We first adopted Mosteller's method that pools two ...

Abstract	Background: Electronic Health Records (EHR) has been increasingly used as a tool to monitor population health. However, subject-level errors in the records can yield biased estimates of health indicators. There is an urgent need for methods to estimate the prevalence of health indicators using large and real-time EHR while correcting the potential bias. Methods: We demonstrate joint analyses of EHR and a smaller gold-standard health survey. We first adopted Mosteller's method that pools two estimators, among which one is potentially biased. It only requires knowing the prevalence estimates from two data sources and their standard errors. Then, we adopted the method of Schenker et al., which uses multiple imputations of subject-level health outcomes that are missing for the subjects in EHR. This procedure requires information to link some subjects between two sources and modeling the mechanism of misclassification in EHR as well as modeling inclusion probabilities to both sources. Results: In a simulation study, both estimators yielded negligible bias even when EHR was biased. They performed as well as health survey estimator when EHR bias was large and better than health survey estimator when EHR bias was moderate. It may be challenging to model the misclassification mechanism in real data for the subject-level imputation estimator. We illustrated the methods analyzing six health indicators from 2013 to 14 NYC HANES and the 2013 NYC Macroscope, and a study that linked some subjects in both data sources. Conclusions: When a small gold-standard health survey exists, it can serve as a safeguard against potential bias in EHR through the joint analysis of the two sources.
MeSH term(s)	Big Data ; Electronic Health Records ; Humans ; New York City/epidemiology ; Population Surveillance ; Prevalence
Language	English
Publishing date	2020-04-06
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	1471-2288
ISSN (online)	1471-2288
DOI	10.1186/s12874-020-00956-6
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Article ; Online: Corrigendum to “Co-use of cigarettes and cannabis among people with HIV

Jenny E. Ozga / Jonathan Shuter / Geetanjali Chander / Amanda L. Graham / Ryung S. Kim / Cassandra A. Stanton

Drug and Alcohol Dependence Reports, Vol 9, Iss , Pp 100200- (2023)

Results from a randomized controlled smoking cessation trial” [Drug and Alcohol Dependence Reports 7 (2023) 100172]

2023

Keywords	Medicine ; R
Language	English
Publishing date	2023-12-01T00:00:00Z
Publisher	Elsevier
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Co-use of cigarettes and cannabis among people with HIV: Results from a randomized controlled smoking cessation trial.

Ozga, Jenny E / Shuter, Jonathan / Chander, Geetanjali / Graham, Amanda L / Kim, Ryung S / Stanton, Cassandra A

Drug and alcohol dependence reports

2023 Volume 7, Page(s) 100172

Abstract: Significance: People with HIV (PWH) who smoke cigarettes have lower cessation rates than the general population. This study investigated whether changes in cannabis use frequency impedes cigarette cessation among PWH who are motivated to quit.: ... ...

Abstract	Significance: People with HIV (PWH) who smoke cigarettes have lower cessation rates than the general population. This study investigated whether changes in cannabis use frequency impedes cigarette cessation among PWH who are motivated to quit. Methods: Between 2016-2020, PWH who smoked cigarettes were enrolled in a randomized controlled trial for cigarette cessation. Analyses were limited to PWH who reported on their past 30-day (P30D) cannabis use during four study visits (baseline, 1-month, 3-month, and 6-month) (N=374). Descriptive statistics and multivariable logistic regression were used to evaluate changes in cannabis use frequency from baseline to 6 months and associations with cigarette abstinence at 6 months among PWH who reported no use during all four visits (n=176), as well as those who reported use during at least one visit and who increased (n=39), decreased (n=78), or had no change (n=81) in use frequency. Results: Among those who reported cannabis use during at least one visit (n=198), at baseline, 18.2% reported no use. At 6 months, 34.3% reported no use. Controlling for covariates, increased cannabis use frequency from baseline was associated with reduced odds of cigarette abstinence at 6 months versus decreased use frequency (aOR=0.22, 95% CI=0.03, 0.90) or no use at either time-point (aOR=0.25, 95% CI=0.04, 0.93). Conclusions: Increased cannabis use over 6 months was associated with reduced odds of cigarette smoking abstinence among PWH who were motivated to quit. Additional factors that influence cannabis use and cigarette cessation simultaneously are in need of further study.
Language	English
Publishing date	2023-06-08
Publishing country	Netherlands
Document type	Journal Article
ISSN	2772-7246
ISSN (online)	2772-7246
DOI	10.1016/j.dadr.2023.100172
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Interferon-β alleviates sepsis by SIRT1-mediated blockage of endothelial glycocalyx shedding.

Duan, Suhong / Kim, Seung-Gook / Lim, Hyung-Jin / Song, Hwa-Ryung / Han, Myung-Kwan

BMB reports

2023 Volume 56, Issue 5, Page(s) 314–319

Abstract: Sepsis is a life-threatening multi-organ dysfunction with high mortality caused by the body's ...

Abstract	Sepsis is a life-threatening multi-organ dysfunction with high mortality caused by the body's improper response to microbial infection. No new effective therapy has emerged that can adequately treat patients with sepsis. We previously demonstrated that interferon-β (IFN-β) protects against sepsis via sirtuin 1-(SIRT1)-mediated immunosuppression. Another study also reported its significant protective effect against acute respiratory distress syndrome, a complication of severe sepsis, in human patients. However, the IFN-β effect cannot solely be explained by SIRT1-mediated immunosuppression, since sepsis induces immunosuppression in patients. Here, we show that IFN-β, in combination with nicotinamide riboside (NR), alleviates sepsis by blocking endothelial damage via SIRT1 activation. IFN-β plus NR protected against cecal ligation puncture-(CLP)-induced sepsis in wild-type mice, but not in endothelial cell-specific Sirt1 knockout (EC-Sirt1 KO) mice. IFN-β upregulated SIRT1 protein expression in endothelial cells in a protein synthesisindependent manner. IFN-β plus NR reduced the CLP-induced increase in in vivo endothelial permeability in wild-type, but not EC-Sirt1 KO mice. IFN-β plus NR suppressed lipopolysaccharide-induced up-regulation of heparinase 1, but the effect was abolished by Sirt1 knockdown in endothelial cells. Our results suggest that IFN-β plus NR protects against endothelial damage during sepsis via activation of the SIRT1/heparinase 1 pathway. [BMB Reports 2023; 56(5): 314-319].
MeSH term(s)	Humans ; Animals ; Mice ; Sirtuin 1/metabolism ; Interferon-beta ; Endothelial Cells/metabolism ; Glycocalyx/metabolism ; Heparin Lyase ; Sepsis/drug therapy ; Sepsis/metabolism ; Mice, Inbred C57BL
Chemical Substances	Sirtuin 1 (EC 3.5.1.-) ; Interferon-beta (77238-31-4) ; Heparin Lyase (EC 4.2.2.7) ; SIRT1 protein, human (EC 3.5.1.-) ; Sirt1 protein, mouse (EC 3.5.1.-)
Language	English
Publishing date	2023-03-14
Publishing country	Korea (South)
Document type	News
ZDB-ID	2410389-5
ISSN	1976-670X ; 1976-6696
ISSN (online)	1976-670X
ISSN	1976-6696
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: Genetic Characterization and Evolution of Porcine Deltacoronavirus Isolated in the Republic of Korea in 2022.

Kim, Hye-Ryung / Park, Jonghyun / Lee, Kyoung-Ki / Jeoung, Hye-Young / Lyoo, Young S / Park, Seung-Chun / Park, Choi-Kyu

Pathogens (Basel, Switzerland)

2023 Volume 12, Issue 5

Abstract: Porcine deltacoronavirus (PDCoV) is an emerging coronavirus that causes diarrhea in nursing piglets. Since its first outbreak in the United States in 2014, this novel porcine coronavirus has been detected worldwide, including in Korea. However, no PDCoV ... ...

Abstract	Porcine deltacoronavirus (PDCoV) is an emerging coronavirus that causes diarrhea in nursing piglets. Since its first outbreak in the United States in 2014, this novel porcine coronavirus has been detected worldwide, including in Korea. However, no PDCoV case has been reported since the last report in 2016 in Korea. In June 2022, the Korean PDCoV strain KPDCoV-2201 was detected on a farm where sows and piglets had black tarry and watery diarrhea, respectively. We isolated the KPDCoV-2201 strain from the intestinal samples of piglets and sequenced the viral genome. Genetically, the full-length genome and spike gene of KPDCoV-2201 shared 96.9-99.2% and 95.8-98.8% nucleotide identity with other global PDCoV strains, respectively. Phylogenetic analysis suggested that KPDCoV-2201 belongs to G1b. Notably, the molecular evolutionary analysis indicated that KPDCoV-2201 evolved from a clade different from that of previously reported Korean PDCoV strains and is closely related to the emergent Peruvian and Taiwanese PDCoV strains. Furthermore, KPDCoV-2201 had one unique and two Taiwanese strain-like amino acid substitutions in the receptor-binding domain of the S1 region. Our findings suggest the possibility of transboundary transmission of the virus and expand our knowledge about the genetic diversity and evolution of PDCoV in Korea.
Language	English
Publishing date	2023-05-07
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2695572-6
ISSN	2076-0817
ISSN	2076-0817
DOI	10.3390/pathogens12050686
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Article ; Online: People with HIV who smoke cigarettes non-daily.

Shuter, Jonathan / Weinberger, Andrea H / Kahan, Abner / Duitz, David / Duitz, Jack / Chander, Geetanjali / Kim, Ryung S / Stanton, Cassandra A

AIDS care

2023 Volume 35, Issue 11, Page(s) 1768–1774

Abstract: Cigarette smoking is a leading cause of mortality in people with HIV (PWH) in the United States (US). A rising proportion of US tobacco users smoke non-daily, a phenomenon that is common among PWH. PWH who smoke non-daily may be attractive targets for ... ...

Abstract	Cigarette smoking is a leading cause of mortality in people with HIV (PWH) in the United States (US). A rising proportion of US tobacco users smoke non-daily, a phenomenon that is common among PWH. PWH who smoke non-daily may be attractive targets for cessation efforts, and, thus, a fuller understanding of non-daily smoking in PWH is important. We merged datasets from two randomized controlled tobacco treatment trials for PWH conducted in three cities from 2014-2020. The final dataset included 872 PWH. We analyzed sociodemographic characteristics and behavioral measures, such as nicotine dependence, motivation to quit, anxiety, and other substance use for associations with non-daily smoking, and we assessed non-daily smoking as a predictor of cessation. 13.4% of the sample smoked non-daily. In multivariable analyses, non-White race, higher anxiety, and higher motivation to quit were associated with non-daily smoking. PWH who smoked non-daily had 2.14 times the odds of those who smoked daily of quitting at six-months (95% C.I.:1.30-3.51,
MeSH term(s)	Humans ; Cigarette Smoking/epidemiology ; HIV Infections/epidemiology ; Smoking Cessation ; Tobacco Products ; Tobacco Use Disorder ; United States/epidemiology ; Randomized Controlled Trials as Topic
Language	English
Publishing date	2023-03-16
Publishing country	England
Document type	Journal Article ; Research Support, N.I.H., Extramural
ZDB-ID	1012651-x
ISSN	1360-0451 ; 0954-0121
ISSN (online)	1360-0451
ISSN	0954-0121
DOI	10.1080/09540121.2023.2188161
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Article ; Online: Social Needs Assessment and Linkage to Community Health Workers in a Large Urban Hospital System

Marc Shi / Kevin Fiori / Ryung S. Kim / Qi Gao / Galina Umanski / Iby Thomas / Andrew Telzak / Earle Chambers

Journal of Primary Care & Community Health, Vol

2023 Volume 14

Abstract: Objectives: Identifying social needs is a growing priority in primary care, but there is significant variation in how patients access services to meet such needs. This study identifies predictors of successful linkage with a community health worker (CHW) ...

Abstract	Objectives: Identifying social needs is a growing priority in primary care, but there is significant variation in how patients access services to meet such needs. This study identifies predictors of successful linkage with a community health worker (CHW) among patients with social needs seen in an outpatient setting. Methods: This study uses a cross-sectional analysis of social needs assessments administered in an urban health system between April 2018 and December 2019. Social needs included: food insecurity, housing quality, housing instability, healthcare cost, healthcare related transportation, utilities, care for dependents, legal assistance, safety, and getting along with household members. Patients with at least 1 social need and accepting help were included in the analysis. On contact with a CHW, patients were entered into a separate database. The primary outcome was successful “linkage,” defined by having a positive social needs assessment in the medical record and a corresponding record in the CHW database. Multivariate logistic regression was used to assess predictors of linkage. Results: Among patients with at least 1 social need accepting help, 25% (758/3064) were linked to a CHW. Positive predictors included female gender (OR 1.28 [95% CI 1.01-1.63]), Spanish language preference compared to English (1.51 [1.14-1.03]), and having a food related need (1.35 [1.03-1.79]). Negative predictors included age 18 to 65 (0.34 [0.17-0.71] for age 18-24) and 0 to 5 (0.45 [0.24-0.78]) compared to over 65, non-Hispanic White race compared to Hispanic race (0.39 [0.18-0.84]), and having needs of getting along with household members (0.52 [0.38-0.71]) and safety (0.64 [0.42-0.98]). Conclusions: Twenty-five percent of patients who had at least 1 social need and were accepting help had a successful CHW linkage. Predictors of linkage suggest areas of further system-level improvements to screening and referral interventions to target at risk patients and communities.
Keywords	Computer applications to medicine. Medical informatics ; R858-859.7 ; Public aspects of medicine ; RA1-1270
Subject code	360
Language	English
Publishing date	2023-04-01T00:00:00Z
Publisher	SAGE Publishing
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Co-use of cigarettes and cannabis among people with HIV

Jenny E. Ozga / Jonathan Shuter / Geetanjali Chander / Amanda L. Graham / Ryung S. Kim / Cassandra A. Stanton

Drug and Alcohol Dependence Reports, Vol 7, Iss , Pp 100172- (2023)

Results from a randomized controlled smoking cessation trial

2023

Abstract	Significance: People with HIV (PWH) who smoke cigarettes have lower cessation rates than the general population. This study investigated whether changes in cannabis use frequency impedes cigarette cessation among PWH who are motivated to quit. Methods: Between 2016-2020, PWH who smoked cigarettes were enrolled in a randomized controlled trial for cigarette cessation. Analyses were limited to PWH who reported on their past 30-day (P30D) cannabis use during four study visits (baseline, 1-month, 3-month, and 6-month) (N=374). Descriptive statistics and multivariable logistic regression were used to evaluate changes in cannabis use frequency from baseline to 6 months and associations with cigarette abstinence at 6 months among PWH who reported no use during all four visits (n=176), as well as those who reported use during at least one visit and who increased (n=39), decreased (n=78), or had no change (n=81) in use frequency. Results: Among those who reported cannabis use during at least one visit (n=198), at baseline, 18.2% reported no use. At 6 months, 34.3% reported no use. Controlling for covariates, increased cannabis use frequency from baseline was associated with reduced odds of cigarette abstinence at 6 months versus decreased use frequency (aOR=0.22, 95% CI=0.03, 0.90) or no use at either time-point (aOR=0.25, 95% CI=0.04, 0.93). Conclusions: Increased cannabis use over 6 months was associated with reduced odds of cigarette smoking abstinence among PWH who were motivated to quit. Additional factors that influence cannabis use and cigarette cessation simultaneously are in need of further study.
Keywords	Cigarette cessation ; Marijuana ; Cannabis ; People with HIV (PWH) ; Use frequency ; Vulnerable populations ; Medicine ; R
Subject code	310
Language	English
Publishing date	2023-06-01T00:00:00Z
Publisher	Elsevier
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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