Hanbin Lee
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View article: On ARGs, pedigrees, and genetic relatedness matrices
On ARGs, pedigrees, and genetic relatedness matrices Open
Genetic relatedness is a central concept in genetics, underpinning studies of population and quantitative genetics in human, animal, and plant settings. It is typically stored as a genetic relatedness matrix, whose elements are pairwise re…
View article: Accelerated formation of carbon nanotube network transistors through temperature-controlled solution deposition
Accelerated formation of carbon nanotube network transistors through temperature-controlled solution deposition Open
Solution-processed carbon nanotube thin-film transistors (CNT-TFTs) are attractive for low-cost and flexible electronics. However, achieving uniform and high-density CNT networks requires careful optimization of deposition parameters. In t…
View article: Genetic prediction with ARG-powered linear algebra
Genetic prediction with ARG-powered linear algebra Open
Ancestral recombination graphs (ARGs) are an attractive means for quantitative genetic analysis of complex traits because they encode the realized genetic relatedness between a sample of individuals in the presence of genetic drift, recomb…
View article: Admixed and single-continental genome segments of the same ancestry have distinct linkage disequilibrium patterns
Admixed and single-continental genome segments of the same ancestry have distinct linkage disequilibrium patterns Open
Background Admixed populations offer valuable insight into the genetic architecture of complex traits. Many studies have proposed methods for genome-wide association study (GWAS) in admixed populations and various simulation studies have e…
View article: randPedPCA: Rapid approximation of principal components from large pedigrees
randPedPCA: Rapid approximation of principal components from large pedigrees Open
Background Pedigrees continue to be extremely important in agriculture and conservation genetics with the pedigrees of modern breeding programmes easily comprising millions of records. The structure of such pedigrees is challenging to visu…
View article: On ARGs, pedigrees, and genetic relatedness matrices
On ARGs, pedigrees, and genetic relatedness matrices Open
Genetic relatedness is a central concept in genetics, underpinning studies of population and quantitative genetics in human, animal, and plant settings. It is typically stored as a genetic relatedness matrix (GRM), whose elements are pairw…
View article: Pseudobulk with proper offsets has the same statistical properties as generalized linear mixed models in single-cell case-control studies
Pseudobulk with proper offsets has the same statistical properties as generalized linear mixed models in single-cell case-control studies Open
Motivation Generalized linear mixed models (GLMMs), such as the negative-binomial or Poisson linear mixed model, are widely applied to single-cell RNA sequencing data to compare transcript expression between different conditions determined…
View article: Exploring the health literacy status of people with hearing impairment: a systematic review
Exploring the health literacy status of people with hearing impairment: a systematic review Open
Background People with hearing impairment have many problems with healthcare use, which is associated with health literacy. Research on health literacy is less focused on people with hearing impairments. This research aimed to explore the …
View article: Simulation of a randomly percolated CNT network for an improved analog physical unclonable function
Simulation of a randomly percolated CNT network for an improved analog physical unclonable function Open
As the Internet of Things (IoT) continues to expand, research on an alternative encryption technology, the physically unclonable function (PUF), is increasing. Carbon nanotube (CNT) network-based PUFs have the great advantage of having a v…
View article: Admixed and single-continental genome segments of the same ancestry have distinct linkage disequilibrium patterns
Admixed and single-continental genome segments of the same ancestry have distinct linkage disequilibrium patterns Open
Background: Admixed populations offer valuable insight into the genetic architecture of complex traits. Many studies have proposed methods for genome-wide association study (GWAS) in admixed populations and various simulation studies have …
View article: National and subnational regulation of farm practices for consumer products sold within a jurisdiction: California's Proposition 12
National and subnational regulation of farm practices for consumer products sold within a jurisdiction: California's Proposition 12 Open
This article studies the economic effects of regulations that restrict farm practices used to produce products sold within a regulating jurisdiction, regardless of where the product was produced. We apply this analysis to the impact of Cal…
View article: A genealogical interpretation of fixed and random effects models of complex traits
A genealogical interpretation of fixed and random effects models of complex traits Open
In the analysis of complex traits, genetic effects are frequently modelled as either fixed or random effects. Such assumptions serve as a foundation of defining heritability and relatedness using genome-wide single nucleotide polymorphism …
View article: Disentangling Linkage and Population Structure in Association Mapping
Disentangling Linkage and Population Structure in Association Mapping Open
Genome-wide association study (GWAS) tests single nucleotide polymorphism (SNP) markers across the genome to localize the underlying causal variant of a trait. Because causal variants are seldom observed directly, a surrogate model based o…
View article: Outcomes of Descemet’s membrane endothelial keratoplasty performed in combination with, before, or after cataract surgery in Fuchs’ endothelial dystrophy: A review of the literature and meta-analysis
Outcomes of Descemet’s membrane endothelial keratoplasty performed in combination with, before, or after cataract surgery in Fuchs’ endothelial dystrophy: A review of the literature and meta-analysis Open
This review aimed to compare the outcomes of Descemet’s membrane endothelial keratoplasty (DMEK) in combination with (category 1), before (category 2), or after cataract surgery (category 3) in patients with Fuchs’ endothelial dystrophy (F…
View article: General solution to inflated type I and II errors in multi-subject single-cell differential gene expression analysis
General solution to inflated type I and II errors in multi-subject single-cell differential gene expression analysis Open
Large-scale multi-subject single-cell data have become very common. For differential gene expression (DGE) analysis of these datasets, a common practice is to choose any of the two: pseudobulk methods or cell-wise methods. However, multi-s…
View article: Suffering from Vaccines or from Government? : Partisan Bias in COVID-19 Vaccine Adverse Events Coverage
Suffering from Vaccines or from Government? : Partisan Bias in COVID-19 Vaccine Adverse Events Coverage Open
Vaccine adverse events have been presumed to be a relatively objective measure that is immune to political polarization. The real-world data, however, shows the correlation between presidential disapproval ratings and the subjective severi…
View article: A theory-based practical solution to correct for sex-differential participation bias
A theory-based practical solution to correct for sex-differential participation bias Open
Most genomic cohorts are retrospective where the exposures and outcomes are predetermined prior to sample collection. Therefore, a spurious association between an exposure and an outcome can arise if both variables affect study participati…
View article: MarcoPolo: a method to discover differentially expressed genes in single-cell RNA-seq data without depending on prior clustering
MarcoPolo: a method to discover differentially expressed genes in single-cell RNA-seq data without depending on prior clustering Open
The standard analysis pipeline for single-cell RNA-seq data consists of sequential steps initiated by clustering the cells. An innate limitation of this pipeline is that an imperfect clustering result can irreversibly affect the succeeding…
View article: The impact of school closures on adolescent health-related outcomes during the COVID-19 pandemic: A natural experiment in South Korea
The impact of school closures on adolescent health-related outcomes during the COVID-19 pandemic: A natural experiment in South Korea Open
A large number of countries implemented school closure as a response to the COVID-19 pandemic in 2020. As existing studies mostly rely on retrospective or pre/post comparisons that are prone to unmeasured confounding, the effect of school …
View article: Evaluation of left ventricular function with cardiac magnetic resonance imaging and echocardiography after administration of dobutamine and esmolol in healthy beagle dogs
Evaluation of left ventricular function with cardiac magnetic resonance imaging and echocardiography after administration of dobutamine and esmolol in healthy beagle dogs Open
Unlike echocardiography, cardiac magnetic resonance imaging (cardiac MRI) results in a near-exact assessment of cardiac structures and function. However, most veterinary studies have focused on dogs with normal cardiac function. We hypothe…
View article: MarcoPolo: a clustering-free approach to the exploration of differentially expressed genes along with group information in single-cell RNA-seq data
MarcoPolo: a clustering-free approach to the exploration of differentially expressed genes along with group information in single-cell RNA-seq data Open
A common approach to analyzing single-cell RNA-sequencing data is to cluster cells first and then identify differentially expressed genes based on the clustering result. However, clustering has an innate uncertainty and can be imperfect, u…