Hon‐Cheong So
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View article: The effect of prenatal psychotropic drug exposures on obstetric complications: 19-year population-based study
The effect of prenatal psychotropic drug exposures on obstetric complications: 19-year population-based study Open
Background Although current prescribing guidelines suggest continuation of psychotropic drugs in pregnant women, population-based evidence supporting their safety is limited. Aims This study aims to clarify the plausible causal links betwe…
View article: Pharmacogenetic study of antipsychotic–induced lipid and BMI changes in Chinese schizophrenia patients: A Genome-Wide Association Study
Pharmacogenetic study of antipsychotic–induced lipid and BMI changes in Chinese schizophrenia patients: A Genome-Wide Association Study Open
View article: Association of COVID-19 with risks of all-cause and cause-specific mortality post-infection: A UK Biobank cohort study
Association of COVID-19 with risks of all-cause and cause-specific mortality post-infection: A UK Biobank cohort study Open
Background SARS-CoV-2 infection can lead to fatal multi-organ complications extending beyond the acute phase. However, a comprehensive assessment of relatively long-term mortality risks across various organ systems following COVID-19 is la…
View article: Genome-Wide Association Study of COVID-19 Breakthrough Infections and Genetic Overlap with Other Diseases: A Study of the UK Biobank
Genome-Wide Association Study of COVID-19 Breakthrough Infections and Genetic Overlap with Other Diseases: A Study of the UK Biobank Open
The coronavirus disease 2019 (COVID-19) pandemic has led to substantial health and financial burdens worldwide, and vaccines provide hope for reducing the burden of this pandemic. However, vaccinated people remain at risk for SARS-CoV-2 in…
View article: Genome-wide association studies of hospitalized influenza identify 4 risk loci and a relationship with COVID-19
Genome-wide association studies of hospitalized influenza identify 4 risk loci and a relationship with COVID-19 Open
Influenza remains a significant global health burden, with the potential for severe complications and mortality. This study investigates the genetic architecture of hospitalized influenza and explores its shared and distinct genetic factor…
View article: Addendum to Ancient DNA data from Mengzi Ren, a Late Pleistocene individual from Southeast Asia, cannot be reliably used in population genetic analysis
Addendum to Ancient DNA data from Mengzi Ren, a Late Pleistocene individual from Southeast Asia, cannot be reliably used in population genetic analysis Open
In addition to the issues pointed out in Tabin et al (1), the MZR data from Zhang et. al 2022 are suggestive of high levels of contamination from a source similar to modern Han Chinese, the majority population in the country where MZR was …
View article: Concerns about ancient DNA sequences reported from a Late Pleistocene individual from Southeast Asia
Concerns about ancient DNA sequences reported from a Late Pleistocene individual from Southeast Asia Open
View article: A framework for detecting causal effects of risk factors at an individual level based on principles of Mendelian randomisation: applications to modelling individualised effects of lipids on coronary artery disease
A framework for detecting causal effects of risk factors at an individual level based on principles of Mendelian randomisation: applications to modelling individualised effects of lipids on coronary artery disease Open
This work was supported partially by a National Natural Science Foundation of China grant (NSFC; grant number 81971706), the KIZ-CUHK Joint Laboratory of Bioresources and Molecular Research of Common Diseases, Kunming Institute of Zoology …
View article: Increased risk of hospitalization for various disorders after COVID-19 infection: A Cohort study of the UK biobank spanning over a hundred disease categories
Increased risk of hospitalization for various disorders after COVID-19 infection: A Cohort study of the UK biobank spanning over a hundred disease categories Open
View article: Longitudinal impact of different treatment sequences of second-generation antipsychotics on metabolic outcomes: a study using targeted maximum likelihood estimation
Longitudinal impact of different treatment sequences of second-generation antipsychotics on metabolic outcomes: a study using targeted maximum likelihood estimation Open
Background Second-generation antipsychotics (SGAs) cause metabolic side effects. However, patients’ metabolic profiles were influenced by time-invariant and time-varying confounders. Real-world evidence on the long-term, dynamic effects of…
View article: Integrating brain imaging features and genomic profiles for the subtyping of major depression
Integrating brain imaging features and genomic profiles for the subtyping of major depression Open
Background Precise stratification of patients into homogeneous disease subgroups could address the heterogeneity of phenotypes and enhance understanding of the pathophysiology underlying specific subtypes. Existing literature on subtyping …
View article: Estimating cell compositions and cell-type-specific expressions from GWAS data using invariant causal prediction, deep learning and regularized matrix completion: Bridging GWAS and single-cell resolution in Biobank-scale studies
Estimating cell compositions and cell-type-specific expressions from GWAS data using invariant causal prediction, deep learning and regularized matrix completion: Bridging GWAS and single-cell resolution in Biobank-scale studies Open
Dissecting large bulk RNA-seq data into cell-type proportions and cell-type-specific expression profiles has the potential to significantly enhance our understanding of disease mechanisms at the cellular level. While single-cell RNA sequen…
View article: Longitudinal impact of different treatment sequences of second-generation antipsychotics on metabolic outcomes: a study using targeted maximum likelihood estimation
Longitudinal impact of different treatment sequences of second-generation antipsychotics on metabolic outcomes: a study using targeted maximum likelihood estimation Open
Background Second-generation antipsychotics (SGAs) cause metabolic side-effects. However, patients’ metabolic profiles were influenced by many time-invariant and time-varying confounders. Real-world evidence on the long-term, dynamic effec…
View article: Estimating cell compositions and cell-type-specific expressions from GWAS data using invariant causal prediction, deep learning and regularized matrix completion
Estimating cell compositions and cell-type-specific expressions from GWAS data using invariant causal prediction, deep learning and regularized matrix completion Open
Dissecting large bulk RNA-seq data into cell proportions and cell type specific expression profiles could significantly enhance our understanding of disease mechanisms at cell level and facilitate the identification of novel drug targets a…
View article: Publisher Correction: scParser: sparse representation learning for scalable single-cell RNA sequencing data analysis
Publisher Correction: scParser: sparse representation learning for scalable single-cell RNA sequencing data analysis Open
View article: Direct causal variable discovery leveraging the invariance principle: application in biomedical studies
Direct causal variable discovery leveraging the invariance principle: application in biomedical studies Open
Accurate identification of direct causal (parental) variables for a target is of primary interest in many applications, especially in biomedical sciences. It could promote our understanding of disease mechanisms, and facilitate the discove…
View article: Uncovering the genetic underpinnings for different psychiatric disorder combinations
Uncovering the genetic underpinnings for different psychiatric disorder combinations Open
Psychiatric disorders are highly heterogeneous. Clinically, it is meaningful to distinguish psychiatric disorders by the presence or absence of a specific comorbid condition. In this study, we employed a recently developed algorithm (CombG…
View article: scParser: sparse representation learning for scalable single-cell RNA sequencing data analysis
scParser: sparse representation learning for scalable single-cell RNA sequencing data analysis Open
The rapid rise in the availability and scale of scRNA-seq data needs scalable methods for integrative analysis. Though many methods for data integration have been developed, few focus on understanding the heterogeneous effects of biologica…
View article: Genome-wide association study of COVID-19 Breakthrough Infections and genetic overlap with other diseases: A study of the UK Biobank
Genome-wide association study of COVID-19 Breakthrough Infections and genetic overlap with other diseases: A study of the UK Biobank Open
Background The COVID-19 pandemic has led to substantial health and financial burden worldwide, and vaccines provide hope to reduce the burden of this pandemic. However, vaccinated people remain at risk for SARS-CoV-2 infection. Genome-wide…
View article: Association of COVID-19 vaccination with risks of hospitalization due to cardiovascular and other diseases: A study using data from the UK Biobank
Association of COVID-19 vaccination with risks of hospitalization due to cardiovascular and other diseases: A study using data from the UK Biobank Open
Taken together, this study provides further support to the safety and benefits of COVID-19 vaccination, and such benefits may extend beyond reduction of infection risk or severity per se. However, causal relationship cannot be concluded an…
View article: A genome-wide association study of Chinese and English language phenotypes in Hong Kong Chinese children
A genome-wide association study of Chinese and English language phenotypes in Hong Kong Chinese children Open
Dyslexia and developmental language disorders are important learning difficulties. However, their genetic basis remains poorly understood, and most genetic studies were performed on Europeans. There is a lack of genome-wide association stu…
View article: INSIDER: Interpretable sparse matrix decomposition for RNA expression data analysis
INSIDER: Interpretable sparse matrix decomposition for RNA expression data analysis Open
RNA sequencing (RNA-Seq) is widely used to capture transcriptome dynamics across tissues, biological entities, and conditions. Currently, few or no methods can handle multiple biological variables (e.g., tissues/ phenotypes) and their inte…
View article: Long-term Metabolic Side Effects of Second-Generation Antipsychotics in Chinese Patients with Schizophrenia: A Within-Subject Approach with modelling of dosage effects
Long-term Metabolic Side Effects of Second-Generation Antipsychotics in Chinese Patients with Schizophrenia: A Within-Subject Approach with modelling of dosage effects Open
Background Second-generation antipsychotics (SGAs) are commonly used to treat schizophrenia (SCZ), but SGAs may differ in the severity of side effects. Previous observational studies had limitations like failing to account for confounding …
View article: Discovering additional genetic loci associated with six psychiatric disorders/traits<i>via</i>FDR regression model leveraging external genetic and biological data
Discovering additional genetic loci associated with six psychiatric disorders/traits<i>via</i>FDR regression model leveraging external genetic and biological data Open
Background Common psychiatric disorders have substantial heritability influenced by multiple genes. While a number of susceptibility variants have been identified, many associated variants remain undiscovered. This study aimed to identify …
View article: SumVg: Total Heritability Explained by All Variants in Genome-Wide Association Studies Based on Summary Statistics with Standard Error Estimates
SumVg: Total Heritability Explained by All Variants in Genome-Wide Association Studies Based on Summary Statistics with Standard Error Estimates Open
Genome-wide association studies (GWAS) are commonly employed to study the genetic basis of complex traits/diseases, and a key question is how much heritability could be explained by all single nucleotide polymorphisms (SNPs) in GWAS. One w…
View article: A framework for detecting causal effects of risk factors at an individual level based on principles of Mendelian randomization: Applications to modelling individualized effects of lipids on coronary artery disease
A framework for detecting causal effects of risk factors at an individual level based on principles of Mendelian randomization: Applications to modelling individualized effects of lipids on coronary artery disease Open
Mendelian Randomization (MR), a method that employs genetic variants as instruments for causal inference, has gained popularity in assessing the causal effects of risk factors. However, almost all MR studies primarily concentrate on the po…
View article: Early-onset schizophrenia is associated with immune-related rare variants in a Chinese sample
Early-onset schizophrenia is associated with immune-related rare variants in a Chinese sample Open
Background Rare variants are likely to contribute to schizophrenia (SCZ), given the large discrepancy between the heritability estimated from twin and GWAS studies. Furthermore, the nature of the rare-variant contribution to SCZ may vary w…
View article: Pathway-Specific Polygenic Scores Improve Cross-Ancestry Prediction of Psychosis and Clinical Outcomes
Pathway-Specific Polygenic Scores Improve Cross-Ancestry Prediction of Psychosis and Clinical Outcomes Open
Psychotic disorders are debilitating conditions with disproportionately high public health burden. Genetic studies indicate high heritability, but current polygenic scores (PGS) account for only a fraction of variance in psychosis risk. PG…
View article: SR2: Sparse Representation Learning for Scalable Single-cell RNA Sequencing Data Analysis
SR2: Sparse Representation Learning for Scalable Single-cell RNA Sequencing Data Analysis Open
Single-cell RNA-sequencing (scRNA-seq) technology has been widely used to measure the transcriptome of cells in complex and heterogeneous systems. Integrative analysis of multiple scRNA-seq data can transform our understanding of various a…
View article: The genetic basis of onset age in schizophrenia: evidence and models
The genetic basis of onset age in schizophrenia: evidence and models Open
Schizophrenia is a heritable neurocognitive disorder affecting about 1% of the population, and usually has an onset age at around 21–25 in males and 25–30 in females. Recent advances in genetics have helped to identify many common and rare…