A5011295368- Genetic Associations and Epidemiology
- Bioinformatics and Genomic Networks
- Epigenetics and DNA Methylation
- RNA modifications and cancer
- Gene expression and cancer classification
- Genetic Mapping and Diversity in Plants and Animals
- Statistical Methods and Inference
- Advanced Causal Inference Techniques
- Genetic and phenotypic traits in livestock
- Cancer-related molecular mechanisms research
- Folate and B Vitamins Research
- Atherosclerosis and Cardiovascular Diseases
- Prostate Cancer Treatment and Research
- Genetic Syndromes and Imprinting
- Metabolomics and Mass Spectrometry Studies
- Statistical Methods and Bayesian Inference
- Pancreatic and Hepatic Oncology Research
- Cancer Genomics and Diagnostics
- Cancer-related gene regulation
- Statistical Methods in Clinical Trials
- RNA Research and Splicing
- Molecular Biology Techniques and Applications
- Radiomics and Machine Learning in Medical Imaging
- Colorectal Cancer Screening and Detection
- Congenital Heart Disease Studies
The University of Texas MD Anderson Cancer Center
2022-2025
Huazhong Agricultural University
2021-2024
Key Laboratory of Guangdong Province
2023-2024
Agricultural Genomics Institute at Shenzhen
2023-2024
Chinese Academy of Agricultural Sciences
2023-2024
Northwestern University
2022
Florida State University
2018-2022
Shanghai Zhangjiang Laboratory
2022
Tulane University
2020
Central South University
2020
FOXO1A and FOXO3A are two members of the FoxO family. has recently been linked to human longevity in Japanese, German Italian populations. Here we tested genetic contribution phenotype Han Chinese population. Six tagging SNPs from were selected genotyped 1817 centenarians younger individuals. Two found be associated with women (P = 0.01–0.005), whereas all three both genders 0.005–0.001). One SNP was not longevity. In haplotype association tests, OR (95% CI) for haplotypes TTG CCG female...
Abstract It remains elusive whether some of the associations identified in genome-wide association studies prostate cancer (PrCa) may be due to regulatory effects genetic variants on CpG sites, which further influence expression PrCa target genes. To search for sites associated with risk, here we establish models predict methylation (N = 1,595) and conduct analyses risk (79,194 cases 61,112 controls). We identify 759 showing an association, including 15 located at novel loci. Among those 42...
Machine-assisted pathological recognition has been focused on supervised learning (SL) that suffers from a significant annotation bottleneck. We propose semi-supervised (SSL) method based the mean teacher architecture using 13,111 whole slide images of colorectal cancer 8803 subjects 13 independent centers. SSL (~3150 labeled, ~40,950 unlabeled; ~6300 ~37,800 unlabeled patches) performs significantly better than SL. No difference is found between (~6300 unlabeled) and SL (~44,100 labeled) at...
Abstract Background Specific peripheral proteins have been implicated to play an important role in the development of Alzheimer’s disease (AD). However, roles additional novel protein biomarkers AD etiology remains elusive. The availability large-scale GWAS and plasma proteomic data provide resources needed for identification causally relevant circulating that may serve as risk factors potential therapeutic targets. Methods We established validated genetic prediction models levels...
Two new gene-based association analysis methods, called PrediXcan and TWAS for GWAS individual-level summary data, respectively, were recently proposed to integrate with eQTL alleviating two common problems in by boosting statistical power facilitating biological interpretation of discoveries. Based on a novel reformulation TWAS, we propose more powerful test single set or multiple sets data statistics. The was applied several datasets, including lipid datasets based [Formula: see text]...
There is increasing interest in investigating how the compositions of microbial communities are associated with human health and disease. Although existing methods have identified many associations, a proper choice phylogenetic distance critical for power these methods. To assess an overall association between composition community outcome interest, we present novel multivariate testing method called aMiSPU, that joint highly adaptive over all observed taxa thus high powered across various...
Abstract Background Genome-wide association studies (GWAS) have identified over 56 susceptibility loci associated with Alzheimer’s disease (AD), but the genes responsible for these associations remain largely unknown. Methods We performed a large transcriptome-wide study (TWAS) leveraging modified UTMOST (Unified Test MOlecular SignaTures) prediction models of ten brain tissues that are potentially related to AD discover novel genetic and putative target in 71,880 (proxy) cases 383,378...
Many high-dimensional hypothesis tests aim to globally examine marginal or low-dimensional features of a joint distribution, such as testing mean vectors, covariance matrices and regression coefficients. This paper constructs family U-statistics unbiased estimators the
Meta-analysis is a widely used tool for synthesizing results from multiple studies. The collected studies are deemed heterogeneous when they do not share common underlying effect size; thus, the factors attributable to heterogeneity need be carefully considered. A critical problem in meta-analyses and systematic reviews that outlying frequently included, which can lead invalid conclusions affect robustness of decision-making. Outliers may caused by several such as study selection criteria,...
DNA methylation is a widely studied epigenetic phenomenon; alterations in patterns influence human phenotypes and risk of disease. As part the Atherosclerosis Risk Communities (ARIC) study, Illumina Infinium HumanMethylation450 (HM450) BeadChip was used to measure peripheral blood obtained from ~3000 African American study participants. Over 480,000 cytosine-guanine (CpG) dinucleotide sites were surveyed on HM450 BeadChip. To evaluate impact technical variation, 265 replicates 130...
DNA damage response is a fundamental mechanism to maintain genome stability. The ATR-WEE1 kinase module plays central role in replication stress. Although the pathway has been well studied yeasts and animals, how functions plants remains unclear. Through genetic screen for suppressors of Arabidopsis atr mutant, we found that loss function PRL1, core subunit evolutionarily conserved MAC complex involved alternative splicing, suppresses hypersensitivity wee1 Biochemical studies revealed WEE1...
Abstract Alzheimer disease (AD) is a common neurodegenerative with late onset. It critical to identify novel blood-based DNA methylation biomarkers better understand the extent of molecular pathways affected in AD. Two sets blood genetic prediction models developed using different reference panels and modelling strategies were leveraged evaluate associations genetically predicted levels AD risk 111,326 (46,828 proxy) cases 677,663 controls. A total 1,168 cytosine-phosphate-guanine (CpG)...
The bromodomain protein Brd4 plays critical roles in cellular proliferation and cell cycle progression. In this study, we investigated the involvement of regulation observed aberrant chromosome segregation failures cytokinesis cancer cells as well primary keratinocytes which has been knocked down by RNA interference. Suppression levels proliferating decreased Aurora B transcript abolished its chromosomal distribution. contrast, exogenous expression stimulated promoter reporter activity...
The genetic contribution to coronary artery disease (CAD) remains largely unclear. We combined screening with functional characterizations identify novel loci and candidate genes for CAD.We performed genome-wide followed by multicenter validation in 8 cohorts consisting of 21 828 participants Han ethnicity identified 3 intragenic SNPs (single nucleotide polymorphisms), rs9486729 (SCML4 [Scm polycomb group protein-like 4]; odds ratio, 1.25; 95% CI, 1.17-1.34; P=3.51×10-11), rs17165136 (THSD7A...
Abstract Pancreatic cancer is among the most well-characterized types, yet a large proportion of heritability pancreatic risk remains unclear. Here, we performed transcriptome-wide association study to systematically investigate associations between genetically predicted gene expression in normal pancreas tissue and risk. Using data from 305 subjects mostly European descent Genotype-Tissue Expression Project, built comprehensive genetic models predict expression, modifying UTMOST (unified...
Genes with moderate to low expression heritability may explain a large proportion of complex trait etiology, but such genes cannot be sufficiently captured in conventional transcriptome-wide association studies (TWASs), partly due the relatively small available reference datasets for developing genetic prediction models capture genetically regulated components gene expression. Here, we introduce method, Summary-level Unified Method Modeling Integrated Transcriptome (SUMMIT), improve model...
Plants have evolved sophisticated mechanisms to regulate gene expression activate immune responses against pathogen infections. However, how the translation system contributes plant immunity is largely unknown. The evolutionarily conserved thiolation modification of transfer RNA (tRNA) ensures efficient decoding during translation. Here, we show that tRNA required for in Arabidopsis. We identify a cgb mutant hyper-susceptible Pseudomonas syringae. CGB encodes ROL5, homolog yeast NCS6...