A5088627285- Genetic Associations and Epidemiology
- Gene expression and cancer classification
- Genomics and Phylogenetic Studies
- Morphological variations and asymmetry
- Genomics and Rare Diseases
- Algorithms and Data Compression
- Bioinformatics and Genomic Networks
- Genetic Mapping and Diversity in Plants and Animals
- Evolutionary Algorithms and Applications
Sun Yat-sen University
2021-2025
Fifth Affiliated Hospital of Sun Yat-sen University
2023-2024
Bridge University
2021
Tianjin Medical University
2021
University of Hong Kong
2021
Mendelian randomization harnesses genetic variants as instrumental variables to infer causal relationships between exposures and outcomes. However, certain can affect both the exposure outcome through a shared factor. This phenomenon, called correlated horizontal pleiotropy, may result in false-positive findings. Here, we propose Pleiotropic Clustering framework for randomization, PCMR. PCMR detects pleiotropy extends zero modal assumption enhance inference trait pairs with pleiotropic...
Increasing evidence shows that genetic interaction across the entire genome may explain a non-trivial fraction of diseases. Digenic is simplest manifestation among genes. However, systematic exploration digenic interactive effects on whole often discouraged by high dimension burden. Thus, numerous interactions are yet to be identified for many Here, we propose Interaction Effect Predictor (DIEP), an accurate machine-learning approach identify genome-wide pathogenic coding gene pairs with...
Abstract Whole -genome sequencing projects of millions subjects contain enormous genotypes, entailing a huge memory burden and time for computation. Here, we present GBC, toolkit rapidly compressing large-scale genotypes into highly addressable byte-encoding blocks under an optimized parallel framework. We demonstrate that GBC is up to 1000 times faster than state-of-the-art methods access manage compressed while maintaining competitive compression ratio. also showed conventional analysis...
<title>Abstract</title> Correlated horizontal pleiotropy poses a formidable challenge in Mendelian randomization (MR). Existing methods, relying on sparse pleiotropic variants or zero modal assumption (ZEMPA), may face issues, especially trait pairs with high proportion of correlated variants. We propose an innovative Pleiotropic Clustering model for MR analysis (PCMR) to cluster instrument variables vertical effects. Our simulations showed that PCMR had superior performance isolating causal...
Abstract Genetic interactions play a crucial role in understanding the susceptibility and etiology of complex human diseases. However, existing methods for analyzing gene-gene are often limited to common variants may not capture effects rare variants. In this study, we propose novel method called GGI-RUNNER that is specifically designed evaluates enrichment variant interaction burden patients relative baselines general population. The estimated pairwise genes by recursive truncated...
Abstract Whole-genome sequencing projects of millions persons contain enormous genotypes, entailing a huge memory burden and time overhead during computation. Here, we introduce Genotype Blocking Compressor (GBC), method for rapidly compressing large-scale genotypes into fast-accessible highly parallelizable format. We demonstrate that GBC has competitive compression ratio to help save storage space. Furthermore, is the fastest access manage compressed genotype files (sorting, merging,...