AIMC Topic: Genome-Wide Association Study

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The predictive power of profiling the DNA methylome in human health and disease.

Epigenomics
Early and accurate diagnosis significantly improves the chances of disease survival. DNA methylation (5mC), the major DNA modification in the human genome, is now recognized as a biomarker of immense clinical potential. This is due to its ability to ...

Meet the author: Hae Kyung Im.

Cell genomics
Hae Kyung Im's research group focuses on quantitative computational and statistical methods to tackle genomic data analysis and provides methods to translate the vast amount of genomic data for health research. In collaboration with Mengjie Chen's gr...

scPrediXcan integrates deep learning methods and single-cell data into a cell-type-specific transcriptome-wide association study framework.

Cell genomics
Transcriptome-wide association studies (TWASs) help identify disease-causing genes but often fail to pinpoint disease mechanisms at the cellular level because of the limited sample sizes and sparsity of cell-type-specific expression data. Here, we pr...

Identification of biomarkers for endometriosis based on summary-data-based Mendelian randomization and machine learning.

Medicine
Endometriosis (EM) significantly impacts the quality of life, and its diagnosis currently relies on surgery, which carries risks and may miss early lesions. Noninvasive biomarkers are urgently needed for early diagnosis and personalized treatment. Th...

Rethinking GWAS: how lessons from genetic screens and artificial intelligence could reveal biological mechanisms.

Bioinformatics (Oxford, England)
MOTIVATION: Modern single-cell omics data are key to unraveling the complex mechanisms underlying risk for complex diseases revealed by genome-wide association studies (GWAS). Phenotypic screens in model organisms have several important parallels to ...

MIRACN: a residual convolutional neural network for predicting cell line specific functional regulatory variants.

Briefings in bioinformatics
In post-genome-wide association study era, interpretation of noncoding variants remains a significant challenge due to their complexity and the limited understanding of their functions. Here, we developed MIRACN, a novel residual convolutional neural...

MUTATE: a human genetic atlas of multiorgan artificial intelligence endophenotypes using genome-wide association summary statistics.

Briefings in bioinformatics
Artificial intelligence (AI) has been increasingly integrated into imaging genetics to provide intermediate phenotypes (i.e. endophenotypes) that bridge the genetics and clinical manifestations of human disease. However, the genetic architecture of t...

Integration of machine learning and genome-wide association study to explore the genomic prediction accuracy of agronomic trait in oats (Avena sativa L.).

The plant genome
Machine learning (ML) has garnered significant attention for its potential to enhance the accuracy of genomic predictions (GPs) in various economic crops with the use of complete genomic information. Genome-wide association studies (GWAS) are widely ...

scTWAS Atlas: an integrative knowledgebase of single-cell transcriptome-wide association studies.

Nucleic acids research
Single-cell transcriptome-wide association studies (scTWAS) is a new method for conducting TWAS analysis at the cellular level to identify gene-trait associations with higher precision. This approach helps overcome the challenge of interpreting cell-...

Leveraging molecular-QTL co-association to predict novel disease-associated genetic loci using a graph convolutional neural network.

PloS one
Genome-wide association studies (GWAS) have successfully uncovered numerous associations between genetic variants and disease traits to date. Yet, identifying significantly associated loci remains a considerable challenge due to the concomitant multi...