Jingjing Yang

Multimodal Analysis of Transcriptional Regulation in the Dorsolateral Prefrontal Cortex Enhances Alzheimer's Disease Risk Gene Discovery

This study uses multimodal transcriptomic data to enhance Alzheimer's disease risk gene discovery, identifying 161 risk genes with proteomic support and an interconnected network of hub genes.

Integrating dorsolateral prefrontal cortex multi-omics and GWAS summary data enhances gene-mapping of Parkinson's disease

This study integrates multi-omics data from DLPFC with GWAS summary data to identify PD risk genes, finding significant overlaps between bulk and cell-type-aware TWAS and PWAS results.

Molecular signatures of genetically defined jugular nociceptors and their responses to allergic airway inflammation

The paper defines molecular profiles of genetically identified jugular nociceptors and examines their transcriptional responses to allergic airway inflammation.

STACCato: Identifying condition-related cell-cell communication events using supervised tensor analysis

STACCato identifies condition-related cell-cell communication events using supervised tensor analysis, improving inference over existing methods in scRNA-seq datasets.

Multi-tissue transcriptome-wide association study identifies 29 risk genes associated with attention-deficit/hyperactivity disorder

This study uses a multi-tissue transcriptome-wide association study to identify 29 risk genes for ADHD, including six previously unlinked genes.

Proteome-wide association studies using summary pQTL data of three tissues identified 30 risk genes of Alzheimer's disease dementia

CADET: Enhanced transcriptome-wide association analyses in admixed samples using eQTL summary data

CADET improves transcriptome-wide association studies in admixed populations by integrating local ancestry and eQTL data to enhance gene expression prediction and association testing.

Cell-type-specific Transcriptomic-wide Association Studies Detected 91 Independent Risk Genes for Alzheimer's Disease Dementia

The paper uses an omnibus xWAS pipeline to integrate snRNA-seq and GWAS data, identifying 91 independent cell-type-specific risk genes for Alzheimer's disease dementia.

Integrating spatial transcriptomics and snRNA-seq data enhances differential gene expression analysis results of AD-related phenotypes

This study integrates spatial transcriptomics and snRNA-seq data to improve differential gene expression analysis of AD-related phenotypes, identifying novel genes and pathways not detectable with traditional methods.

Genome-wide study of gene-by-sex interactions identifies risks for cleft palate

The paper identifies sex-specific genetic risks for cleft palate through genome-wide gene-by-sex interaction analysis in a trio-based cohort.

Cis- and trans-eQTL TWAS of breast and ovarian cancer identify more than 100 risk associated genes in the BCAC and OCAC consortia

This study performs cis- and trans-eQTL TWAS on breast and ovarian cancer data to identify 101 and 8 risk-associated genes, respectively, with several driven by trans-eQTLs.

Bayesian genome-wide TWAS with reference transcriptomic data of brain and blood tissues identified 93 risk genes for Alzheimer's disease dementia

This paper applies Bayesian genome-wide TWAS incorporating cis- and trans-eQTL from brain and blood tissues to identify 93 risk genes for Alzheimer's disease dementia.

SR-TWAS: Leveraging Multiple Reference Panels to Improve TWAS Power by Ensemble Machine Learning

SR-TWAS improves TWAS power by combining multiple reference panels and regression methods through ensemble learning, identifying risk genes for Alzheimer's and Parkinson's diseases.

OTTERS: A powerful TWAS framework leveraging summary-level reference data

OTTERS is a TWAS framework that uses summary-level eQTL reference data to estimate eQTL weights and perform omnibus TWAS, showing improved power and applicability.

Omnibus proteome-wide association study (PWAS-O) identified 43 risk genes for Alzheimer's disease dementia

The paper introduces PWAS-O, an omnibus proteome-wide association study method that identifies 43 risk genes for Alzheimer's disease dementia, including 5 novel ones.

Scalable Bayesian functional GWAS method accounting for multivariate quantitative functional annotations with applications to studying Alzheimer's disease

This paper introduces BFGWAS_QUANT, a scalable Bayesian functional GWAS method that improves variant prioritization in Alzheimer's disease by integrating multivariate quantitative annotations.

TIGAR-V2: Efficient TWAS Tool with Nonparametric Bayesian eQTL Weights of 49 Tissue Types from GTEx V8

TIGAR-V2 improves TWAS efficiency by directly reading VCF files, enabling parallel computation, and reducing computation cost by up to 90%, while identifying risk genes for breast and ovarian cancer.

Novel Variance-Component TWAS method for studying complex human diseases with applications to Alzheimer's dementia

This paper introduces VC-TWAS, a novel variance-component TWAS method that improves power for studying complex diseases like Alzheimer's dementia by relaxing assumptions about genetic effects.

Cross-Species Integration of Transcriptomic Effects of Tobacco and Nicotine Exposure Helps to Prioritize Genetic Effects on Human Tobacco Consumption

The paper uses cross-species transcriptomic data to identify genetic factors influencing human tobacco consumption, finding heritability enrichment in co-regulated genes.

Bayesian transcriptome-wide association study method leveraging both cis- and trans- eQTL information through summary statistics

This paper introduces BGW-TWAS, a Bayesian method for transcriptome-wide association studies that incorporates both cis- and trans-eQTL information, improving power and identifying novel associations with Alzheimer's disease.

Testing Structural Models of Psychopathology at the Genomic Level

This study tests structural models of psychopathology using genetic correlations from GWAS, finding a four-factor model better fits the data than a bifactor model.

Molecular signature of pruriceptive MrgprA3+ neurons

The paper identifies the molecular signature of MrgprA3+ neurons and their unique response to dermatitis, revealing novel markers and mechanisms of itch sensation.

Brain microRNAs associated with late-life depressive symptoms are also associated with cognitive trajectory and dementia

The paper identifies brain microRNAs linked to late-life depressive symptoms and shows their association with cognitive decline and dementia risk.

TIGAR: An Improved Bayesian Tool for Transcriptomic Data Imputation Enhances Gene Mapping of Complex Traits

The paper introduces a Bayesian method for transcriptomic data imputation that improves gene mapping of complex traits by enhancing imputation accuracy and TWAS power over existing tools.

Improved Score Statistics for Meta-analysis in Single-variant and Gene-level Association Studies

This paper introduces improved score statistics for meta-analysis in genetic association studies, enhancing power in unbalanced settings and multi-ethnic samples.

A scalable Bayesian method for integrating functional information in genome-wide association studies

This paper introduces a Bayesian method that integrates functional annotations into GWAS to identify causal variants and improve biological interpretation.