Wei Zhao

Genomic Characterization of Lung Cancer in Never-Smokers Using Deep Learning

This paper develops a deep learning model to predict molecular alterations in never-smoker lung adenocarcinomas from histological images, achieving high accuracy for most features.

Revealing the Drivers Underlying Distinct Evolutionary Trajectories in Lung Adenocarcinoma

This study identifies three distinct evolutionary trajectories in lung adenocarcinomas using whole-genome sequencing, revealing that some never-smoking tumors follow smoking-like paths driven by KRAS mutations.

Identifying High-Dimensional Genomic Factors Modulating Biological Networks Across Multi-Omics Data

GFBioNet identifies genomic factors modulating trait-trait relationships in multi-omics data, revealing host genetics, microbial taxa, and mutations affecting biological networks.

APOBEC shapes tumor evolution and age at onset of lung cancer in smokers

The paper identifies two lung cancer subtypes defined by APOBEC mutagenesis levels and shows their association with different genetic mutations, aging, and immune responses.

Discovering hidden brain network responses to naturalistic stimuli via tensor component analysis of multi-subject fMRI data

This paper introduces a tensor component analysis framework to identify shared brain networks across subjects during naturalistic stimuli, improving reproducibility and capturing individual differences.

SERM: a self-consistent deep learning solution forrapid and accurate gene expression recovery

SERM improves gene expression imputation in scRNA-seq data with higher accuracy and 100-fold faster computation than existing methods.

Tissue-Specific Alteration of Metabolic Pathways Influences Glycemic Regulation

The paper identifies genetic variants and transcripts associated with glycemic traits by analyzing exome-array data from 144,600 individuals, highlighting tissue-specific roles in glucose regulation.

Cell atlas of human uterus

This study constructs a single-cell RNA-seq atlas of the human uterus, identifying stem/progenitor-like ciliated epithelial cells and their regulatory signals in endometrial regeneration and disease.

Comprehensive characterization of genomic, transcriptomic and epigenomic artifacts introduced in formalin-fixed, paraffin-embedded tissues.

This study characterizes genomic, transcriptomic, and epigenomic artifacts in FFPE tissues and provides best practices to mitigate their impact on molecular analysis.

Human knockouts in a cohort with a high rate of consanguinity

The paper identifies homozygous null mutations in 961 genes in a consanguineous Pakistani cohort and reports their phenotypic consequences.

Empirical determinants of adaptive mutations in yeast experimental evolution

The paper identifies adaptive mutations in yeast experimental evolution by comparing potential beneficial mutations with those observed, finding that half of the mutations improve fitness and alternative mutations can be selected.