Lin Lin

Single-cell analysis of the epigenome and 3D chromatin architecture in the human retina

The paper performs single-cell multiomics analysis of the human retina to identify regulatory elements and develop predictors for non-coding risk variants.

Multi-omic analysis of photoreceptor alterations during early-onset retinal degeneration in Mfrp-/- mice

This study uses multi-omic analysis to identify transcriptional and spatial changes in Mfrp-/- mice, revealing photoreceptor loss and gene regulatory disruptions during retinal degeneration.

cytoGPNet: Enhancing Clinical Outcome Prediction Accuracy Using Longitudinal Cytometry Data in Small Cohort Studies

cytoGPNet improves clinical outcome prediction using longitudinal cytometry data in small cohorts by addressing challenges in sample variability, temporal analysis, robustness, and interpretability.

eSPred: Explainable scRNA-seq Prediction via Customized Foundation Models and Pathway-Aware Fine-tuning

eSPred improves subject-level prediction from scRNA-seq by integrating cell-type and pathway information, enhancing accuracy and linking to disease mechanisms.

A comparative atlas of single-cell chromatin accessibility in the human brain

The paper constructs a single-cell chromatin accessibility atlas of the human brain, identifies cell-type-specific regulatory elements, and develops models to predict regulatory function of disease risk variants.

Cell Type- and Tissue-specific Enhancers in Craniofacial Development

The paper identifies 14,000 human craniofacial enhancers across developmental stages and shows 56% are conserved in mice, providing cell type- and stage-specific activity profiles.

Retrovirus insertion site analysis of LGL leukemia patient genomes

The paper analyzes LGL leukemia patient genomes to detect retrovirus integration sites but finds no new retroviruses, instead identifying polymorphic HERV-K provirus sites more prevalent in LGL patients.

A Computational Framework To Assess Genome-Wide Distribution Of Polymorphic Human Endogenous Retrovirus-K In Human Populations

The paper develops a computational framework to assess the genome-wide distribution of polymorphic HERV-K in human populations using whole genome short read data and identifies population-specific variations.