Yumei Li

Comprehensive single-cell atlas of the mouse retina

The paper generates a large-scale single-cell RNA-seq dataset of the mouse retina and integrates it with public data to create a comprehensive cell atlas.

Integrated multi-omics single cell atlas of the human retina

The paper creates a comprehensive human retina cell atlas using single-cell multi-omics data, revealing over 110 cell types and their gene regulatory networks, and enables fine-mapping of GWAS and eQTL variants.

DeMixSC: a deconvolution framework that uses single-cell sequencing plus a small benchmark dataset for improved analysis of cell-type ratios in complex tissue samples

DeMixSC improves deconvolution accuracy by using single-cell RNA-seq and a benchmark dataset to account for technological discrepancies in complex tissue samples.

A multi-omics atlas of the human retina at single-cell resolution

This paper presents a comprehensive single-cell multi-omics atlas of the human retina, integrating RNA-seq and ATAC-seq data to identify cell-type-specific cis-element-gene relationships and transcription factor regulons.

Systematic assessment of the contribution of structural variants to inherited retinal diseases

This study identifies 16 pathogenic structural variants in 16 IRD families using whole-genome sequencing, finding SVs contribute 2.1% to unresolved IRD cases but less than SNVs and indels.

A Single Cell Genomics Atlas of the Drosophila Larval Eye Reveals Distinct Developmental Timelines and Novel Markers for All Photoreceptor Subtypes

Single Cell RNA Sequencing of the Adult Drosophila Eye Reveals Distinct Clusters and Novel Marker Genes for All Major Cell Types

The paper presents single cell RNA-seq data of the adult Drosophila eye, identifying novel marker genes and clusters for major cell types.

Unbiased integration of single cell multi-omics data

bindSC integrates single-cell multi-omics data accurately by aligning rows and columns without approximations, outperforming existing methods in various biological contexts.

A unique and evolutionarily conserved retinal interneuron relays rod and cone input to the inner plexiform layer

The paper identifies a new retinal interneuron type, the Campana cell, that integrates rod and cone input and has features of both bipolar and amacrine cells.

Single-nuclei RNA-seq on human retinal tissue provides improved transcriptome profiling.

This study uses single-nuclei RNA-seq to profile human retinal tissue, identifying cell-type-specific gene expression and improving disease gene prioritization compared to bulk RNA-seq and mouse models.

Epigenetic adaptation prolongs photoreceptor survival during retinal degeneration

The paper shows that epigenetic changes allow some photoreceptor cells to survive longer during retinal degeneration in Spata7 mutant mice.