Christina Huan Shi

The paper analyzes spatial relationships between AD pathology and gene expression in human hippocampus using MERFISH and snRNA-seq data, identifying cell-type and genotype-specific effects of A{beta} and tau pathology.

EpiATLAS provides a comprehensive collection of human reference epigenomes to advance epigenomic research and understanding of cellular function and disease.

The paper identifies a widespread transcript leakage issue in spatial transcriptomics and introduces DeLeakage, a Bayesian method that improves data cleaning and cell-type annotation.

This study shows that HIRA-mediated H3.3 deposition maintains hepatocyte identity during aging, and its loss leads to metabolic dysfunction and fibrosis, which can be partially reversed by tissue regeneration.

The paper models transcript isoform expression levels using epigenomic data from 324 human samples, showing that a universal model outperforms tissue-specific models.

This study shows that increasing SORLA levels in aged tauopathy mice reduces multiple pathological effects, including tau phosphorylation, inflammation, and synaptic dysfunction.

This study shows that inactivating HIRA during embryonic development affects melanoblasts and leads to aging-related defects in melanocyte stem cells, but not in postnatal melanocytes.

The paper introduces a linked-pair long-read sequencing strategy for targeted resequencing, enabling efficient enrichment of genomic regions with haplotype information.

The paper introduces psirc, a method to identify and quantify full-length circRNA isoforms from RNA sequencing data, showing its effectiveness on cancer and normal tissue samples.

CQF-deNoise reduces memory usage for k-mer counting in single-cell RNA-seq, enabling faster clustering with accuracy comparable to CellRanger.