Ruli Gao

Hypatia compares isoform complexities across cell populations using long-read single-cell transcriptomes, improving detection of isoform usage shifts and diversity.

This paper introduces LongFUSE, a tool for detecting fusion genes in single-cell long-read RNA sequencing data, showing improved accuracy over existing methods.

This study identifies NKX2-1-driven epigenetic and 3D chromatin remodeling as key to neuroendocrine prostate cancer progression and reveals CBP/p300 inhibitors as potential therapeutic targets.

The paper introduces scNanoGPS, a toolkit for analyzing long-read single-cell transcriptomes to infer cell genotypes and phenotypes without short-read data, revealing cell-type-specific isoform and mutation patterns in tumors.

The paper introduces MEDALT and LSA to reconstruct copy number lineage trees from single-cell data and identify fitness-associated genes, showing improved accuracy over phylogenetics methods in cancer datasets.