Xiaoli Li

Epigenetic regulation of alveolar macrophage homeostasis by histone deacetylase 1 and 2

This study shows HDAC1 and HDAC2 are essential for alveolar macrophage homeostasis by suppressing Bim expression and co-regulating differentiation with LSD1.

Predicting PROTAC-targeted Degradation and Designing Androgen Receptor Degraders with AiPROTAC

AiPROTAC predicts PROTAC degradation potential and designs an androgen receptor degrader, outperforming existing models and showing improved in vitro efficacy.

Reprogramming of 3D genome structure underlying HSPC development in zebrafish

The paper investigates chromatin structure dynamics during zebrafish HSPC development and identifies PU.1 as a key factor in chromatin loop formation and gene regulation.

A partially shared joint clustering framework for detecting protein complexes from multiple state-specific signed interaction networks

This paper introduces PS-SNC, a method for detecting protein complexes from multiple state-specific signed PPI networks, showing improved performance over existing methods.

Graph Contextualized Attention Network for Predicting Synthetic Lethality in Human Cancers

This paper introduces GCATSL, a graph contextualized attention network for predicting synthetic lethality in human cancers, outperforming existing methods on multiple datasets.

Decoding nucleosome positions with ATAC-seq data at single-cell level

The paper introduces deNOPA, a tool for predicting nucleosome positions from ATAC-seq data, showing it outperforms existing tools and works with ultrasparse data.