Ke Chen

LigRNA: High-accuracy prediction of RNA-ligand binding sites via dynamic chemical complementarity and language model encoding

LigRNA predicts RNA-ligand binding sites using a graph neural network that combines language model embeddings and physicochemical features, achieving improved performance over existing methods.

Structural assemblies for an RNA world

The paper shows short RNAs can form complex structures like icosahedrons and filaments, expanding the known RNA quaternary structures and supporting RNA-based self-assembly in an RNA world.

The genetic repertoire of the deep sea: from sequence to structure and function

This study analyzes the genetic diversity of the deep sea, linking protein structures to genetic variants and identifying biotechnologically relevant features.

Computational exploration of dynamic mechanisms of steady state visual evoked potentials at the whole brain level

This study uses a large-scale brain model to simulate and analyze the dynamic mechanisms of steady-state visual evoked potentials (SSVEPs) at the whole-brain level, revealing frequency-specific responses and network properties.

Further genetic diversification in multiple tumors and an evolutionary perspective on therapeutics

The study analyzes genetic diversity in multiple hepatocellular carcinomas, finding that low-frequency mutations pre-exist and contribute to drug resistance, presenting challenges and opportunities for cancer therapeutics.