4 papers
ORBIT: Learning Gene Program Co-Activation Structure for Cell-Type-Stratified Pathway Rewiring Analysis in Single-Cell Transcriptomics
Yuechen Wang, Lina Jia, Qinglong Wang +1
Gene programs co-activate within cells, but existing single-cell methods either treat programs independently or require experimental perturbation data to model their interactions.…
NeuroPlastic: A Plasticity-Modulated Optimizer for Biologically Inspired Learning Dynamics
Douglas Jiang, Yuechen Wang, Jiayi Wang +3
Optimization algorithms are fundamental to modern deep learning, yet most widely used methods rely on update rules based primarily on local gradient statistics. We introduce NeuroP…
Contrastive Learning Enhances Language Model Based Cell Embeddings for Low-Sample Single Cell Transcriptomics
Luxuan Zhang, Douglas Jiang, Qinglong Wang +2
Large language models (LLMs) have shown strong ability in generating rich representations across domains such as natural language processing and generation, computer vision, and mu…
Bridging Large Language Models and Single-Cell Transcriptomics in Dissecting Selective Motor Neuron Vulnerability
Douglas Jiang, Zilin Dai, Luxuan Zhang +3
Understanding cell identity and function through single-cell level sequencing data remains a key challenge in computational biology. We present a novel framework that leverages gen…