14 citations · 22 across the 5 of their papers we have counts for
7 papers
Structure-aware Reinforcement Learning for Protein Directed Evolution
Zikun Nie, Suyuan Zhao, Yizhen Luo +2
Protein optimization remains a longstanding goal in life sciences. Existing machine learning-assisted directed evolution (MLDE) methods primarily rely on sequence-only features, ov…
CellMSA: Context Modeling for Single-Cell Representation Learning
Suyuan Zhao, Minghao Liu, Yizhen Luo +1
Single-cell transcriptomics enables profiling of cellular states at unprecedented resolution, but its high dimensionality, sparsity, and technical batch effects pose significant ch…
SToFM: a Multi-scale Foundation Model for Spatial Transcriptomics
Suyuan Zhao, Yizhen Luo, Ganbo Yang +3
Spatial Transcriptomics (ST) technologies provide biologists with rich insights into single-cell biology by preserving spatial context of cells. Building foundational models for ST…
MutaPLM: Protein Language Modeling for Mutation Explanation and Engineering
Yizhen Luo, Zikun Nie, Massimo Hong +3
Studying protein mutations within amino acid sequences holds tremendous significance in life sciences. Protein language models (PLMs) have demonstrated strong capabilities in broad…
LangCell: Language-Cell Pre-training for Cell Identity Understanding
Suyuan Zhao, Jiahuan Zhang, Yushuai Wu +2
Cell identity encompasses various semantic aspects of a cell, including cell type, pathway information, disease information, and more, which are essential for biologists to gain in…
DeepCRE: Transforming Drug R&D via AI-Driven Cross-drug Response Evaluation
Yushuai Wu, Ting Zhang, Hao Zhou +11
The fields of therapeutic application and drug research and development (R&D) both face substantial challenges, i.e., the therapeutic domain calls for more treatment alternatives,…
Large-Scale Cell Representation Learning via Divide-and-Conquer Contrastive Learning
Suyuan Zhao, Jiahuan Zhang, Zaiqing Nie
Single-cell RNA sequencing (scRNA-seq) data is a potent tool for comprehending the "language of life" and can provide insights into various downstream biomedical tasks. Large-scale…