3 papers
q-bio.GN2026
Subcellularly Resolved Single-Cell Embedding Learning with Transcriptomic data, Protein Structure and Localization Information
Zhen Zhou, Jiachen Li, Yuan Liu +2
Existing cell embedding methods predominantly rely on transcriptomic or proteomic measurements and represent each cell as a holistic entity, thereby overlooking the subcellular loc…
q-bio.QM2024
GenoHoption: Bridging Gene Network Graphs and Single-Cell Foundation Models
Jiabei Cheng, Jiachen Li, Kaiyuan Yang +2
The remarkable success of foundation models has sparked growing interest in their application to single-cell biology. Models like Geneformer and scGPT promise to serve as versatile…
q-bio.MN2024
Simultaneously Infer Cell Pseudotime,Velocity Field and Gene Interaction from Multi-Branch scRNA-seq Data with scPN
Zhen Zhou, Jiachen Li, Hongyi Xin +2
Modeling cellular dynamics from single-cell RNA sequencing (scRNA-seq) data is critical for understanding cell development and underlying gene regulatory relationships. Many curren…