7 papers
scGTN: Deep Siamese Graph Transformer Network for Single-cell RNA Sequencing Clustering
Jinke Wu, Yifan Wang, Siyu Yi +5
Single-cell RNA sequencing (scRNA-seq) serves a pivotal role in characterizing gene expression at the cellular level, enabling the identification of cell types and advancing the un…
PepALD: Macrocyclic Peptide Generation via Autoregressive Latent Diffusion
Junming Zhang, Siyu Yi, Wei Ju +1
Macrocyclic peptides are promising therapeutic candidates for intracellular targets, but their design requires simultaneous control over non-natural monomer chemistry, ring topolog…
Identifying and Correcting Label Noise for Robust GNNs via Influence Contradiction
Wei Ju, Wei Zhang, Siyu Yi +6
Graph Neural Networks (GNNs) have shown remarkable capabilities in learning from graph-structured data with various applications such as social analysis and bioinformatics. However…
BRIDGE: Biological Evidence Refinement and Heterogeneous Dynamic Gating for Gene Regulatory Networks
Ziyang Dong, Shanwen Tan, Hengchuang Yin +5
Motivation: Gene regulatory network inference from single-cell RNA sequencing (scRNA-seq) data is important for uncovering cell-state-specific transcriptional programs. However, sc…
CMGL: Confidence-guided Multi-omics Graph Learning for Cancer Subtype Classification
Boyang Fan, Hengchuang Yin, Siyu Yi +5
Motivation: Multi-omics integration can improve cancer subtyping, but modality informativeness and noise vary across cancer types and patients. Existing graph-based methods optimiz…
A Survey of Graph Neural Networks in Real world: Imbalance, Noise, Privacy and OOD Challenges
Wei Ju, Siyu Yi, Yifan Wang +10
Graph-structured data exhibits universality and widespread applicability across diverse domains, such as social network analysis, biochemistry, financial fraud detection, and netwo…