Bioinformatics

PEACE: Empowering Geologic Map Holistic Understanding with MLLMs CVPR 2025 PertEval-scFM: Benchmarking Single-Cell Foundation Models for Perturbation Effect Prediction ICML 2025 PetEVAL: A veterinary free text electronic health records benchmark ACL 2025 PRAGA: Prototype-aware Graph Adaptive Aggregation for Spatial Multi-modal Omics Analysis AAAI 2025 PreClinIE: An Annotated Corpus for Information Extraction in Preclinical Studies ACL 2025 Predicting mutational effects on protein binding from folding energy ICML 2025 Pre-Training Graph Neural Networks on Molecules by Using Subgraph-Conditioned Graph Information Bottleneck AAAI 2025 PriFold: Biological Priors Improve RNA Secondary Structure Predictions AAAI 2025 ProtCLIP: Function-Informed Protein Multi-Modal Learning AAAI 2025 Protriever: End-to-End Differentiable Protein Homology Search for Fitness Prediction ICML 2025 PScalpel: A Machine Learning-based Guider for Protein Phase-Separating Behaviour Alteration AAAI 2025 PyTDC: A multimodal machine learning training, evaluation, and inference platform for biomedical foundation models ICML 2025 RareSyn: Health Record Synthesis for Rare Disease Diagnosis EMNLP 2025 R-DTI: Drug Target Interaction Prediction Based on Second-Order Relevance Exploration AAAI 2025 Rethinking Cancer Gene Identification Through Graph Anomaly Analysis AAAI 2025 Rethinking Text-based Protein Understanding: Retrieval or LLM? EMNLP 2025 Rethinking the generalization of drug target affinity prediction algorithms via similarity aware evaluation ICLR 2025 Retrieve to Explain: Evidence-driven Predictions for Explainable Drug Target Identification ACL 2025 Robust Heterogeneous Graph Classification for Molecular Property Prediction with Information Bottleneck AAAI 2025 Robust Multi-view Co-expression Network Inference CLeaR 2025 SCCS: Deep Neural Spectral Clustering for Self-Supervised Subcellular Structure Segmentation AAAI 2025 SCNNs: Spike-based Coupling Neural Networks for Understanding Structural-Functional Relationships in the Human Brain IJCAI 2025 scRAG: Hybrid Retrieval-Augmented Generation for LLM-based Cross-Tissue Single-Cell Annotation ACL 2025 scSiameseClu: A Siamese Clustering Framework for Interpreting Single-cell RNA Sequencing Data IJCAI 2025 scSSL-Bench: Benchmarking Self-Supervised Learning for Single-Cell Data ICML 2025