Bioinformatics

CryoSPIN: Improving Ab-Initio Cryo-EM Reconstruction with Semi-Amortized Pose Inference NeurIPS 2024 DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA NeurIPS 2024 Deep Reinforcement Learning for Modelling Protein Complexes ICLR 2024 DePLM: Denoising Protein Language Models for Property Optimization NeurIPS 2024 Design Proteins Using Large Language Models: Enhancements and Comparative Analyses ACL 2024 Enhancing Protein Mutation Effect Prediction through a Retrieval-Augmented Framework NeurIPS 2024 ESM All-Atom: Multi-Scale Protein Language Model for Unified Molecular Modeling ICML 2024 Expert-level protocol translation for self-driving labs NeurIPS 2024 Exploring Molecular Pretraining Model at Scale NeurIPS 2024 FAFE: Immune Complex Modeling with Geodesic Distance Loss on Noisy Group Frames ICML 2024 FlexMol: A Flexible Toolkit for Benchmarking Molecular Relational Learning NeurIPS 2024 Generalized Protein Pocket Generation with Prior-Informed Flow Matching NeurIPS 2024 Generating Highly Designable Proteins with Geometric Algebra Flow Matching NeurIPS 2024 Gene Regulatory Network Inference in the Presence of Dropouts: a Causal View ICLR 2024 HAGO-Net: Hierarchical Geometric Message Passing for Molecular Representation Learning AAAI 2024 Integrating GNN and Neural ODEs for Estimating Non-Reciprocal Two-Body Interactions in Mixed-Species Collective Motion NeurIPS 2024 Joint learning of Gaussian graphical models in heterogeneous dependencies of high-dimensional transcriptomic data ACML 2024 L+M-24: Building a Dataset for Language+Molecules @ ACL 2024 ACL 2024 MANDREL: Modular Reinforcement Learning Pipelines for Material Discovery AAAI 2024 MapLE: Matching Molecular Analogues Promptly with Low Computational Resources by Multi-Metrics Evaluation (Student Abstract) AAAI 2024 Mixture of neural fields for heterogeneous reconstruction in cryo-EM NeurIPS 2024 Model Decides How to Tokenize: Adaptive DNA Sequence Tokenization with MxDNA NeurIPS 2024 MolTailor: Tailoring Chemical Molecular Representation to Specific Tasks via Text Prompts AAAI 2024 MolTRES: Improving Chemical Language Representation Learning for Molecular Property Prediction EMNLP 2024 MP-RNA: Unleashing Multi-species RNA Foundation Model via Calibrated Secondary Structure Prediction EMNLP 2024