Bioinformatics

DAG Learning on the Permutahedron ICLR 2023 DiffPack: A Torsional Diffusion Model for Autoregressive Protein Side-Chain Packing NeurIPS 2023 Energy-Motivated Equivariant Pretraining for 3D Molecular Graphs AAAI 2023 FFF: Fragment-Guided Flexible Fitting for Building Complete Protein Structures CVPR 2023 GeoPhy: Differentiable Phylogenetic Inference via Geometric Gradients of Tree Topologies NeurIPS 2023 GeoTMI: Predicting Quantum Chemical Property with Easy-to-Obtain Geometry via Positional Denoising NeurIPS 2023 GRASMOS: Graph Signage Model Selection for Gene Regulatory Networks AAAI 2023 GRIP: Graph Representation of Immune Repertoire Using Graph Neural Network and Transformer AAAI 2023 How Much Space Has Been Explored? Measuring the Chemical Space Covered by Databases and Machine-Generated Molecules ICLR 2023 HyenaDNA: Long-Range Genomic Sequence Modeling at Single Nucleotide Resolution NeurIPS 2023 Implicit Transfer Operator Learning: Multiple Time-Resolution Models for Molecular Dynamics NeurIPS 2023 Injecting Multimodal Information into Rigid Protein Docking via Bi-level Optimization NeurIPS 2023 LagNet: Deep Lagrangian Mechanics for Plug-and-Play Molecular Representation Learning AAAI 2023 MatSci-NLP: Evaluating Scientific Language Models on Materials Science Language Tasks Using Text-to-Schema Modeling ACL 2023 Method for Designing Semantic Annotation of Sepsis Signs in Clinical Text ACL 2023 MolXPT: Wrapping Molecules with Text for Generative Pre-training ACL 2023 Multiple sequence alignment as a sequence-to-sequence learning problem ICLR 2023 MuSe-GNN: Learning Unified Gene Representation From Multimodal Biological Graph Data NeurIPS 2023 PointListNet: Deep Learning on 3D Point Lists CVPR 2023 Predicting mutational effects on protein-protein binding via a side-chain diffusion probabilistic model NeurIPS 2023 ProBio: A Protocol-guided Multimodal Dataset for Molecular Biology Lab NeurIPS 2023 ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers NeurIPS 2023 ReactIE: Enhancing Chemical Reaction Extraction with Weak Supervision ACL 2023 Retrosynthetic Planning with Dual Value Networks ICML 2023 Riemannian Metric Learning via Optimal Transport ICLR 2023