Graph-level Protein Representation Learning by Structure Knowledge Refinement
Fuente:
arXiv
Saved in:
| Main Authors: | Wang, Ge, Zang, Zelin, Zheng, Jiangbin, Xia, Jun, Li, Stan Z. |
|---|---|
| Format: | Preprint |
| Published: |
2024
|
| Subjects: | |
| Online Access: | |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
Similar Items
CCPL: Cross-modal Contrastive Protein Learning
by: Zheng, Jiangbin, et al.
Published: (2023)
by: Zheng, Jiangbin, et al.
Published: (2023)
Deep Manifold Transformation for Protein Representation Learning
by: Hu, Bozhen, et al.
Published: (2024)
by: Hu, Bozhen, et al.
Published: (2024)
Deciphering RNA Secondary Structure Prediction: A Probabilistic K-Rook Matching Perspective
by: Tan, Cheng, et al.
Published: (2022)
by: Tan, Cheng, et al.
Published: (2022)
Cross-Gate MLP with Protein Complex Invariant Embedding is A One-Shot Antibody Designer
by: Tan, Cheng, et al.
Published: (2023)
by: Tan, Cheng, et al.
Published: (2023)
Orientation-Aware Graph Neural Networks for Protein Structure Representation Learning
by: Li, Jiahan, et al.
Published: (2022)
by: Li, Jiahan, et al.
Published: (2022)
RDesign: Hierarchical Data-efficient Representation Learning for Tertiary Structure-based RNA Design
by: Tan, Cheng, et al.
Published: (2023)
by: Tan, Cheng, et al.
Published: (2023)
FoldToken: Learning Protein Language via Vector Quantization and Beyond
by: Gao, Zhangyang, et al.
Published: (2024)
by: Gao, Zhangyang, et al.
Published: (2024)
PSC-CPI: Multi-Scale Protein Sequence-Structure Contrasting for Efficient and Generalizable Compound-Protein Interaction Prediction
by: Wu, Lirong, et al.
Published: (2024)
by: Wu, Lirong, et al.
Published: (2024)
CBGBench: Fill in the Blank of Protein-Molecule Complex Binding Graph
by: Lin, Haitao, et al.
Published: (2024)
by: Lin, Haitao, et al.
Published: (2024)
Protein Representation Learning by Capturing Protein Sequence-Structure-Function Relationship
by: Ko, Eunji, et al.
Published: (2024)
by: Ko, Eunji, et al.
Published: (2024)
FoldToken2: Learning compact, invariant and generative protein structure language
by: Gao, Zhangyang, et al.
Published: (2024)
by: Gao, Zhangyang, et al.
Published: (2024)
Structural Interpretations of Protein Language Model Representations via Differentiable Graph Partitioning
by: Dutta, Siddhant, et al.
Published: (2026)
by: Dutta, Siddhant, et al.
Published: (2026)
PRING: Rethinking Protein-Protein Interaction Prediction from Pairs to Graphs
by: Zheng, Xinzhe, et al.
Published: (2025)
by: Zheng, Xinzhe, et al.
Published: (2025)
PFMBench: Protein Foundation Model Benchmark
by: Gao, Zhangyang, et al.
Published: (2025)
by: Gao, Zhangyang, et al.
Published: (2025)
MetaEnzyme: Meta Pan-Enzyme Learning for Task-Adaptive Redesign
by: Zheng, Jiangbin, et al.
Published: (2024)
by: Zheng, Jiangbin, et al.
Published: (2024)
Enhancing Protein Predictive Models via Proteins Data Augmentation: A Benchmark and New Directions
by: Sun, Rui, et al.
Published: (2024)
by: Sun, Rui, et al.
Published: (2024)
Pre-Training Protein Bi-level Representation Through Span Mask Strategy On 3D Protein Chains
by: Zhao, Jiale, et al.
Published: (2024)
by: Zhao, Jiale, et al.
Published: (2024)
Advanced Deep Learning Methods for Protein Structure Prediction and Design
by: Zhang, Yichao, et al.
Published: (2025)
by: Zhang, Yichao, et al.
Published: (2025)
ProteinEngine: Empower LLM with Domain Knowledge for Protein Engineering
by: Shen, Yiqing, et al.
Published: (2024)
by: Shen, Yiqing, et al.
Published: (2024)
GLProtein: Global-and-Local Structure Aware Protein Representation Learning
by: Liu, Yunqing, et al.
Published: (2025)
by: Liu, Yunqing, et al.
Published: (2025)
Multimodal Regression for Enzyme Turnover Rates Prediction
by: Hu, Bozhen, et al.
Published: (2025)
by: Hu, Bozhen, et al.
Published: (2025)
Bridge-IF: Learning Inverse Protein Folding with Markov Bridges
by: Zhu, Yiheng, et al.
Published: (2024)
by: Zhu, Yiheng, et al.
Published: (2024)
Prot2Chat: Protein LLM with Early-Fusion of Text, Sequence and Structure
by: Wang, Zhicong, et al.
Published: (2025)
by: Wang, Zhicong, et al.
Published: (2025)
ProtCLIP: Function-Informed Protein Multi-Modal Learning
by: Zhou, Hanjing, et al.
Published: (2024)
by: Zhou, Hanjing, et al.
Published: (2024)
Contextual Molecule Representation Learning from Chemical Reaction Knowledge
by: Tang, Han, et al.
Published: (2024)
by: Tang, Han, et al.
Published: (2024)
UniMAP: Universal SMILES-Graph Representation Learning
by: Feng, Shikun, et al.
Published: (2023)
by: Feng, Shikun, et al.
Published: (2023)
From Supervision to Exploration: What Does Protein Language Model Learn During Reinforcement Learning?
by: Cao, Hanqun, et al.
Published: (2025)
by: Cao, Hanqun, et al.
Published: (2025)
Protein Autoregressive Modeling via Multiscale Structure Generation
by: Qu, Yanru, et al.
Published: (2026)
by: Qu, Yanru, et al.
Published: (2026)
Protein Structure Prediction in the 3D HP Model Using Deep Reinforcement Learning
by: Espitia, Giovanny, et al.
Published: (2024)
by: Espitia, Giovanny, et al.
Published: (2024)
Constrained Diffusion for Protein Design with Hard Structural Constraints
by: Christopher, Jacob K., et al.
Published: (2025)
by: Christopher, Jacob K., et al.
Published: (2025)
Towards Interpretable Protein Structure Prediction with Sparse Autoencoders
by: Parsan, Nithin, et al.
Published: (2025)
by: Parsan, Nithin, et al.
Published: (2025)
Structure-Aware Contrastive Learning with Fine-Grained Binding Representations for Drug Discovery
by: Lan, Jing, et al.
Published: (2025)
by: Lan, Jing, et al.
Published: (2025)
MSAGPT: Neural Prompting Protein Structure Prediction via MSA Generative Pre-Training
by: Chen, Bo, et al.
Published: (2024)
by: Chen, Bo, et al.
Published: (2024)
One-step Structure Prediction and Screening for Protein-Ligand Complexes using Multi-Task Geometric Deep Learning
by: He, Kelei, et al.
Published: (2024)
by: He, Kelei, et al.
Published: (2024)
PPFlow: Target-aware Peptide Design with Torsional Flow Matching
by: Lin, Haitao, et al.
Published: (2024)
by: Lin, Haitao, et al.
Published: (2024)
log-RRIM: Yield Prediction via Local-to-global Reaction Representation Learning and Interaction Modeling
by: Hu, Xiao, et al.
Published: (2024)
by: Hu, Xiao, et al.
Published: (2024)
Multi-level Interaction Modeling for Protein Mutational Effect Prediction
by: Mo, Yuanle, et al.
Published: (2024)
by: Mo, Yuanle, et al.
Published: (2024)
Improving Protein Sequence Design through Designability Preference Optimization
by: Xue, Fanglei, et al.
Published: (2025)
by: Xue, Fanglei, et al.
Published: (2025)
Atom-level Protein Representation Learning Improves Protein Structure Prediction
by: Kim, Taewon, et al.
Published: (2026)
by: Kim, Taewon, et al.
Published: (2026)
A Generalist Cross-Domain Molecular Learning Framework for Structure-Based Drug Discovery
by: Zhu, Yiheng, et al.
Published: (2025)
by: Zhu, Yiheng, et al.
Published: (2025)
Similar Items
-
CCPL: Cross-modal Contrastive Protein Learning
by: Zheng, Jiangbin, et al.
Published: (2023) -
Deep Manifold Transformation for Protein Representation Learning
by: Hu, Bozhen, et al.
Published: (2024) -
Deciphering RNA Secondary Structure Prediction: A Probabilistic K-Rook Matching Perspective
by: Tan, Cheng, et al.
Published: (2022) -
Cross-Gate MLP with Protein Complex Invariant Embedding is A One-Shot Antibody Designer
by: Tan, Cheng, et al.
Published: (2023) -
Orientation-Aware Graph Neural Networks for Protein Structure Representation Learning
by: Li, Jiahan, et al.
Published: (2022)