Cover Image

Integrating Secondary Structures Information into Triangular Spatial Relationships (TSR) for Advanced Protein Classification

Fuente: arXiv

Saved in:

Bibliographic Details
Main Authors:	Khajouie, Poorya, Sarkar, Titli, Rauniyar, Krishna, Chen, Li, Xu, Wu, Raghavan, Vijay
Format:	Preprint
Published:	2024
Subjects:	Machine Learning Biomolecules
Online Access:	Acceder al recurso
Tags:	Add Tag No Tags, Be the first to tag this record!

Similar Items

Learning Protein Structure-Function Relationships through Knowledge-guided Representation Decomposition
by: Wang, Mingqing, et al.
Published: (2026)

A Protein Structure Prediction Approach Leveraging Transformer and CNN Integration
by: Zhou, Yanlin, et al.
Published: (2024)

Protein Inverse Folding From Structure Feedback
by: Xu, Junde, et al.
Published: (2025)

Protein Representation Learning by Capturing Protein Sequence-Structure-Function Relationship
by: Ko, Eunji, et al.
Published: (2024)

Integrating Protein Dynamics into Structure-Based Drug Design via Full-Atom Stochastic Flows
by: Zhou, Xiangxin, et al.
Published: (2025)

Structure Language Models for Protein Conformation Generation
by: Lu, Jiarui, et al.
Published: (2024)

Rethinking Performance Measures of RNA Secondary Structure Problems
by: Runge, Frederic, et al.
Published: (2023)

Structure-Informed Protein Language Model
by: Zhang, Zuobai, et al.
Published: (2024)

Advances in Protein Representation Learning: Methods, Applications, and Future Directions
by: Nguyen, Viet Thanh Duy, et al.
Published: (2025)

Advanced Deep Learning Methods for Protein Structure Prediction and Design
by: Zhang, Yichao, et al.
Published: (2025)

AtomSurf : Surface Representation for Learning on Protein Structures
by: Mallet, Vincent, et al.
Published: (2023)

Conformation-Aware Structure Prediction of Antigen-Recognizing Immune Proteins
by: Dreyer, Frédéric A., et al.
Published: (2025)

Internal-Coordinate Density Modelling of Protein Structure: Covariance Matters
by: Arts, Marloes, et al.
Published: (2023)

DISPROTBENCH: Uncovering the Functional Limits of Protein Structure Prediction Models in Intrinsically Disordered Regions
by: Zeng, Xinyue, et al.
Published: (2025)

CoPRA: Bridging Cross-domain Pretrained Sequence Models with Complex Structures for Protein-RNA Binding Affinity Prediction
by: Han, Rong, et al.
Published: (2024)

Docking-Aware Attention: Dynamic Protein Representations through Molecular Context Integration
by: Sicherman, Amitay, et al.
Published: (2025)

MAPE-PPI: Towards Effective and Efficient Protein-Protein Interaction Prediction via Microenvironment-Aware Protein Embedding
by: Wu, Lirong, et al.
Published: (2024)

Development of a Novel Method for Representing 3D Structures of Nucleotides Using the Concept of the TSR Algorithm and Evaluation of the Method Through Studying Specific Interactions Between DNAs and p53
by: Krishna Rauniyar, et al.
Published: (2025)

Protein Fold Classification at Scale: Benchmarking and Pretraining
by: Chen, Dexiong, et al.
Published: (2026)

Hierarchical Multi-Label Contrastive Learning for Protein-Protein Interaction Prediction Across Organisms
by: Liu, Shiyi, et al.
Published: (2025)

Accelerating Inference in Molecular Diffusion Models with Latent Representations of Protein Structure
by: Dunn, Ian, et al.
Published: (2023)

Integrating Protein Sequence and Expression Level to Analysis Molecular Characterization of Breast Cancer Subtypes
by: Sholehrasa, Hossein, et al.
Published: (2024)

Learning Structure, Energy, and Dynamics: A Survey of Artificial Intelligence for Protein Dynamics
by: Tang, Haocheng, et al.
Published: (2026)

ZeroFold: Protein-RNA Binding Affinity Predictions from Pre-Structural Embeddings
by: Hanke, Josef, et al.
Published: (2026)

Out of Many, One: Designing and Scaffolding Proteins at the Scale of the Structural Universe with Genie 2
by: Lin, Yeqing, et al.
Published: (2024)

STAR-GO: Improving Protein Function Prediction by Learning to Hierarchically Integrate Ontology-Informed Semantic Embeddings
by: Akça, Mehmet Efe, et al.
Published: (2025)

Deciphering RNA Secondary Structure Prediction: A Probabilistic K-Rook Matching Perspective
by: Tan, Cheng, et al.
Published: (2022)

RNA Secondary Structure Prediction Using Transformer-Based Deep Learning Models
by: Zhou, Yanlin, et al.
Published: (2024)

SIU: A Million-Scale Structural Small Molecule-Protein Interaction Dataset for Unbiased Bioactivity Prediction
by: Huang, Yanwen, et al.
Published: (2024)

ETDock: A Novel Equivariant Transformer for Protein-Ligand Docking
by: Yi, Yiqiang, et al.
Published: (2023)

Application of Quantum Tensor Networks for Protein Classification
by: Kundu, Debarshi, et al.
Published: (2024)

Endowing Protein Language Models with Structural Knowledge
by: Chen, Dexiong, et al.
Published: (2024)

ProteinWeaver: A Divide-and-Assembly Approach for Protein Backbone Design
by: Ma, Yiming, et al.
Published: (2024)

Open-Source Protein Language Models for Function Prediction and Protein Design
by: Pandi, Shivasankaran Vanaja, et al.
Published: (2024)

Protein Discovery with Discrete Walk-Jump Sampling
by: Frey, Nathan C., et al.
Published: (2023)

Adaptive Protein Tokenization
by: Dilip, Rohit, et al.
Published: (2026)

Rigid Protein-Protein Docking via Equivariant Elliptic-Paraboloid Interface Prediction
by: Yu, Ziyang, et al.
Published: (2024)

Aligning Protein Conformation Ensemble Generation with Physical Feedback
by: Lu, Jiarui, et al.
Published: (2025)

ContactNet: Geometric-Based Deep Learning Model for Predicting Protein-Protein Interactions
by: Halfon, Matan, et al.
Published: (2024)

Machine Learning Modeling Of SiRNA Structure-Potency Relationship With Applications Against Sars-Cov-2 Spike Gene
by: Oshunyinka, Damilola
Published: (2024)