Copertina

HERMES: Holographic Equivariant neuRal network model for Mutational Effect and Stability prediction

Fuente: arXiv

Salvato in:

Dettagli Bibliografici
Autori principali:	Visani, Gian Marco, Galvin, William, Jones, Zac, Pun, Michael N., Daniel, Eric, Borisiak, Kevin, Wagura, Utheri, Nourmohammad, Armita
Natura:	Preprint
Pubblicazione:	2024
Soggetti:	Biomolecules Machine Learning J.3
Accesso online:	Acceder al recurso
Tags:	Aggiungi Tag Nessun Tag, puoi essere il primo ad aggiungerne!!

Documenti analoghi

Loop-Diffusion: an equivariant diffusion model for designing and scoring protein loops
di: Borisiak, Kevin, et al.
Pubblicazione: (2024)

From Prediction to Simulation: AlphaFold 3 as a Differentiable Framework for Structural Biology
di: Abbaszadeh, Alireza, et al.
Pubblicazione: (2025)

An Energy-Adaptive Elastic Equivariant Transformer Framework for Protein Structure Representation
di: Zhang, Zhongyue, et al.
Pubblicazione: (2025)

Compact assessment of molecular surface complementarities enhances neural network-aided prediction of key binding residues
di: Grassmann, Greta, et al.
Pubblicazione: (2024)

The Origin of Mutational Epistasis
di: Vila, Jorge A.
Pubblicazione: (2024)

MAP Format for Representing Chemical Modifications, Annotations, and Mutations in Protein Sequences: An Extension of the FASTA Format
di: Shendre, Akshay, et al.
Pubblicazione: (2025)

Improving RNA secondary structure prediction via state inference with deep recurrent neural networks
di: Willmott, Devin, et al.
Pubblicazione: (2019)

T-cell receptor specificity landscape revealed through de novo peptide design
di: Visani, Gian Marco, et al.
Pubblicazione: (2025)

Training Dynamics of Learning 3D-Rotational Equivariance
di: Shen, Max W., et al.
Pubblicazione: (2025)

Structure-based Drug Design with Equivariant Diffusion Models
di: Schneuing, Arne, et al.
Pubblicazione: (2022)

Topological Enhancement of Protein Kinetic Stability
di: Especial, João NC, et al.
Pubblicazione: (2026)

Aptamer-protein interaction prediction model based on transformer
di: Yan, Zhichao, et al.
Pubblicazione: (2025)

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

Equivariant Scalar Fields for Molecular Docking with Fast Fourier Transforms
di: Jing, Bowen, et al.
Pubblicazione: (2023)

Fold-switching proteins push the boundaries of conformational ensemble prediction
di: Lee, Myeongsang, et al.
Pubblicazione: (2026)

Persistent local Laplacian prediction of protein-ligand binding affinities
di: Liu, Jian, et al.
Pubblicazione: (2026)

Efficiently Predicting Mutational Effect on Homologous Proteins by Evolution Encoding
di: Zhong, Zhiqiang, et al.
Pubblicazione: (2024)

Generalist Equivariant Transformer Towards 3D Molecular Interaction Learning
di: Kong, Xiangzhe, et al.
Pubblicazione: (2023)

Topological Learning Prediction of Virus-like Particle Stoichiometry and Stability
di: Liu, Xiang, et al.
Pubblicazione: (2025)

Algorithm for Optimized mRNA Design Improves Stability and Immunogenicity
di: Zhang, He, et al.
Pubblicazione: (2020)

Machine learning framework to predict the performance of lipid nanoparticles for nucleic acid delivery
di: Kumar, Gaurav, et al.
Pubblicazione: (2024)

Advances in RNA secondary structure prediction and RNA modifications: Methods, data, and applications
di: Yang, Shu, et al.
Pubblicazione: (2025)

AlphaFold2 for protein structure prediction: Best practices and critical analyses
di: Radjasandirane, Ragousandirane, et al.
Pubblicazione: (2024)

RiboGen: RNA Sequence and Structure Co-Generation with Equivariant MultiFlow
di: Rubin, Dana, et al.
Pubblicazione: (2025)

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

Pi-SAGE: Permutation-invariant surface-aware graph encoder for binding affinity prediction
di: Banerjee, Sharmi, et al.
Pubblicazione: (2025)

RiboPO: Preference Optimization for Structure- and Stability-Aware RNA Design
di: Sun, Minghao, et al.
Pubblicazione: (2025)

Heterogeneous networks in drug-target interaction prediction
di: Molaee, Mohammad, et al.
Pubblicazione: (2025)

ViraHinter: a dual-modal artificial intelligence framework for predicting virus-host interactions
di: Bai, Weiqiang, et al.
Pubblicazione: (2026)

In silico bioactivity prediction of proteins interacting with graphene-based nanomaterials guides rational design of biosensor
di: Ye, Jing, et al.
Pubblicazione: (2024)

StaPep: an open-source tool for the structure prediction and feature extraction of hydrocarbon-stapled peptides
di: Wang, Zhe, et al.
Pubblicazione: (2024)

State-aware protein-ligand complex prediction using AlphaFold3 with purified sequences
di: Xing, Enming, et al.
Pubblicazione: (2025)

Proteins with alternative folds reveal blind spots in AlphaFold-based protein structure prediction
di: Chakravarty, Devlina, et al.
Pubblicazione: (2024)

Designing de novo TIM Barrels: Insights into Stabilization, Diversification, and Functionalization Strategies
di: Beck, Julian, et al.
Pubblicazione: (2025)

VARIANT: Web Server for Decoding and Analyzing Viral Mutations at Genome and Protein Levels
di: Wang, Rui, et al.
Pubblicazione: (2026)

Symphony: Symmetry-Equivariant Point-Centered Spherical Harmonics for 3D Molecule Generation
di: Daigavane, Ameya, et al.
Pubblicazione: (2023)

Paraplume: A fast and accurate paratope prediction method provides insights into repertoire-scale binding dynamics
di: Athènes, Gabriel, et al.
Pubblicazione: (2025)

AutoLoop: a novel autoregressive deep learning method for protein loop prediction with high accuracy
di: Wang, Tianyue, et al.
Pubblicazione: (2025)

CAML: Commutative algebra machine learning -- a case study on protein-ligand binding affinity prediction
di: Feng, Hongsong, et al.
Pubblicazione: (2025)

CBTOPE2: An improved method for predicting of conformational B-cell epitopes in an antigen from its primary sequence
di: Pandey, Anupma, et al.
Pubblicazione: (2025)