SOTAVerified

Protein Design

Formally, given the design requirements of users, models are required to generate protein amino acid sequences that align with those requirements.

Papers

Recently AddedMost HypedMost ActiveNeeds VerificationMost Verified

Showing 101–125 of 175 papers

TitleStatusHype
Generative artificial intelligence for de novo protein design—0
Score-Based Generative Models for Designing Binding Peptide BackbonesCode1
DockGame: Cooperative Games for Multimeric Rigid Protein Docking—0
Fast protein backbone generation with SE(3) flow matchingCode2
Expected flow networks in stochastic environments and two-player zero-sum gamesCode0
Backdiff: a diffusion model for generalized transferable protein backmapping—0
Boosting AND/OR-Based Computational Protein Design: Dynamic Heuristics and Generalizable UFO—0
OpenProteinSet: Training data for structural biology at scaleCode4
Hypergraph Isomorphism ComputationCode2
Metropolis Sampling for Constrained Diffusion Models—0
Practical and Asymptotically Exact Conditional Sampling in Diffusion ModelsCode1
Mol-Instructions: A Large-Scale Biomolecular Instruction Dataset for Large Language ModelsCode2
Gradient-Informed Quality Diversity for the Illumination of Discrete Spaces—0
Protein Design with Guided Discrete DiffusionCode1
Improving few-shot learning-based protein engineering with evolutionary samplingCode1
Robust Model-Based Optimization for Challenging Fitness LandscapesCode0
Knowledge-Design: Pushing the Limit of Protein Design via Knowledge RefinementCode2
Scalable Coupling of Deep Learning with Logical ReasoningCode0
Diffusion Models for Constrained DomainsCode1
DiffDock-PP: Rigid Protein-Protein Docking with Diffusion ModelsCode2
CCPL: Cross-modal Contrastive Protein Learning—0
Protein Sequence Design with Batch Bayesian OptimisationCode0
Diffusion Models in Bioinformatics: A New Wave of Deep Learning Revolution in Action—0
A Text-guided Protein Design FrameworkCode2
Geometry-Complete Diffusion for 3D Molecule Generation and OptimizationCode2
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All datasetsCATH 4.2CATH 4.3

Benchmark Results

#ModelMetricClaimedVerifiedStatus
1GraphTransPerplexity6.63—Unverified
2StructGNNPerplexity6.4—Unverified
3AlphaDesignPerplexity6.3—Unverified
4GCAPerplexity6.05—Unverified
5GVPPerplexity5.36—Unverified
6ProteinMPNNPerplexity4.61—Unverified
7PiFoldPerplexity4.55—Unverified
8Knowledge-DesignPerplexity3.46—Unverified
#ModelMetricClaimedVerifiedStatus
1ESM-IFPerplexity6.44—Unverified
2GVP-largePerplexity6.17—Unverified