open problem

Protein Folding

Predicting structure is largely solved by machine learning; deriving the folding process and its energetics from first principles is not.

9 machine-reviewed papers whose extracted claims name this problem. Matching is literal, over the claim graph, so every listing traces to a sentence in a review.

This is the review hub: papers that name the problem, with the machine's verdict on each. The claims shelf lists the individual claims themselves, formal (Lean) or stated.

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CONDITIONAL Generative diffusion model with inverse renormalization group flows
RGDM generates data by reversing renormalization-group-style coarse-graining, using a colored-noise schedule and projection layers to sample coarse-to-fine, and outperforms a vanilla DDPM on protein and image benchmarks.

arxiv:2501.09064 · cond-mat.stat-mech · 2025-01
UNVERDICTED Transformers in Protein: A Survey
A broad but unreliable survey of Transformer applications in protein informatics, with numerous citation errors and unsupported claims.

arxiv:2505.20098 · cs.LG · 2025-05
CONDITIONAL Quantum Algorithm for Protein Structure Prediction Using the Face-Centered Cubic Lattice
The authors encode protein structures on an FCC lattice using 4N-10 qubits and demonstrate ground-state sampling for a six-residue peptide on two IBM quantum computers with two slack-variable-free constraint methods.

arxiv:2507.08955 · quant-ph · 2025-07
CONDITIONAL Influence of thermal noise on the field-driven dynamics of the non-collinear antiferromagnet Mn3Sn
Field-dependent analytical escape times and octupole relaxation times for strained Mn3Sn, validated by stochastic LLG simulations in the low-barrier regime.

arxiv:2507.09143 · cond-mat.mes-hall · 2025-07
REJECT Generative Artificial Intelligence in Bioinformatics: A Systematic Review of Models, Applications, and Methodological Advances
Across the 68 papers it surveys, domain-specialized generative models usually outperform general-purpose LLMs on biological tasks, and agentic/conversational workflows are the least-covered topics.

arxiv:2511.03354 · cs.CL · 2025-11
UNVERDICTED Assessing Cost Hamiltonian Reliability in Quantum Protein Structure Prediction
For small peptides the contact-energy cost Hamiltonian shows insufficient average correlation with RMSD error; correlation improves for larger instances and more interaction shells according to Monte-Carlo estimates.

arxiv:2606.21241 · quant-ph · 2026-06
UNVERDICTED Recent Advances in Generative AI for Healthcare Applications
A literature review synthesizing generative AI uses in healthcare with emphasis on diffusion and transformer models.

arxiv:2310.00795 · cs.LG · 2023-10
UNVERDICTED Exploring Quantum Annealing for Coarse-Grained Protein Folding
Compares quantum annealing models for coarse-grained protein folding, proposes interleaved-grid tetrahedral encoding, and reports hardware limits from embedding alongside scaling gains over classical simulated annealing on embedded instances.

arxiv:2508.10660 · quant-ph · 2025-08
UNVERDICTED Chiral and Clock phases in Twisted Dipolar Clusters
Twist in dipolar rod clusters induces Ising-like chirality and Z_N clock order parameters that switch discontinuously, crossing over to nearly continuous symmetry for large polygons.

arxiv:2601.22325 · cond-mat.mtrl-sci · 2026-01