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Active Learning–Guided Peptide Design for Modulating Condensate Properties upon Recruitment

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Outgoing claims: the papers this work cites, builds on, or argues with.

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Disordered linkers in multidomain allosteric proteins: Entropic effect to favor the open state or enhanced local concentration to favor the closed state?
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Uncovering the molecular language of protein liquid-liquid phase separation
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Multi-scale simulations of MUT-16 scaffold protein phase separation and client recognition
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A Molecular Grammar Governing the Driving Forces for Phase Separation of Prion-like RNA Binding Proteins
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MUT-14 and SMUT-1 DEAD Box RNA Helicases Have Overlapping Roles in Germline RNAi and Endogenous siRNA Formation
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Ancient Endo-siRNA Pathways Reveal New Tricks
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The Many Faces of RNAi
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An Intrinsically Disordered Region in OSBP Acts as an Entropic Barrier to Control Protein Dynamics and Orientation at Membrane Contact Sites
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Phase Separation in Biology and Disease; Current Perspectives and Open Questions
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A conceptual framework for understanding phase separation and addressing open questions and challenges
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“Structure”-function relationships in eukaryotic transcription factors: The role of intrinsically disordered regions in gene regulation
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Atomic-level characterization of disordered protein ensembles
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Integrative modelling of biomolecular dynamics
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Computational design of intrinsically disordered proteins
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Energetics of protein-protein interactions: Analysis ofthe Barnase-Barstar interface by single mutations and double mutant cycles
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Double-mutant cycles: a powerful tool for analyzing protein structure and function
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Theory and Simulation of Multiphase Coexistence in Biomolecular Mixtures
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Time-Dependent Material Properties of Aging Biomolecular Condensates from Different Viscoelasticity Measurements in Molecular Dynamics Simulations
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Bayesian Optimization of Catalysis with In-Context Learning
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Classification of Intrinsically Disordered Regions and Proteins
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Natively Unfolded Protein Stability as a Coil-to-Globule Transition in Charge/Hydropathy Space
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Biomolecular condensates: organizers of cellular biochemistry
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ProtGPT2 is a deep unsupervised language model for protein design
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Condensates formed by prion-like low-complexity domains have small-world network structures and interfaces defined by expanded conformations
inferredcites →https://doi.org/10.1038/s41467-024-51844-2openalex-snapshot
Fine-tuning protein language models boosts predictions across diverse tasks
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De novo design of peptides localizing at the interface of biomolecular condensates
inferredcites →https://doi.org/10.1038/s41557-023-01289-9openalex-snapshot
The interface of condensates of the hnRNPA1 low-complexity domain promotes formation of amyloid fibrils
inferredcites →https://doi.org/10.1038/s41557-023-01423-7openalex-snapshot
Determinants that enable disordered protein assembly into discrete condensed phases
inferredcites →https://doi.org/10.1038/s41557-024-01467-3openalex-snapshot
RNA modulates hnRNPA1A amyloid formation mediated by biomolecular condensates
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Expanding the molecular language of protein liquid–liquid phase separation
inferredcites →https://doi.org/10.1038/s41567-024-02558-1openalex-snapshot
Sequence-specific interactions determine viscoelasticity and ageing dynamics of protein condensates
inferredcites →https://doi.org/10.1038/s41580-023-00673-0openalex-snapshot
The molecular basis for cellular function of intrinsically disordered protein regions
inferredcites →https://doi.org/10.1038/s41586-025-09141-5openalex-snapshot
Probing condensate microenvironments with a micropeptide killswitch
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Unified rational protein engineering with sequence-based deep representation learning
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Physics-driven coarse-grained model for biomolecular phase separation with near-quantitative accuracy
inferredcites →https://doi.org/10.1039/d2sc00116kopenalex-snapshot
Data-driven discovery of cardiolipin-selective small molecules by computational active learning
inferredcites →https://doi.org/10.1039/d2sc05873aopenalex-snapshot
Thermodynamic origins of two-component multiphase condensates of proteins
inferredcites →https://doi.org/10.1039/d2sc90130gopenalex-snapshot
A focus on simulation and machine learning as complementary tools for chemical space navigation
inferredcites →https://doi.org/10.1039/d4fd00099dopenalex-snapshot
Sequence determinants of protein phase separation and recognition by protein phase-separated condensates through molecular dynamics and active learning
inferredcites →https://doi.org/10.1042/bst20210499openalex-snapshot
Conformational ensembles of intrinsically disordered proteins and flexible multidomain proteins
inferredcites →https://doi.org/10.1063/1.3491098openalex-snapshot
Efficient on the fly calculation of time correlation functions in computer simulations
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The pressure tensor across a liquid-vapour interface
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Design of intrinsically disordered proteins that undergo phase transitions with lower critical solution temperatures
inferredcites →https://doi.org/10.1073/pnas.2111696118openalex-snapshot
Accurate model of liquid–liquid phase behavior of intrinsically disordered proteins from optimization of single-chain properties
inferredcites →https://doi.org/10.1073/pnas.2301366120openalex-snapshot
The liquid-to-solid transition of FUS is promoted by the condensate surface
inferredcites →https://doi.org/10.1073/pnas.2417920122openalex-snapshot
Prediction of phase-separation propensities of disordered proteins from sequence
inferredcites →https://doi.org/10.1093/bioinformatics/btac020openalex-snapshot
ProteinBERT: a universal deep-learning model of protein sequence and function
inferredcites →https://doi.org/10.1101/2022.08.05.502972openalex-snapshot
Now What Sequence? Pre-trained Ensembles for Bayesian Optimization of Protein Sequences
inferredcites →https://doi.org/10.1101/2022.12.21.521521openalex-snapshot
Language models generalize beyond natural proteins
inferredcites →https://doi.org/10.1101/2024.01.12.575432openalex-snapshot
TransMEP: Transfer learning on large protein language models to predict mutation effects of proteins from a small known dataset
inferredcites →https://doi.org/10.1101/gad.193904.112openalex-snapshot
MUT-16 promotes formation of perinuclear Mutator foci required for RNA silencing in the C. elegans germline
inferredcites →https://doi.org/10.1126/sciadv.ade8839openalex-snapshot
Physics-based generative model of curvature sensing peptides; distinguishing sensors from binders
inferredcites →https://doi.org/10.1126/sciadv.adj2448openalex-snapshot
Active learning of the thermodynamics-dynamics trade-off in protein condensates
inferredcites →https://doi.org/10.1126/sciadv.adm9926openalex-snapshot
Design of intrinsically disordered protein variants with diverse structural properties
inferredcites →https://doi.org/10.1126/science.aaw4951openalex-snapshot
Protein condensates as aging Maxwell fluids
inferredcites →https://doi.org/10.1126/science.aaw8653openalex-snapshot
Valence and patterning of aromatic residues determine the phase behavior of prion-like domains
inferredcites →https://doi.org/10.12688/openreseurope.14967.2openalex-snapshot
Improved predictions of phase behaviour of intrinsically disordered proteins by tuning the interaction range
inferredcites →https://doi.org/10.1371/journal.pcbi.1005941openalex-snapshot
Sequence determinants of protein phase behavior from a coarse-grained model
inferredcites →https://doi.org/10.1371/journal.pcbi.1008886openalex-snapshot
Personalized brain stimulation for effective neurointervention across participants
inferredcites →https://doi.org/10.1371/journal.pgen.1007542openalex-snapshot
Distinct regions of the intrinsically disordered protein MUT-16 mediate assembly of a small RNA amplification complex and promote phase separation of Mutator foci
inferredcites →https://doi.org/10.15252/embj.2021109952openalex-snapshot
On the role of phase separation in the biogenesis of membraneless compartments
inferredcites →https://doi.org/10.64898/2026.02.03.703500openalex-snapshot
On the Use of Double Mutant Cycles to Probe the Molecular Interactions in Biomolecular Condensates
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