P. G. Wolynes

Mass spectrometry of RNA-binding proteins during liquid-liquid phase separation reveals distinct assembly mechanisms and droplet architectures

The paper uses mass spectrometry and simulations to study phase separation of RNA-binding proteins, revealing distinct assembly mechanisms and droplet structures.

An intrinsically disordered transcription activation domain alters the DNA binding affinity and specificity of NFκB p50/RelA

This study shows that the RelA TAD increases NFκB-DNA binding affinity but reduces specificity for κB sequences by enhancing non-specific DNA binding.

Examining the Ensembles of Amyloid-β Monomer Variants and their Propensities to Form Fibers Using an Energy Landscape Visualization Method

This study uses ELViM to analyze Aβ40 and Aβ42 monomers and their mutations, showing how ELViM distinguishes fiber-forming from non-fiber-forming variants.

Vectorial Channeling as a Mechanism for Translational Control by Functional Prions and Condensates

The paper shows how mRNA/prion assemblies regulate translation through vectorial channeling, with repression or activation depending on mRNA distribution and assembly structure.

Protein Structure Refinement Guided by Atomic Packing Frustration Analysis

This study uses atomic packing frustration analysis to refine predicted protein structures, improving their quality through guided simulations.

Exploring Chromosomal Structural Heterogeneity AcrossMultiple Cell Lines

The paper uses simulations and machine learning to predict chromosomal structures across cell lines, showing consistency with microscopy and revealing conformational transitions and compartment rearrangements.

Multiple Binding Configurations of Fis Protein Pairs on DNA: Facilitated Dissociation versus Cooperative Dissociation

This study uses computational methods to analyze the dissociation pathways of Fis protein pairs from DNA, revealing two distinct mechanisms with different functional outcomes.

De Novo Prediction of Human Chromosome Structures: Epigenetic Marking Patterns Encode Genome Architecture

The paper predicts human chromosome structures from epigenetic data, showing that chromatin architecture can be inferred through phase separation-like processes using ChIP-Seq and Hi-C data.

The AWSEM-Amylometer: Predicting Amyloid Propensity And Fibril Topology Using An Optimized Folding Landscape Model

The paper introduces AWSEM-Amylometer, a computational method predicting amyloid propensity and fibril topology using an optimized folding landscape model, showing favorable performance compared to existing predictors.