‘RNA modulation of transport properties and stability in phase-separated condensates

Quantifying Viscosity and Surface Tension of Multi-Component Protein-Nucleic Acid Condensates

(2021) Ibraheem Alshareedah et al.   BIOPHYSICAL JOURNAL

FUS and TDP-43 Phases in Health and Disease

(2021) Bede Portz et al.   TRENDS IN BIOCHEMICAL SCIENCES

DNA length tunes the fluidity of DNA-based condensates

(2021) Fernando Muzzopappa et al.   BIOPHYSICAL JOURNAL

Thermodynamics and kinetics of phase separation of protein-RNA mixtures by a minimal model

(2021) Jerelle A. Joseph et al.   BIOPHYSICAL JOURNAL

A predictive coarse-grained model for position-specific effects of post-translational modifications

(2021) Theodora Myrto Perdikari et al.   BIOPHYSICAL JOURNAL

There is plenty of room in protein-RNA condensates

(2021) Miao Yu et al.   BIOPHYSICAL JOURNAL

NMR and EPR reveal a compaction of the RNA-binding protein FUS upon droplet formation

(2021) Leonidas Emmanouilidis et al.   Nature Chemical Biology

Ligand effects on phase separation of multivalent macromolecules

(2021) Kiersten M. Ruff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reentrant liquid condensate phase of proteins is stabilized by hydrophobic and non-ionic interactions

(2021) Georg Krainer et al.   Nature Communications

Valency and Binding Affinity Variations Can Regulate the Multilayered Organization of Protein Condensates with Many Components

(2021) Ignacio Sanchez-Burgos et al.   Biomolecules

RNA modulates physiological and neuropathological protein phase transitions

(2021) Jacob R. Mann et al.   NEURON

Size conservation emerges spontaneously in biomolecular condensates formed by scaffolds and surfactant clients

(2021) Ignacio Sanchez-Burgos et al.   Scientific Reports

Salt dependent phase behavior of intrinsically disordered proteins from a coarse-grained model with explicit water and ions

(2021) Adiran Garaizar et al.   JOURNAL OF CHEMICAL PHYSICS

Physical Principles Underlying the Complex Biology of Intracellular Phase Transitions

(2020) Jeong-Mo Choi et al.   Annual Review of Biophysics

Multidimensional Phase Diagrams for Multicomponent Systems Comprising Multivalent Proteins

(2020) Furqan Dar et al.   BIOPHYSICAL JOURNAL

Phase-separation in chromatin organization

(2020) Geeta J Narlikar   JOURNAL OF BIOSCIENCES

Model for disordered proteins with strongly sequence-dependent liquid phase behavior

(2020) Antonia Statt et al.   JOURNAL OF CHEMICAL PHYSICS

Development of a force field for the simulation of single-chain proteins and protein-protein complexes

(2020) Stefano Piana et al.   Journal of Chemical Theory and Computation

Multiphase Complex Coacervate Droplets

(2020) Tiemei Lu et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

TDP-43 α-helical structure tunes liquid–liquid phase separation and function

(2020) Alexander E. Conicella et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Can phase separation buffer cellular noise?

(2020) Joshua A. Riback et al.   SCIENCE

Valence and patterning of aromatic residues determine the phase behavior of prion-like domains

(2020) Erik W. Martin et al.   SCIENCE

Phase separation provides a mechanism to reduce noise in cells

(2020) A. Klosin et al.   SCIENCE

Biomolecular Phase Separation: From Molecular Driving Forces to Macroscopic Properties

(2020) Gregory L. Dignon et al.   Annual Review of Physical Chemistry

Competing Protein-RNA Interaction Networks Control Multiphase Intracellular Organization

(2020) David W. Sanders et al.   CELL

G3BP1 Is a Tunable Switch that Triggers Phase Separation to Assemble Stress Granules

(2020) Peiguo Yang et al.   CELL

RNA-Induced Conformational Switching and Clustering of G3BP Drive Stress Granule Assembly by Condensation

(2020) Jordina Guillén-Boixet et al.   CELL

Single-Protein Collapse Determines Phase Equilibria of a Biological Condensate

(2020) Han-Yi Chou et al.   Journal of Physical Chemistry Letters

Liquid network connectivity regulates the stability and composition of biomolecular condensates with many components

(2020) Jorge R. Espinosa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identifying sequence perturbations to an intrinsically disordered protein that determine its phase-separation behavior

(2020) Benjamin S. Schuster et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Complex microparticle architectures from stimuli-responsive intrinsically disordered proteins

(2020) Stefan Roberts et al.   Nature Communications

Phase transition of RNA−protein complexes into ordered hollow condensates

(2020) Ibraheem Alshareedah et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Unraveling Molecular Interactions in Liquid–Liquid Phase Separation of Disordered Proteins by Atomistic Simulations

(2020) Matteo Paloni et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Expansion of Intrinsically Disordered Proteins Increases the Range of Stability of Liquid–Liquid Phase Separation

(2020) Adiran Garaizar et al.   MOLECULES

Tunable multiphase dynamics of arginine and lysine liquid condensates

(2020) Rachel S. Fisher et al.   Nature Communications

Sequence dependent phase separation of protein-polynucleotide mixtures elucidated using molecular simulations

(2020) Roshan Mammen Regy et al.   NUCLEIC ACIDS RESEARCH

Protein condensates as aging Maxwell fluids

(2020) Louise Jawerth et al.   SCIENCE

Physics of Active Emulsions

(2019) Christoph A. Weber et al.   REPORTS ON PROGRESS IN PHYSICS

Complete Phase Diagram for Liquid–Liquid Phase Separation of Intrinsically Disordered Proteins

(2019) James McCarty et al.   Journal of Physical Chemistry Letters

RNA as a key factor in driving or preventing self-assembly of the TAR DNA-binding protein 43

(2019) Elsa Zacco et al.   JOURNAL OF MOLECULAR BIOLOGY

The role of liquid-liquid phase separation in aggregation of the TDP-43 low complexity domain

(2019) W. Michael Babinchak et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Cellular sensing by phase separation: Using the process, not just the products

(2019) Haneul Yoo et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Considerations and Challenges in Studying Liquid-Liquid Phase Separation and Biomolecular Condensates

(2019) Simon Alberti et al.   CELL

Mechanism of DNA-Induced Phase Separation for Transcriptional Repressor VRN1

(2019) Huabin Zhou et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Spontaneous driving forces give rise to protein−RNA condensates with coexisting phases and complex material properties

(2019) Steven Boeynaems et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Whole-Cell Models and Simulations in Molecular Detail

(2019) Michael Feig et al.   Annual Review of Cell and Developmental Biology

Genome organization around nuclear speckles

(2019) Yu Chen et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Breakdown of the law of rectilinear diameter and related surprises in the liquid-vapor coexistence in systems of patchy particles

(2019) Jorge R. Espinosa et al.   JOURNAL OF CHEMICAL PHYSICS

Liquid–Liquid Phase Separation Is Driven by Large-Scale Conformational Unwinding and Fluctuations of Intrinsically Disordered Protein Molecules

(2019) Anupa Majumdar et al.   Journal of Physical Chemistry Letters

Molecular interactions underlying liquid−liquid phase separation of the FUS low-complexity domain

(2019) Anastasia C. Murthy et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Structural basis for reversible amyloids of hnRNPA1 elucidates their role in stress granule assembly

(2019) Xinrui Gui et al.   Nature Communications

RNA is a critical element for the sizing and the composition of phase-separated RNA–protein condensates

(2019) Marina Garcia-Jove Navarro et al.   Nature Communications

Interplay between Short-Range Attraction and Long-Range Repulsion Controls Reentrant Liquid Condensation of Ribonucleoprotein–RNA Complexes

(2019) Ibraheem Alshareedah et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

LLPSDB: a database of proteins undergoing liquid–liquid phase separation in vitro

(2019) Qian Li et al.   NUCLEIC ACIDS RESEARCH

HP1 reshapes nucleosome core to promote phase separation of heterochromatin

(2019) S. Sanulli et al.   NATURE

Atomic-level insight into mRNA processing bodies by combining solid and solution-state NMR spectroscopy

(2019) Reinier Damman et al.   Nature Communications

LASSI: A lattice model for simulating phase transitions of multivalent proteins

(2019) Jeong-Mo Choi et al.   PLoS Computational Biology

The Role of Phase Separation in Heterochromatin Formation, Function, and Regulation

(2018) Adam G. Larson et al.   BIOCHEMISTRY

Phase Transitions in the Assembly and Function of Human miRISC

(2018) Jessica Sheu-Gruttadauria et al.   CELL

A Molecular Grammar Governing the Driving Forces for Phase Separation of Prion-like RNA Binding Proteins

(2018) Jie Wang et al.   CELL

FUS Phase Separation Is Modulated by a Molecular Chaperone and Methylation of Arginine Cation-π Interactions

(2018) Seema Qamar et al.   CELL

A single N‐terminal phosphomimic disrupts TDP‐43 polymerization, phase separation, and RNA splicing

(2018) Ailin Wang et al.   EMBO JOURNAL

Tau protein liquid–liquid phase separation can initiate tau aggregation

(2018) Susanne Wegmann et al.   EMBO JOURNAL

The Role of Post-Translational Modifications on Prion-Like Aggregation and Liquid-Phase Separation of FUS

(2018) Shannon Rhoads et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

TAR DNA-binding protein 43 (TDP-43) liquid–liquid phase separation is mediated by just a few aromatic residues

(2018) Hao-Ru Li et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Prion-like low-complexity sequences: Key regulators of protein solubility and phase behavior

(2018) Titus Franzmann et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Lattice Model of Charge-Pattern-Dependent Polyampholyte Phase Separation

(2018) Suman Das et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Mechanistic View of hnRNPA2 Low-Complexity Domain Structure, Interactions, and Phase Separation Altered by Mutation and Arginine Methylation

(2018) Veronica H. Ryan et al.   MOLECULAR CELL

Differential solvation of intrinsically disordered linkers drives the formation of spatially organized droplets in ternary systems of linear multivalent proteins

(2018) Tyler S Harmon et al.   NEW JOURNAL OF PHYSICS

RNA buffers the phase separation behavior of prion-like RNA binding proteins

(2018) Shovamayee Maharana et al.   SCIENCE

Coactivator condensation at super-enhancers links phase separation and gene control

(2018) Benjamin R. Sabari et al.   SCIENCE

Protein Phase Separation: A New Phase in Cell Biology

(2018) Steven Boeynaems et al.   TRENDS IN CELL BIOLOGY

Liquid-Liquid Phase Separation of Patchy Particles Illuminates Diverse Effects of Regulatory Components on Protein Droplet Formation

(2018) Valery Nguemaha et al.   Scientific Reports

Different Material States of Pub1 Condensates Define Distinct Modes of Stress Adaptation and Recovery

(2018) Sonja Kroschwald et al.   Cell Reports

Intrinsically Disordered Regions Can Contribute Promiscuous Interactions to RNP Granule Assembly

(2018) David S.W. Protter et al.   Cell Reports

Sequence determinants of protein phase behavior from a coarse-grained model

(2018) Gregory L. Dignon et al.   PLoS Computational Biology

Cancer Mutations of the Tumor Suppressor SPOP Disrupt the Formation of Active, Phase-Separated Compartments

(2018) Jill J. Bouchard et al.   MOLECULAR CELL

Poly(ADP-Ribose) Prevents Pathological Phase Separation of TDP-43 by Promoting Liquid Demixing and Stress Granule Localization

(2018) Leeanne McGurk et al.   MOLECULAR CELL

Phase-separation mechanism for C-terminal hyperphosphorylation of RNA polymerase II

(2018) Huasong Lu et al.   NATURE

Relation between single-molecule properties and phase behavior of intrinsically disordered proteins

(2018) Gregory L. Dignon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mechanobiology of Protein Droplets: Force Arises from Disorder

(2018) Timothy J. Welsh et al.   CELL

Liquid Nuclear Condensates Mechanically Sense and Restructure the Genome

(2018) Yongdae Shin et al.   CELL

The RNA-Recognition Motifs of TAR DNA-Binding Protein 43 May Play a Role in the Aberrant Self-Assembly of the Protein

(2018) Elsa Zacco et al.   Frontiers in Molecular Neuroscience

Interfacial Tension of Phase-Separated Polydisperse Mixed Polymer Solutions

(2017) Mark Vis et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Phase separation drives heterochromatin domain formation

(2017) Amy R. Strom et al.   NATURE

Liquid droplet formation by HP1α suggests a role for phase separation in heterochromatin

(2017) Adam G. Larson et al.   NATURE

Phase behaviour of disordered proteins underlying low density and high permeability of liquid organelles

(2017) Ming-Tzo Wei et al.   Nature Chemistry

Biomolecular condensates: organizers of cellular biochemistry

(2017) Salman F. Banani et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Charge pattern matching as a ‘fuzzy’ mode of molecular recognition for the functional phase separations of intrinsically disordered proteins

(2017) Yi-Hsuan Lin et al.   NEW JOURNAL OF PHYSICS

Innovative scattering analysis shows that hydrophobic disordered proteins are expanded in water

(2017) Joshua A. Riback et al.   SCIENCE

Liquid phase condensation in cell physiology and disease

(2017) Yongdae Shin et al.   SCIENCE

Functional and dynamic polymerization of the ALS-linked protein TDP-43 antagonizes its pathologic aggregation

(2017) Tariq Afroz et al.   Nature Communications

RRM domain of ALS/FTD-causing FUS characteristic of irreversible unfolding spontaneously self-assembles into amyloid fibrils

(2017) Yimei Lu et al.   Scientific Reports

Intrinsically disordered linkers determine the interplay between phase separation and gelation in multivalent proteins

(2017) Tyler S Harmon et al.   eLife

Polar Positioning of Phase-Separated Liquid Compartments in Cells Regulated by an mRNA Competition Mechanism

(2016) Shambaditya Saha et al.   CELL

Liquid–liquid phase separation in cellular signaling systems

(2016) P Andrew Chong et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Vapour–liquid phase equilibrium and surface tension of fully flexible Lennard–Jones chains

(2016) Kevin S. Silmore et al.   MOLECULAR PHYSICS

Synergy between NMR measurements and MD simulations of protein/RNA complexes: application to the RRMs, the most common RNA recognition motifs

(2016) Miroslav Krepl et al.   NUCLEIC ACIDS RESEARCH

Phase separation of signaling molecules promotes T cell receptor signal transduction

(2016) Xiaolei Su et al.   SCIENCE

ALS-Causing Mutations Significantly Perturb the Self-Assembly and Interaction with Nucleic Acid of the Intrinsically Disordered Prion-Like Domain of TDP-43

(2016) Liangzhong Lim et al.   PLOS BIOLOGY

How to understand atomistic molecular dynamics simulations of RNA and protein-RNA complexes?

(2016) Jiří Šponer et al.   Wiley Interdisciplinary Reviews-RNA

Phase Separation by Low Complexity Domains Promotes Stress Granule Assembly and Drives Pathological Fibrillization

(2015) Amandine Molliex et al.   CELL

A Liquid-to-Solid Phase Transition of the ALS Protein FUS Accelerated by Disease Mutation

(2015) Avinash Patel et al.   CELL

Chromatin Unfolding by Epigenetic Modifications Explained by Dramatic Impairment of Internucleosome Interactions: A Multiscale Computational Study

(2015) Rosana Collepardo-Guevara et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

It’s Raining Liquids: RNA Tunes Viscoelasticity and Dynamics of Membraneless Organelles

(2015) Lin Guo et al.   MOLECULAR CELL

RNA Controls PolyQ Protein Phase Transitions

(2015) Huaiying Zhang et al.   MOLECULAR CELL

Formation and Maturation of Phase-Separated Liquid Droplets by RNA-Binding Proteins

(2015) Yuan Lin et al.   MOLECULAR CELL

Residue-by-Residue View of In Vitro FUS Granules that Bind the C-Terminal Domain of RNA Polymerase II

(2015) Kathleen A. Burke et al.   MOLECULAR CELL

Phase Transition of a Disordered Nuage Protein Generates Environmentally Responsive Membraneless Organelles

(2015) Timothy J. Nott et al.   MOLECULAR CELL

Single-molecule spectroscopy of protein conformational dynamics in live eukaryotic cells

(2015) Iwo König et al.   NATURE METHODS

Polymer physics of intracellular phase transitions

(2015) Clifford P. Brangwynne et al.   Nature Physics

Conserved interdomain linker promotes phase separation of the multivalent adaptor protein Nck

(2015) Sudeep Banjade et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The disordered P granule protein LAF-1 drives phase separation into droplets with tunable viscosity and dynamics

(2015) Shana Elbaum-Garfinkle et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Liquid-Liquid Phase Separation in Biology

(2014) Anthony A. Hyman et al.   Annual Review of Cell and Developmental Biology

Dissection of genetic factors associated with amyotrophic lateral sclerosis

(2014) Claire S. Leblond et al.   EXPERIMENTAL NEUROLOGY

The crystal structure of TDP-43 RRM1-DNA complex reveals the specific recognition for UG- and TG-rich nucleic acids

(2014) P.-H. Kuo et al.   NUCLEIC ACIDS RESEARCH

Stress granules as crucibles of ALS pathogenesis

(2013) Yun R. Li et al.   JOURNAL OF CELL BIOLOGY

On fluid-solid direct coexistence simulations: The pseudo-hard sphere model

(2013) Jorge R. Espinosa et al.   JOURNAL OF CHEMICAL PHYSICS

A nuclear F-actin scaffold stabilizes ribonucleoprotein droplets against gravity in large cells

(2013) Marina Feric et al.   NATURE CELL BIOLOGY

Molecular basis of UG-rich RNA recognition by the human splicing factor TDP-43

(2013) Peter J Lukavsky et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Characterizing TDP-43 interaction with its RNA targets

(2013) Amit Bhardwaj et al.   NUCLEIC ACIDS RESEARCH

Conformations of intrinsically disordered proteins are influenced by linear sequence distributions of oppositely charged residues

(2013) R. K. Das et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA Seeds Higher-Order Assembly of FUS Protein

(2013) Jacob C. Schwartz et al.   Cell Reports

Cell-free Formation of RNA Granules: Low Complexity Sequence Domains Form Dynamic Fibers within Hydrogels

(2012) Masato Kato et al.   CELL

Phase transitions in the assembly of multivalent signalling proteins

(2012) Pilong Li et al.   NATURE

Re-entrant phase behaviour of network fluids: A patchy particle model with temperature-dependent valence

(2011) J. Russo et al.   JOURNAL OF CHEMICAL PHYSICS

Active liquid-like behavior of nucleoli determines their size and shape in Xenopus laevis oocytes

(2011) C. P. Brangwynne et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

How Fast-Folding Proteins Fold

(2011) K. Lindorff-Larsen et al.   SCIENCE

Beyond the Random Coil: Stochastic Conformational Switching in Intrinsically Disordered Proteins

(2011) Ucheor B. Choi et al.   STRUCTURE

Efficient on the fly calculation of time correlation functions in computer simulations

(2010) Jorge Ramírez et al.   JOURNAL OF CHEMICAL PHYSICS

Detecting the conformation of individual proteins in live cells

(2010) John J Sakon et al.   NATURE METHODS

Cytoplasmic ribonucleoprotein (RNP) bodies and their relationship to GW/P bodies

(2009) Joanna J. Moser et al.   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

Germline P Granules Are Liquid Droplets That Localize by Controlled Dissolution/Condensation

(2009) C. P. Brangwynne et al.   SCIENCE

RNA recognition motifs: boring? Not quite

(2008) Antoine Cléry et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Vapor-liquid interfacial properties of fully flexible Lennard-Jones chains

(2008) Felipe J. Blas et al.   JOURNAL OF CHEMICAL PHYSICS