{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,17]],"date-time":"2026-05-17T07:46:54Z","timestamp":1779004014921,"version":"3.51.4"},"update-to":[{"DOI":"10.1371\/journal.pcbi.1012737","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2025,2,21]],"date-time":"2025-02-21T00:00:00Z","timestamp":1740096000000}}],"reference-count":135,"publisher":"Public Library of Science (PLoS)","issue":"1","license":[{"start":{"date-parts":[[2025,1,13]],"date-time":"2025-01-13T00:00:00Z","timestamp":1736726400000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Ramon y Cajal fellowship","award":["RYC2021-030937-I"],"award-info":[{"award-number":["RYC2021-030937-I"]}]},{"DOI":"10.13039\/501100000266","name":"Engineering and Physical Sciences Research Council","doi-asserted-by":"publisher","award":["EP\/T517847\/1"],"award-info":[{"award-number":["EP\/T517847\/1"]}],"id":[{"id":"10.13039\/501100000266","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100019180","name":"HORIZON EUROPE European Research Council","doi-asserted-by":"publisher","award":["803326"],"award-info":[{"award-number":["803326"]}],"id":[{"id":"10.13039\/100019180","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Spanish National Grant","award":["PID2022-136919NA-C33"],"award-info":[{"award-number":["PID2022-136919NA-C33"]}]},{"name":"Spanish Ministry for Science, Innovation and Universities","award":["PID2023-147156NB-I00"],"award-info":[{"award-number":["PID2023-147156NB-I00"]}]}],"content-domain":{"domain":["www.ploscompbiol.org"],"crossmark-restriction":false},"short-container-title":["PLoS Comput Biol"],"abstract":"<jats:p>\n                    Intracellular liquid\u2013liquid phase separation (LLPS) of proteins and nucleic acids is a fundamental mechanism by which cells compartmentalize their components and perform essential biological functions. Molecular simulations play a crucial role in providing microscopic insights into the physicochemical processes driving this phenomenon. In this study, we systematically compare six state-of-the-art sequence-dependent residue-resolution models to evaluate their performance in reproducing the phase behaviour and material properties of condensates formed by seven variants of the low-complexity domain (LCD) of the hnRNPA1 protein (A1-LCD)\u2014a protein implicated in the pathological liquid-to-solid transition of stress granules. Specifically, we assess the HPS, HPS-cation\u2013\n                    <jats:italic>\u03c0<\/jats:italic>\n                    , HPS-Urry, CALVADOS2, Mpipi, and Mpipi-Recharged models in their predictions of the condensate saturation concentration, critical solution temperature, and condensate viscosity of the A1-LCD variants. Our analyses demonstrate that, among the tested models, Mpipi, Mpipi-Recharged, and CALVADOS2 provide accurate descriptions of the critical solution temperatures and saturation concentrations for the multiple A1-LCD variants tested. Regarding the prediction of material properties for condensates of A1-LCD and its variants, Mpipi-Recharged stands out as the most reliable model. Overall, this study benchmarks a range of residue-resolution coarse-grained models for the study of the thermodynamic stability and material properties of condensates and establishes a direct link between their performance and the ranking of intermolecular interactions these models consider.\n                  <\/jats:p>","DOI":"10.1371\/journal.pcbi.1012737","type":"journal-article","created":{"date-parts":[[2025,1,13]],"date-time":"2025-01-13T14:07:28Z","timestamp":1736777248000},"page":"e1012737","update-policy":"https:\/\/doi.org\/10.1371\/journal.pcbi.corrections_policy","source":"Crossref","is-referenced-by-count":19,"title":["Benchmarking residue-resolution protein coarse-grained models for simulations of biomolecular condensates"],"prefix":"10.1371","volume":"21","author":[{"ORCID":"https:\/\/orcid.org\/0009-0000-1282-7580","authenticated-orcid":true,"given":"Alejandro","family":"Feito","sequence":"first","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1160-3945","authenticated-orcid":true,"given":"Ignacio","family":"Sanchez-Burgos","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0009-0008-2683-1204","authenticated-orcid":true,"given":"Ignacio","family":"Tejero","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6474-5835","authenticated-orcid":true,"given":"Eduardo","family":"Sanz","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8901-4198","authenticated-orcid":true,"given":"Antonio","family":"Rey","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1781-7351","authenticated-orcid":true,"given":"Rosana","family":"Collepardo-Guevara","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9437-6169","authenticated-orcid":true,"given":"Andr\u00e9s R.","family":"Tejedor","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9530-2658","authenticated-orcid":true,"given":"Jorge R.","family":"Espinosa","sequence":"additional","affiliation":[]}],"member":"340","published-online":{"date-parts":[[2025,1,13]]},"reference":[{"issue":"6098","key":"pcbi.1012737.ref001","doi-asserted-by":"crossref","first-page":"1047","DOI":"10.1126\/science.1223728","article-title":"Beyond Oil and Water-Phase Transitions in Cells","volume":"337","author":"AA Hyman","year":"2012","journal-title":"Science"},{"key":"pcbi.1012737.ref002","doi-asserted-by":"crossref","first-page":"39","DOI":"10.1146\/annurev-cellbio-100913-013325","article-title":"Liquid-liquid phase separation in biology","volume":"30","author":"AA Hyman","year":"2014","journal-title":"Annual review of cell and developmental biology"},{"issue":"5935","key":"pcbi.1012737.ref003","doi-asserted-by":"crossref","first-page":"1729","DOI":"10.1126\/science.1172046","article-title":"Germline P granules are liquid droplets that localize by controlled dissolution\/condensation","volume":"324","author":"CP Brangwynne","year":"2009","journal-title":"Science"},{"issue":"6285","key":"pcbi.1012737.ref004","doi-asserted-by":"crossref","first-page":"595","DOI":"10.1126\/science.aad9964","article-title":"Phase separation of signaling molecules promotes T cell receptor signal transduction","volume":"352","author":"X Su","year":"2016","journal-title":"Science"},{"issue":"20","key":"pcbi.1012737.ref005","doi-asserted-by":"crossref","first-page":"4137","DOI":"10.1016\/j.molcel.2021.09.010","article-title":"Liquid-liquid phase separation: Orchestrating cell signaling through time and space","volume":"81","author":"Q Su","year":"2021","journal-title":"Molecular cell"},{"issue":"3","key":"pcbi.1012737.ref006","doi-asserted-by":"crossref","first-page":"188","DOI":"10.1038\/s41577-021-00572-5","article-title":"Phase separation in immune signalling","volume":"22","author":"Q Xiao","year":"2022","journal-title":"Nature Reviews Immunology"},{"issue":"6","key":"pcbi.1012737.ref007","doi-asserted-by":"crossref","first-page":"420","DOI":"10.1016\/j.tcb.2018.02.004","article-title":"Protein phase separation: a new phase in cell biology","volume":"28","author":"S Boeynaems","year":"2018","journal-title":"Trends in cell biology"},{"issue":"15","key":"pcbi.1012737.ref008","doi-asserted-by":"crossref","first-page":"4912","DOI":"10.1002\/ange.201810373","article-title":"Mechanism of DNA-induced phase separation for transcriptional repressor VRN1","volume":"131","author":"H Zhou","year":"2019","journal-title":"Angewandte Chemie"},{"issue":"4","key":"pcbi.1012737.ref009","doi-asserted-by":"crossref","first-page":"1652","DOI":"10.1021\/jp9110794","article-title":"Assessing the stability of Alzheimer\u2019s amyloid protofibrils using molecular dynamics","volume":"114","author":"JA Lemkul","year":"2010","journal-title":"The Journal of Physical Chemistry B"},{"issue":"5","key":"pcbi.1012737.ref010","doi-asserted-by":"crossref","first-page":"e109952","DOI":"10.15252\/embj.2021109952","article-title":"On the role of phase separation in the biogenesis of membraneless compartments","volume":"41","author":"A Musacchio","year":"2022","journal-title":"The EMBO journal"},{"issue":"7662","key":"pcbi.1012737.ref011","doi-asserted-by":"crossref","first-page":"241","DOI":"10.1038\/nature22989","article-title":"Phase separation drives heterochromatin domain formation","volume":"547","author":"AR Strom","year":"2017","journal-title":"Nature"},{"issue":"1","key":"pcbi.1012737.ref012","doi-asserted-by":"crossref","first-page":"5","DOI":"10.1007\/s12038-019-9978-z","article-title":"Phase-separation in chromatin organization","volume":"45","author":"GJ Narlikar","year":"2020","journal-title":"Journal of Biosciences"},{"issue":"25","key":"pcbi.1012737.ref013","doi-asserted-by":"crossref","first-page":"e2100099118","DOI":"10.1073\/pnas.2100099118","article-title":"Physical theory of biological noise buffering by multicomponent phase separation","volume":"118","author":"D Deviri","year":"2021","journal-title":"Proceedings of the National Academy of Sciences"},{"issue":"6476","key":"pcbi.1012737.ref014","doi-asserted-by":"crossref","first-page":"364","DOI":"10.1126\/science.aba0446","article-title":"Can phase separation buffer cellular noise?","volume":"367","author":"JA Riback","year":"2020","journal-title":"Science"},{"issue":"6476","key":"pcbi.1012737.ref015","doi-asserted-by":"crossref","first-page":"464","DOI":"10.1126\/science.aav6691","article-title":"Phase separation provides a mechanism to reduce noise in cells","volume":"367","author":"A Klosin","year":"2020","journal-title":"Science"},{"issue":"4","key":"pcbi.1012737.ref016","doi-asserted-by":"crossref","first-page":"946","DOI":"10.1016\/j.cell.2018.02.051","article-title":"Phase transitions in the assembly and function of human miRISC","volume":"173","author":"J Sheu-Gruttadauria","year":"2018","journal-title":"Cell"},{"issue":"1","key":"pcbi.1012737.ref017","doi-asserted-by":"crossref","first-page":"19","DOI":"10.1016\/j.molcel.2018.08.027","article-title":"Cancer mutations of the tumor suppressor SPOP disrupt the formation of active, phase-separated compartments","volume":"72","author":"JJ Bouchard","year":"2018","journal-title":"Molecular cell"},{"issue":"3","key":"pcbi.1012737.ref018","doi-asserted-by":"crossref","first-page":"720","DOI":"10.1016\/j.cell.2018.03.056","article-title":"FUS phase separation is modulated by a molecular chaperone and methylation of arginine cation-\u03c0 interactions","volume":"173","author":"S Qamar","year":"2018","journal-title":"Cell"},{"issue":"7","key":"pcbi.1012737.ref019","doi-asserted-by":"crossref","first-page":"637","DOI":"10.1038\/s41594-019-0250-x","article-title":"Molecular interactions underlying liquid- liquid phase separation of the FUS low-complexity domain","volume":"26","author":"AC Murthy","year":"2019","journal-title":"Nature structural & molecular biology"},{"key":"pcbi.1012737.ref020","doi-asserted-by":"crossref","first-page":"826719","DOI":"10.3389\/fmolb.2022.826719","article-title":"Liquid-liquid phase separation of TDP-43 and FUS in physiology and pathology of neurodegenerative diseases","volume":"9","author":"JL Carey","year":"2022","journal-title":"Frontiers in molecular biosciences"},{"issue":"16","key":"pcbi.1012737.ref021","doi-asserted-by":"crossref","first-page":"6090","DOI":"10.1074\/jbc.AC117.001037","article-title":"TAR DNA-binding protein 43 (TDP-43) liquid\u2013liquid phase separation is mediated by just a few aromatic residues","volume":"293","author":"HR Li","year":"2018","journal-title":"Journal of Biological Chemistry"},{"issue":"5","key":"pcbi.1012737.ref022","doi-asserted-by":"crossref","first-page":"703","DOI":"10.1016\/j.molcel.2018.07.002","article-title":"Poly (ADP-ribose) prevents pathological phase separation of TDP-43 by promoting liquid demixing and stress granule localization","volume":"71","author":"L McGurk","year":"2018","journal-title":"Molecular cell"},{"issue":"5","key":"pcbi.1012737.ref023","doi-asserted-by":"crossref","first-page":"2931","DOI":"10.1093\/nar\/gkab063","article-title":"Interplay of folded domains and the disordered low-complexity domain in mediating hnRNPA1 phase separation","volume":"49","author":"EW Martin","year":"2021","journal-title":"Nucleic acids research"},{"issue":"1","key":"pcbi.1012737.ref024","doi-asserted-by":"crossref","first-page":"123","DOI":"10.1016\/j.cell.2015.09.015","article-title":"Phase separation by low complexity domains promotes stress granule assembly and drives pathological fibrillization","volume":"163","author":"A Molliex","year":"2015","journal-title":"Cell"},{"issue":"2","key":"pcbi.1012737.ref025","doi-asserted-by":"crossref","first-page":"189","DOI":"10.1016\/j.molcel.2015.10.006","article-title":"It\u2019s raining liquids: RNA tunes viscoelasticity and dynamics of membraneless organelles","volume":"60","author":"L Guo","year":"2015","journal-title":"Molecular cell"},{"issue":"15","key":"pcbi.1012737.ref026","doi-asserted-by":"crossref","first-page":"7535","DOI":"10.1093\/nar\/gkv679","article-title":"Nucleic acid-binding specificity of human FUS protein","volume":"43","author":"X Wang","year":"2015","journal-title":"Nucleic acids research"},{"issue":"1","key":"pcbi.1012737.ref027","doi-asserted-by":"crossref","first-page":"7722","DOI":"10.1038\/s41467-022-35370-7","article-title":"Condensates formed by prion-like low-complexity domains have small-world network structures and interfaces defined by expanded conformations","volume":"13","author":"M Farag","year":"2022","journal-title":"Nature communications"},{"key":"pcbi.1012737.ref028","doi-asserted-by":"crossref","first-page":"41","DOI":"10.1016\/j.sbi.2020.09.004","article-title":"How do intrinsically disordered protein regions encode a driving force for liquid\u2013liquid phase separation?","volume":"67","author":"W Borcherds","year":"2021","journal-title":"Current opinion in structural biology"},{"issue":"6376","key":"pcbi.1012737.ref029","doi-asserted-by":"crossref","first-page":"698","DOI":"10.1126\/science.aan6398","article-title":"Atomic structures of low-complexity protein segments reveal kinked \u03b2 sheets that assemble networks","volume":"359","author":"MP Hughes","year":"2018","journal-title":"Science"},{"issue":"8","key":"pcbi.1012737.ref030","doi-asserted-by":"crossref","first-page":"705","DOI":"10.1038\/s41557-020-0465-9","article-title":"\u03b1-Synuclein aggregation nucleates through liquid\u2013liquid phase separation","volume":"12","author":"S Ray","year":"2020","journal-title":"Nature chemistry"},{"issue":"1","key":"pcbi.1012737.ref031","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1038\/s41467-022-32874-0","article-title":"Protein structural transitions critically transform the network connectivity and viscoelasticity of RNA-binding protein condensates but RNA can prevent it","volume":"13","author":"AR Tejedor","year":"2022","journal-title":"Nature communications"},{"issue":"12","key":"pcbi.1012737.ref032","doi-asserted-by":"crossref","first-page":"E2466","DOI":"10.1073\/pnas.1614462114","article-title":"Amyotrophic lateral sclerosis-linked mutations increase the viscosity of liquid-like TDP-43 RNP granules in neurons","volume":"114","author":"PP Gopal","year":"2017","journal-title":"Proceedings of the National Academy of Sciences"},{"key":"pcbi.1012737.ref033","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1016\/j.brainres.2018.04.036","article-title":"The physiological and pathological biophysics of phase separation and gelation of RNA binding proteins in amyotrophic lateral sclerosis and fronto-temporal lobar degeneration","volume":"1693","author":"P St George-Hyslop","year":"2018","journal-title":"Brain research"},{"issue":"5","key":"pcbi.1012737.ref034","doi-asserted-by":"crossref","first-page":"1066","DOI":"10.1016\/j.cell.2015.07.047","article-title":"A liquid-to-solid phase transition of the ALS protein FUS accelerated by disease mutation","volume":"162","author":"A Patel","year":"2015","journal-title":"Cell"},{"issue":"4","key":"pcbi.1012737.ref035","doi-asserted-by":"crossref","first-page":"808","DOI":"10.1016\/j.neuron.2017.07.025","article-title":"TIA1 mutations in amyotrophic lateral sclerosis and frontotemporal dementia promote phase separation and alter stress granule dynamics","volume":"95","author":"IR Mackenzie","year":"2017","journal-title":"Neuron"},{"issue":"1","key":"pcbi.1012737.ref036","first-page":"1","article-title":"RRM domain of ALS\/FTD-causing FUS characteristic of irreversible unfolding spontaneously self-assembles into amyloid fibrils","volume":"7","author":"Y Lu","year":"2017","journal-title":"Scientific Reports"},{"issue":"1","key":"pcbi.1012737.ref037","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1038\/s41467-017-00480-0","article-title":"Liquid\u2013liquid phase separation of the microtubule-binding repeats of the Alzheimer-related protein Tau","volume":"8","author":"S Ambadipudi","year":"2017","journal-title":"Nature communications"},{"issue":"28","key":"pcbi.1012737.ref038","doi-asserted-by":"crossref","first-page":"11047","DOI":"10.1074\/jbc.RA118.001747","article-title":"RNA-binding proteins with basic-acidic dipeptide (BAD) domains self-assemble and aggregate in Alzheimer\u2019s disease","volume":"293","author":"I Bishof","year":"2018","journal-title":"Journal of Biological Chemistry"},{"issue":"12","key":"pcbi.1012737.ref039","doi-asserted-by":"crossref","first-page":"890","DOI":"10.1111\/tra.12704","article-title":"Biomolecular condensates in neurodegeneration and cancer","volume":"20","author":"S Spannl","year":"2019","journal-title":"Traffic"},{"issue":"4","key":"pcbi.1012737.ref040","doi-asserted-by":"crossref","first-page":"239","DOI":"10.1038\/s41568-022-00444-7","article-title":"Liquid\u2013liquid phase separation drives cellular function and dysfunction in cancer","volume":"22","author":"S Mehta","year":"2022","journal-title":"Nature Reviews Cancer"},{"issue":"44","key":"pcbi.1012737.ref041","doi-asserted-by":"crossref","first-page":"e2111696118","DOI":"10.1073\/pnas.2111696118","article-title":"Accurate model of liquid\u2013liquid phase behavior of intrinsically disordered proteins from optimization of single-chain properties","volume":"118","author":"G Tesei","year":"2021","journal-title":"Proceedings of the National Academy of Sciences"},{"key":"pcbi.1012737.ref042","doi-asserted-by":"crossref","first-page":"102333","DOI":"10.1016\/j.cbpa.2023.102333","article-title":"Challenges in studying the liquid-to-solid phase transitions of proteins using computer simulations","volume":"75","author":"B Sza\u0142a-Mendyk","year":"2023","journal-title":"Current Opinion in Chemical Biology"},{"issue":"1","key":"pcbi.1012737.ref043","doi-asserted-by":"crossref","first-page":"e1005941","DOI":"10.1371\/journal.pcbi.1005941","article-title":"Sequence determinants of protein phase behavior from a coarse-grained model","volume":"14","author":"GL Dignon","year":"2018","journal-title":"PLoS computational biology"},{"issue":"41","key":"pcbi.1012737.ref044","doi-asserted-by":"crossref","first-page":"9009","DOI":"10.1021\/acs.jpcb.0c06288","article-title":"Unraveling molecular interactions in liquid\u2013liquid phase separation of disordered proteins by atomistic simulations","volume":"124","author":"M Paloni","year":"2020","journal-title":"The Journal of Physical Chemistry B"},{"issue":"51","key":"pcbi.1012737.ref045","doi-asserted-by":"crossref","first-page":"11671","DOI":"10.1021\/acs.jpcb.0c10489","article-title":"Molecular details of protein condensates probed by microsecond long atomistic simulations","volume":"124","author":"W Zheng","year":"2020","journal-title":"The Journal of Physical Chemistry B"},{"issue":"3","key":"pcbi.1012737.ref046","doi-asserted-by":"crossref","first-page":"e1405","DOI":"10.1002\/wrna.1405","article-title":"How to understand atomistic molecular dynamics simulations of RNA and protein\u2013RNA complexes?","volume":"8","author":"J Sponer","year":"2017","journal-title":"Wiley Interdisciplinary Reviews: RNA"},{"issue":"15","key":"pcbi.1012737.ref047","doi-asserted-by":"crossref","first-page":"4030","DOI":"10.1016\/j.cell.2024.05.048","article-title":"TERT activation targets DNA methylation and multiple aging hallmarks","volume":"187","author":"HS Shim","year":"2024","journal-title":"Cell"},{"issue":"13","key":"pcbi.1012737.ref048","doi-asserted-by":"crossref","DOI":"10.1063\/5.0101529","article-title":"Alternating one-phase and two-phase crystallization mechanisms in octahedral patchy colloids","volume":"157","author":"A Garaizar","year":"2022","journal-title":"The Journal of Chemical Physics"},{"issue":"22","key":"pcbi.1012737.ref049","doi-asserted-by":"crossref","first-page":"224510","DOI":"10.1063\/1.5098551","article-title":"Breakdown of the law of rectilinear diameter and related surprises in the liquid-vapor coexistence in systems of patchy particles","volume":"150","author":"JR Espinosa","year":"2019","journal-title":"The Journal of chemical physics"},{"issue":"1","key":"pcbi.1012737.ref050","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1038\/s41598-018-25132-1","article-title":"Liquid-liquid phase separation of patchy particles illuminates diverse effects of regulatory components on protein droplet formation","volume":"8","author":"V Nguemaha","year":"2018","journal-title":"Scientific reports"},{"issue":"2","key":"pcbi.1012737.ref051","doi-asserted-by":"crossref","first-page":"278","DOI":"10.3390\/biom11020278","article-title":"Valency and Binding Affinity Variations Can Regulate the Multilayered Organization of Protein Condensates with Many Components","volume":"11","author":"I Sanchez-Burgos","year":"2021","journal-title":"Biomolecules"},{"issue":"1","key":"pcbi.1012737.ref052","doi-asserted-by":"crossref","first-page":"e1005941","DOI":"10.1371\/journal.pcbi.1005941","article-title":"Sequence determinants of protein phase behavior from a coarse-grained model","volume":"14","author":"GL Dignon","year":"2018","journal-title":"PLoS computational biology"},{"issue":"11","key":"pcbi.1012737.ref053","doi-asserted-by":"crossref","first-page":"732","DOI":"10.1038\/s43588-021-00155-3","article-title":"Physics-driven coarse-grained model for biomolecular phase separation with near-quantitative accuracy","volume":"1","author":"JA Joseph","year":"2021","journal-title":"Nature Computational Science"},{"issue":"7","key":"pcbi.1012737.ref054","doi-asserted-by":"crossref","first-page":"1371","DOI":"10.1002\/pro.4094","article-title":"Improved coarse-grained model for studying sequence dependent phase separation of disordered proteins","volume":"30","author":"RM Regy","year":"2021","journal-title":"Protein Science"},{"key":"pcbi.1012737.ref055","doi-asserted-by":"crossref","first-page":"94","DOI":"10.12688\/openreseurope.14967.2","article-title":"Improved predictions of phase behaviour of intrinsically disordered proteins by tuning the interaction range","volume":"2","author":"G Tesei","year":"2023","journal-title":"Open Research Europe"},{"issue":"46","key":"pcbi.1012737.ref056","doi-asserted-by":"crossref","first-page":"28795","DOI":"10.1073\/pnas.2008122117","article-title":"Comparative roles of charge, \u03c0, and hydrophobic interactions in sequence-dependent phase separation of intrinsically disordered proteins","volume":"117","author":"S Das","year":"2020","journal-title":"Proceedings of the National Academy of Sciences"},{"issue":"3","key":"pcbi.1012737.ref057","doi-asserted-by":"crossref","first-page":"43a","DOI":"10.1016\/j.bpj.2023.11.341","article-title":"Direct prediction of intrinsically disordered protein conformational properties from sequence","volume":"123","author":"JM Lotthammer","year":"2024","journal-title":"Biophysical Journal"},{"issue":"16","key":"pcbi.1012737.ref058","doi-asserted-by":"crossref","first-page":"4046","DOI":"10.1021\/acs.jpcb.0c11479","article-title":"A data-driven hydrophobicity scale for predicting liquid\u2013liquid phase separation of proteins","volume":"125","author":"T Dannenhoffer-Lafage","year":"2021","journal-title":"The Journal of Physical Chemistry B"},{"issue":"12","key":"pcbi.1012737.ref059","doi-asserted-by":"crossref","first-page":"125103","DOI":"10.1063\/5.0062687","article-title":"Salt dependent phase behavior of intrinsically disordered proteins from a coarse-grained model with explicit water and ions","volume":"155","author":"A Garaizar","year":"2021","journal-title":"The Journal of Chemical Physics"},{"issue":"7","key":"pcbi.1012737.ref060","doi-asserted-by":"crossref","first-page":"075101","DOI":"10.1063\/1.5141095","article-title":"Model for disordered proteins with strongly sequence-dependent liquid phase behavior","volume":"152","author":"A Statt","year":"2020","journal-title":"The Journal of Chemical Physics"},{"key":"pcbi.1012737.ref061","article-title":"Chemically-informed coarse-graining of electrostatic forces in charge-rich biomolecular condensates","author":"AR Tejedor","year":"2024","journal-title":"bioRxiv"},{"issue":"7","key":"pcbi.1012737.ref062","doi-asserted-by":"crossref","first-page":"637","DOI":"10.1038\/s41594-019-0250-x","article-title":"Molecular interactions underlying liquid- liquid phase separation of the FUS low-complexity domain","volume":"26","author":"AC Murthy","year":"2019","journal-title":"Nature structural & molecular biology"},{"key":"pcbi.1012737.ref063","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1146\/annurev-physchem-071819-113553","article-title":"Biomolecular Phase Separation: From Molecular Driving Forces to Macroscopic Properties","volume":"71","author":"GL Dignon","year":"2020","journal-title":"Annual Review of Physical Chemistry"},{"key":"pcbi.1012737.ref064","doi-asserted-by":"crossref","first-page":"92","DOI":"10.1016\/j.coche.2019.03.004","article-title":"Simulation methods for liquid\u2013liquid phase separation of disordered proteins","volume":"23","author":"GL Dignon","year":"2019","journal-title":"Current opinion in chemical engineering"},{"issue":"21","key":"pcbi.1012737.ref065","doi-asserted-by":"crossref","first-page":"11421","DOI":"10.1073\/pnas.2000223117","article-title":"Identifying sequence perturbations to an intrinsically disordered protein that determine its phase-separation behavior","volume":"117","author":"BS Schuster","year":"2020","journal-title":"Proceedings of the National Academy of Sciences"},{"issue":"3","key":"pcbi.1012737.ref066","doi-asserted-by":"crossref","first-page":"465","DOI":"10.1016\/j.molcel.2017.12.022","article-title":"Mechanistic view of hnRNPA2 low-complexity domain structure, interactions, and phase separation altered by mutation and arginine methylation","volume":"69","author":"VH Ryan","year":"2018","journal-title":"Molecular cell"},{"issue":"6","key":"pcbi.1012737.ref067","doi-asserted-by":"crossref","first-page":"6719","DOI":"10.1021\/acs.chemrev.1c00774","article-title":"Conformational dynamics of intrinsically disordered proteins regulate biomolecular condensate chemistry","volume":"122","author":"A Abyzov","year":"2022","journal-title":"Chemical Reviews"},{"key":"pcbi.1012737.ref068","doi-asserted-by":"crossref","first-page":"RP99068","DOI":"10.7554\/eLife.99068","article-title":"Decoding Phase Separation of Prion-Like Domains through Data-Driven Scaling Laws","volume":"13","author":"M Julia Maristany","year":"2024","journal-title":"eLife"},{"issue":"23","key":"pcbi.1012737.ref069","doi-asserted-by":"crossref","first-page":"5169","DOI":"10.1016\/j.bpj.2021.11.003","article-title":"\u2018RNA modulation of transport properties and stability in phase-separated condensates","volume":"120","author":"AR Tejedor","year":"2021","journal-title":"Biophysical Journal"},{"issue":"2","key":"pcbi.1012737.ref070","doi-asserted-by":"crossref","first-page":"e1009810","DOI":"10.1371\/journal.pcbi.1009810","article-title":"RNA length has a non-trivial effect in the stability of biomolecular condensates formed by RNA-binding proteins","volume":"18","author":"I Sanchez-Burgos","year":"2022","journal-title":"PLoS computational biology"},{"issue":"6","key":"pcbi.1012737.ref071","doi-asserted-by":"crossref","first-page":"547","DOI":"10.1021\/acsmeasuresciau.2c00048","article-title":"Measuring the radius of gyration and intrinsic flexibility of viral proteins in buffer solution using small-angle X-ray Scattering","volume":"2","author":"R Funari","year":"2022","journal-title":"ACS Measurement Science Au"},{"issue":"16","key":"pcbi.1012737.ref072","doi-asserted-by":"crossref","first-page":"3834","DOI":"10.1021\/ja005770p","article-title":"Validity of using the radius of gyration as a restraint in NMR protein structure determination","volume":"123","author":"X Huang","year":"2001","journal-title":"Journal of the American Chemical Society"},{"issue":"1","key":"pcbi.1012737.ref073","doi-asserted-by":"crossref","first-page":"30473","DOI":"10.1038\/srep30473","article-title":"A small-angle X-ray scattering study of alpha-synuclein from human red blood cells","volume":"6","author":"K Araki","year":"2016","journal-title":"Scientific reports"},{"issue":"6360","key":"pcbi.1012737.ref074","doi-asserted-by":"crossref","first-page":"238","DOI":"10.1126\/science.aan5774","article-title":"Innovative scattering analysis shows that hydrophobic disordered proteins are expanded in water","volume":"358","author":"JA Riback","year":"2017","journal-title":"Science"},{"issue":"37","key":"pcbi.1012737.ref075","doi-asserted-by":"crossref","first-page":"15697","DOI":"10.1021\/jacs.0c02088","article-title":"Conformational ensembles of an intrinsically disordered protein consistent with NMR, SAXS, and single-molecule FRET","volume":"142","author":"GNW Gomes","year":"2020","journal-title":"Journal of the American Chemical Society"},{"issue":"40","key":"pcbi.1012737.ref076","doi-asserted-by":"crossref","first-page":"9929","DOI":"10.1073\/pnas.1804177115","article-title":"Relation between single-molecule properties and phase behavior of intrinsically disordered proteins","volume":"115","author":"GL Dignon","year":"2018","journal-title":"Proceedings of the National Academy of Sciences"},{"issue":"2","key":"pcbi.1012737.ref077","doi-asserted-by":"crossref","first-page":"196","DOI":"10.1038\/s41557-021-00840-w","article-title":"Deciphering how naturally occurring sequence features impact the phase behaviours of disordered prion-like domains","volume":"14","author":"A Bremer","year":"2022","journal-title":"Nature Chemistry"},{"key":"pcbi.1012737.ref078","first-page":"1","article-title":"Sequence-specific interactions determine viscoelasticity and ageing dynamics of protein condensates","author":"I Alshareedah","year":"2024","journal-title":"Nature Physics"},{"issue":"11","key":"pcbi.1012737.ref079","doi-asserted-by":"crossref","first-page":"732","DOI":"10.1038\/s43588-021-00155-3","article-title":"Physics-driven coarse-grained model for biomolecular phase separation with near-quantitative accuracy","volume":"1","author":"JA Joseph","year":"2021","journal-title":"Nature Computational Science"},{"issue":"7389","key":"pcbi.1012737.ref080","doi-asserted-by":"crossref","first-page":"336","DOI":"10.1038\/nature10879","article-title":"Phase transitions in the assembly of multivalent signalling proteins","volume":"483","author":"P Li","year":"2012","journal-title":"Nature"},{"issue":"6","key":"pcbi.1012737.ref081","doi-asserted-by":"crossref","first-page":"420","DOI":"10.1016\/j.tcb.2018.02.004","article-title":"Protein phase separation: a new phase in cell biology","volume":"28","author":"S Boeynaems","year":"2018","journal-title":"Trends in cell biology"},{"key":"pcbi.1012737.ref082","doi-asserted-by":"crossref","first-page":"e31486","DOI":"10.7554\/eLife.31486","article-title":"Pi-Pi contacts are an overlooked protein feature relevant to phase separation","volume":"7","author":"RM Vernon","year":"2018","journal-title":"elife"},{"issue":"6478","key":"pcbi.1012737.ref083","doi-asserted-by":"crossref","first-page":"694","DOI":"10.1126\/science.aaw8653","article-title":"Valence and patterning of aromatic residues determine the phase behavior of prion-like domains","volume":"367","author":"EW Martin","year":"2020","journal-title":"Science"},{"issue":"1","key":"pcbi.1012737.ref084","doi-asserted-by":"crossref","first-page":"155","DOI":"10.1016\/0009-2614(77)85375-X","article-title":"Triple-point coexistence properties of the Lennard-Jones system","volume":"51","author":"A Ladd","year":"1977","journal-title":"Chemical Physics Letters"},{"issue":"24","key":"pcbi.1012737.ref085","doi-asserted-by":"crossref","first-page":"13238","DOI":"10.1073\/pnas.1917569117","article-title":"Liquid network connectivity regulates the stability and composition of biomolecular condensates with many components","volume":"117","author":"JR Espinosa","year":"2020","journal-title":"Proceedings of the National Academy of Sciences"},{"issue":"2","key":"pcbi.1012737.ref086","doi-asserted-by":"crossref","first-page":"484","DOI":"10.1016\/j.jmb.2013.09.039","article-title":"A simple atomic-level hydrophobicity scale reveals protein interfacial structure","volume":"426","author":"LH Kapcha","year":"2014","journal-title":"Journal of molecular biology"},{"issue":"45","key":"pcbi.1012737.ref087","doi-asserted-by":"crossref","first-page":"9222","DOI":"10.1021\/acs.jpcb.2c06181","article-title":"Analytical formulation and field-theoretic simulation of sequence-specific phase separation of protein-like heteropolymers with short-and long-spatial-range interactions","volume":"126","author":"J Wess\u00e9n","year":"2022","journal-title":"The Journal of Physical Chemistry B"},{"issue":"9","key":"pcbi.1012737.ref088","doi-asserted-by":"crossref","first-page":"1243","DOI":"10.1002\/bip.360320913","article-title":"Hydrophobicity scale for proteins based on inverse temperature transitions","volume":"32","author":"DW Urry","year":"1992","journal-title":"Biopolymers: Original Research on Biomolecules"},{"key":"pcbi.1012737.ref089","doi-asserted-by":"crossref","first-page":"e2425757","DOI":"10.1080\/00268976.2024.2425757","article-title":"Capturing single-molecule properties does not ensure accurate prediction of biomolecular phase diagrams","author":"A Feito","year":"2024","journal-title":"Molecular Physics"},{"issue":"1","key":"pcbi.1012737.ref090","doi-asserted-by":"crossref","first-page":"155","DOI":"10.1016\/0009-2614(77)85375-X","article-title":"Triple-point coexistence properties of the Lennard-Jones system","volume":"51","author":"A Ladd","year":"1977","journal-title":"Chemical Physics Letters"},{"issue":"32","key":"pcbi.1012737.ref091","doi-asserted-by":"crossref","first-page":"8248","DOI":"10.1021\/acs.jpclett.4c01973","article-title":"Differential Effects of Sequence-Local versus Nonlocal Charge Patterns on Phase Separation and Conformational Dimensions of Polyampholytes as Model Intrinsically Disordered Proteins","volume":"15","author":"T Pal","year":"2024","journal-title":"The Journal of Physical Chemistry Letters"},{"issue":"1","key":"pcbi.1012737.ref092","doi-asserted-by":"crossref","first-page":"171","DOI":"10.1146\/annurev-genet-112618-043527","article-title":"Liquid-liquid phase separation in disease","volume":"53","author":"S Alberti","year":"2019","journal-title":"Annu Rev Genet"},{"issue":"11","key":"pcbi.1012737.ref093","doi-asserted-by":"crossref","first-page":"1118","DOI":"10.1038\/nchem.2803","article-title":"Phase behaviour of disordered proteins underlying low density and high permeability of liquid organelles","volume":"9","author":"MT Wei","year":"2017","journal-title":"Nature Chemistry"},{"issue":"5","key":"pcbi.1012737.ref094","doi-asserted-by":"crossref","first-page":"e97452","DOI":"10.15252\/embj.201797452","article-title":"A single N-terminal phosphomimic disrupts TDP-43 polymerization, phase separation, and RNA splicing","volume":"37","author":"A Wang","year":"2018","journal-title":"The EMBO journal"},{"issue":"6391","key":"pcbi.1012737.ref095","doi-asserted-by":"crossref","first-page":"918","DOI":"10.1126\/science.aar7366","article-title":"RNA buffers the phase separation behavior of prion-like RNA binding proteins","volume":"360","author":"S Maharana","year":"2018","journal-title":"Science"},{"issue":"3","key":"pcbi.1012737.ref096","doi-asserted-by":"crossref","first-page":"688","DOI":"10.1016\/j.cell.2018.06.006","article-title":"A molecular grammar governing the driving forces for phase separation of prion-like RNA binding proteins","volume":"174","author":"J Wang","year":"2018","journal-title":"Cell"},{"issue":"12","key":"pcbi.1012737.ref097","doi-asserted-by":"crossref","first-page":"8071","DOI":"10.1021\/jacs.3c12034","article-title":"Insights into Molecular Diversity within the FUS\/EWS\/TAF15 Protein Family: Unraveling Phase Separation of the N-Terminal Low-Complexity Domain from RNA-Binding Protein EWS","volume":"146","author":"CN Johnson","year":"2024","journal-title":"Journal of the American Chemical Society"},{"issue":"16","key":"pcbi.1012737.ref098","doi-asserted-by":"crossref","first-page":"6306","DOI":"10.1074\/jbc.RA118.007222","article-title":"The role of liquid\u2013liquid phase separation in aggregation of the TDP-43 low-complexity domain","volume":"294","author":"WM Babinchak","year":"2019","journal-title":"Journal of Biological Chemistry"},{"issue":"3","key":"pcbi.1012737.ref099","doi-asserted-by":"crossref","first-page":"706","DOI":"10.1016\/j.cell.2018.03.004","article-title":"Phase separation of FUS is suppressed by its nuclear import receptor and arginine methylation","volume":"173","author":"M Hofweber","year":"2018","journal-title":"Cell"},{"issue":"1","key":"pcbi.1012737.ref100","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1038\/s41467-021-21181-9","article-title":"Reentrant liquid condensate phase of proteins is stabilized by hydrophobic and non-ionic interactions","volume":"12","author":"G Krainer","year":"2021","journal-title":"Nature Communications"},{"issue":"3","key":"pcbi.1012737.ref101","doi-asserted-by":"crossref","first-page":"196","DOI":"10.1038\/s41580-020-00326-6","article-title":"Biomolecular condensates at the nexus of cellular stress, protein aggregation disease and ageing","volume":"22","author":"S Alberti","year":"2021","journal-title":"Nature reviews Molecular cell biology"},{"issue":"7","key":"pcbi.1012737.ref102","doi-asserted-by":"crossref","first-page":"550","DOI":"10.1016\/j.tibs.2020.12.005","article-title":"FUS and TDP-43 phases in health and disease","volume":"46","author":"B Portz","year":"2021","journal-title":"Trends in biochemical sciences"},{"issue":"6522","key":"pcbi.1012737.ref103","doi-asserted-by":"crossref","first-page":"1317","DOI":"10.1126\/science.aaw4951","article-title":"Protein condensates as aging Maxwell fluids","volume":"370","author":"L Jawerth","year":"2020","journal-title":"Science"},{"issue":"4","key":"pcbi.1012737.ref104","doi-asserted-by":"crossref","first-page":"2104247","DOI":"10.1002\/advs.202104247","article-title":"Reversible kinetic trapping of fus biomolecular condensates","volume":"9","author":"S Chatterjee","year":"2022","journal-title":"Advanced Science"},{"issue":"6","key":"pcbi.1012737.ref105","doi-asserted-by":"crossref","first-page":"463","DOI":"10.1038\/s41594-018-0064-2","article-title":"Atomic structures of TDP-43 LCD segments and insights into reversible or pathogenic aggregation","volume":"25","author":"EL Guenther","year":"2018","journal-title":"Nature structural & molecular biology"},{"issue":"10","key":"pcbi.1012737.ref106","doi-asserted-by":"crossref","first-page":"1340","DOI":"10.1038\/s41557-023-01289-9","article-title":"The interface of condensates of the hnRNPA1 low-complexity domain promotes formation of amyloid fibrils","volume":"15","author":"M Linsenmeier","year":"2023","journal-title":"Nature chemistry"},{"issue":"1","key":"pcbi.1012737.ref107","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1038\/s41467-020-18224-y","article-title":"Tunable multiphase dynamics of arginine and lysine liquid condensates","volume":"11","author":"RS Fisher","year":"2020","journal-title":"Nature communications"},{"issue":"1","key":"pcbi.1012737.ref108","doi-asserted-by":"crossref","first-page":"1912","DOI":"10.1038\/s41467-024-46223-w","article-title":"Sequence-dependent material properties of biomolecular condensates and their relation to dilute phase conformations","volume":"15","author":"D Sundaravadivelu Devarajan","year":"2024","journal-title":"Nature Communications"},{"issue":"16","key":"pcbi.1012737.ref109","doi-asserted-by":"crossref","first-page":"7889","DOI":"10.1073\/pnas.1821038116","article-title":"Spontaneous driving forces give rise to protein- RNA condensates with coexisting phases and complex material properties","volume":"116","author":"S Boeynaems","year":"2019","journal-title":"Proceedings of the National Academy of Sciences"},{"issue":"15","key":"pcbi.1012737.ref110","doi-asserted-by":"crossref","first-page":"154103","DOI":"10.1063\/1.3491098","article-title":"Efficient on the fly calculation of time correlation functions in computer simulations","volume":"133","author":"J Ramirez","year":"2010","journal-title":"The Journal of chemical physics"},{"issue":"16","key":"pcbi.1012737.ref111","doi-asserted-by":"crossref","DOI":"10.1063\/5.0112951","article-title":"Detailed dynamics of discrete Gaussian semiflexible chains with arbitrary stiffness along the contour","volume":"157","author":"AR Tejedor","year":"2022","journal-title":"The Journal of Chemical Physics"},{"key":"pcbi.1012737.ref112","doi-asserted-by":"crossref","first-page":"4441","DOI":"10.1021\/acs.jpcb.3c01292","article-title":"Time-Dependent Material Properties of Aging Biomolecular Condensates from Different Viscoelasticity Measurements in Molecular Dynamics Simulations","volume":"127","author":"AR Tejedor","year":"2023","journal-title":"The Journal of Physical Chemistry B"},{"issue":"6","key":"pcbi.1012737.ref113","doi-asserted-by":"crossref","first-page":"337","DOI":"10.1038\/nrneurol.2014.78","article-title":"The role of FUS gene variants in neurodegenerative diseases","volume":"10","author":"H Deng","year":"2014","journal-title":"Nature Reviews Neurology"},{"issue":"7","key":"pcbi.1012737.ref114","doi-asserted-by":"crossref","first-page":"e98049","DOI":"10.15252\/embj.201798049","article-title":"Tau protein liquid\u2013liquid phase separation can initiate tau aggregation","volume":"37","author":"S Wegmann","year":"2018","journal-title":"The EMBO journal"},{"issue":"7","key":"pcbi.1012737.ref115","doi-asserted-by":"crossref","first-page":"1294","DOI":"10.1002\/pro.4093","article-title":"Liquid\u2013liquid phase separation of tau: From molecular biophysics to physiology and disease","volume":"30","author":"SK Rai","year":"2021","journal-title":"Protein Science"},{"issue":"7971","key":"pcbi.1012737.ref116","doi-asserted-by":"crossref","first-page":"876","DOI":"10.1038\/s41586-023-06329-5","article-title":"Extreme dynamics in a biomolecular condensate","volume":"619","author":"N Galvanetto","year":"2023","journal-title":"Nature"},{"issue":"3","key":"pcbi.1012737.ref117","doi-asserted-by":"crossref","first-page":"492a","DOI":"10.1016\/j.bpj.2019.11.2723","article-title":"The Stickers and Spacers Framework for Describing Phase Behavior of Multivalent Intrinsically Disordered Proteins","volume":"118","author":"JM Choi","year":"2020","journal-title":"Biophysical Journal"},{"issue":"3","key":"pcbi.1012737.ref118","doi-asserted-by":"crossref","first-page":"114","DOI":"10.3390\/biom9030114","article-title":"Spontaneous switching among conformational ensembles in intrinsically disordered proteins","volume":"9","author":"UB Choi","year":"2019","journal-title":"Biomolecules"},{"key":"pcbi.1012737.ref119","article-title":"Fundamental Aspects of Phase-Separated Biomolecular Condensates","author":"HX Zhou","year":"2024","journal-title":"Chemical Reviews"},{"issue":"22","key":"pcbi.1012737.ref120","doi-asserted-by":"crossref","first-page":"12593","DOI":"10.1093\/nar\/gkaa1099","article-title":"Sequence dependent phase separation of protein-polynucleotide mixtures elucidated using molecular simulations","volume":"48","author":"RM Regy","year":"2020","journal-title":"Nucleic acids research"},{"issue":"29","key":"pcbi.1012737.ref121","doi-asserted-by":"crossref","first-page":"9536","DOI":"10.1021\/ja802124e","article-title":"Natively unfolded protein stability as a coil-to-globule transition in charge\/hydropathy space","volume":"130","author":"HS Ashbaugh","year":"2008","journal-title":"Journal of the American Chemical Society"},{"issue":"1","key":"pcbi.1012737.ref122","first-page":"127","article-title":"On the application of the virial theorem in the kinetic theory of gases","volume":"248","author":"HA Lorentz","year":"1881","journal-title":"Annals of physics"},{"issue":"3","key":"pcbi.1012737.ref123","first-page":"15","article-title":"Sur le m\u00e9lange des gaz","volume":"126","author":"D Berthelot","year":"1898","journal-title":"Compt Rendus"},{"issue":"1","key":"pcbi.1012737.ref124","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1006\/jcph.1995.1039","article-title":"Fast parallel algorithms for short-range molecular dynamics","volume":"117","author":"S Plimpton","year":"1995","journal-title":"Journal of computational physics"},{"key":"pcbi.1012737.ref125","doi-asserted-by":"crossref","first-page":"108171","DOI":"10.1016\/j.cpc.2021.108171","article-title":"LAMMPS\u2014a flexible simulation tool for particle-based materials modeling at the atomic, meso, and continuum scales","volume":"271","author":"AP Thompson","year":"2022","journal-title":"Comp Phys Comm"},{"issue":"3","key":"pcbi.1012737.ref126","doi-asserted-by":"crossref","first-page":"1302","DOI":"10.1103\/PhysRevB.17.1302","article-title":"Molecular-dynamics study of a three-dimensional one-component model for distortive phase transitions","volume":"17","author":"T Schneider","year":"1978","journal-title":"Physical Review B"},{"issue":"14","key":"pcbi.1012737.ref127","doi-asserted-by":"crossref","DOI":"10.1063\/1.2183308","article-title":"The melting point of ice Ih for common water models calculated from direct coexistence of the solid-liquid interface","volume":"124","author":"R Garc\u00eda Fern\u00e1ndez","year":"2006","journal-title":"The Journal of chemical physics"},{"issue":"14","key":"pcbi.1012737.ref128","article-title":"Vapor-liquid interfacial properties of fully flexible Lennard-Jones chains","volume":"129","author":"FJ Blas","year":"2008","journal-title":"The Journal of chemical physics"},{"issue":"14","key":"pcbi.1012737.ref129","doi-asserted-by":"crossref","DOI":"10.1063\/1.4823499","article-title":"On fluid-solid direct coexistence simulations: The pseudo-hard sphere model","volume":"139","author":"JR Espinosa","year":"2013","journal-title":"The Journal of chemical physics"},{"key":"pcbi.1012737.ref130","volume-title":"Molecular theory of capillarity","author":"JS Rowlinson","year":"2013"},{"key":"pcbi.1012737.ref131","doi-asserted-by":"crossref","DOI":"10.1093\/oso\/9780198520597.001.0001","volume-title":"Polymer physics","author":"M Rubinstein","year":"2003"},{"issue":"18","key":"pcbi.1012737.ref132","doi-asserted-by":"crossref","first-page":"6748","DOI":"10.1021\/ma070843b","article-title":"Linear viscoelasticity from molecular dynamics simulation of entangled polymers","volume":"40","author":"AE Likhtman","year":"2007","journal-title":"Macromolecules"},{"issue":"16","key":"pcbi.1012737.ref133","doi-asserted-by":"crossref","DOI":"10.1063\/5.0112951","article-title":"Detailed dynamics of discrete Gaussian semiflexible chains with arbitrary stiffness along the contour","volume":"157","author":"AR Tejedor","year":"2022","journal-title":"The Journal of Chemical Physics"},{"key":"pcbi.1012737.ref134","doi-asserted-by":"crossref","first-page":"1885","DOI":"10.1007\/s10570-016-0914-1","article-title":"Shear rheology of polylactide (PLA)\u2013cellulose nanocrystal (CNC) nanocomposites","volume":"23","author":"D Bagheriasl","year":"2016","journal-title":"Cellulose"},{"issue":"3","key":"pcbi.1012737.ref135","doi-asserted-by":"crossref","first-page":"147a","DOI":"10.1016\/j.bpj.2021.11.1992","article-title":"Tau biomolecular condensates exhibit length scale dependent aging","volume":"121","author":"RS Fisher","year":"2022","journal-title":"Biophysical Journal"}],"updated-by":[{"DOI":"10.1371\/journal.pcbi.1012737","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2025,2,21]],"date-time":"2025-02-21T00:00:00Z","timestamp":1740096000000}}],"container-title":["PLOS Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.1012737","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,2,21]],"date-time":"2025-02-21T13:50:30Z","timestamp":1740145830000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.1012737"}},"subtitle":[],"editor":[{"given":"Peter M","family":"Kasson","sequence":"first","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2025,1,13]]},"references-count":135,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2025,1,13]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pcbi.1012737","relation":{"has-preprint":[{"id-type":"doi","id":"10.1101\/2024.08.28.610132","asserted-by":"object"}]},"ISSN":["1553-7358"],"issn-type":[{"value":"1553-7358","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,1,13]]}}}