Publications

• Tlusty T & Libchaber A Life sets off a cascade of machines  Proc Nat Acad Sci USA (2025)
  

• Eckmann JP &  Tlusty T Walks in Rotation Spaces Return Home When Doubled and Scaled  arXiv (2025)

• Weinreb E McBride JM Siek M Rougemont J Renault R Peleg Y Unger T Albeck S Fridmann-Sirkis Y Lushchekinah S Sussmani JL Grzybowski BA Zocchi G Eckmannd JE Moses E &  Tlusty T Enzymes as viscoelastic catalytic machines  Nature Physics in press (2025)
  

• McBride JM &  Tlusty T  AI-predicted deformation encodes protein energy landscape   Phys Rev Lett (2024) arXiv bioRxiv
  

• McBride JM Koshevarnikov A Siek M Grzybowski BA &  Tlusty T  Statistical Survey of Chemical and Geometric Patterns on Protein Surfaces as a Blueprint for Protein-mimicking Nanoparticles  Small Structures (2024) arXiv bioRxiv
  

• Eckmann J-P Sobolev YI &  Tlusty T  Tumbling Downhill Along a Given Curve  Notices of the American Mathematical Society (2024) arXiv
  

• McBride JM &  Tlusty T  The Physical Logic of Protein Machines   J Stat Mech (2024) bioRxiv arXiv
  

• Zhu G Gao L Wang Y  Tlusty T  & Yan L-T Programmable Potentials Choreograph Defects in a Colloidal Crystal Shell   Phys Rev Lett (2024)
  

• McBride JM Polev K Abdirasulov A Reinharz V Grzybowski BA &  Tlusty T  AlphaFold2 can predict effects of single mutations   Phys Rev Lett (2023) bioRxiv arXiv
  

• Saeed I Pak HK &  Tlusty T  Quasiparticles, Flat Bands, and the Melting of Hydrodynamic Matter   Nature Physics (2023) Sharedit arXiv
  

• Sobolev YI DongR  Tlusty T  Eckmann J-P GranickS & Grzybowski BA   Solid-body trajectoids shaped to roll along desired pathways   Nature (2023) Sharedit
  

• Paneru G  Tlusty T  & Pak HK Bona fide stochastic resonance under nonGaussian active fluctuations   Soft Matter (2023) arXiv

• Mani S &  Tlusty T  Gene Birth in a Model of Non-genic Adaptation   BMC Biology (2023) bioRxiv
  

• McBride JM &  Tlusty T  Convergent evolution in a large cross-cultural database of musical scales   Plos One (2023) arXiv
  

• Pineros WD &  Tlusty T  Spontaneous Chiral Symmetry Breaking in a Random Driven Chemical System   Nature Comm (2022)

• Tripathi AK &  Tlusty T  Gauging nanoswimmer dynamics via the motion of large bodies   Phys Rev Lett (2022) arXiv
  

• McBride JM Eckmann J-P &  Tlusty T  A general theory of specific binding: insights from a genetic, mechano-chemical protein model   Molecular Biology and Evolution (2022) arXiv bioRxiv
  

• Tripathi AK Das T Paneru G Pak HK &  Tlusty T  Acceleration of enzymatic catalysis by active hydrodynamic fluctuations  Physics Comm (2022) bioRxiv arXiv

• Tlusty T Exotic topology in ordinary soft matter  Phys Rev E (2021) arXiv

• McBride JM &  Tlusty T  Structural asymmetry along protein sequences and co-translational folding   Biophysical Journal (2021) bioRxiv
  

• Eckmann J-P &  Tlusty T Dimensional Reduction in Complex Living Systems: Where, Why, and How  BioEssays (2021) arXiv
  

• Mani S &  Tlusty T  A topological look into the evolution of developmental programs  Biophysical Journal (2021) arXiv
  

• Libchaber A &  Tlusty T  Walking droplets, swimming microbes: on memory in physics and life   Compt Rend Mec (2020)   arXiv [Nature Phys Thesis (2021)]
  

• Mani S &  Tlusty T  A comprehensive survey of developmental programs reveals a dearth of tree-like lineage graphs and ubiquitous regeneration   BMC Biology (2021) bioRxiv
  

• Pineros WD &  Tlusty T  Inverse Design of Non-Equilibrium Steady-States: A Large Deviation Approach   Phys Rev E (2021) arXiv

• Das T &  Tlusty T  Positional information as a universal predictor of freezing   Europhys Lett (2021) arXiv

• McBride JM &  Tlusty T  Imperfect fifths pack into musical scales   (2021) arXiv
  

• Paneru G Dutta S Sagawa  Tlusty T  & Pak HK   Efficiency fluctuations and noise induced refrigerator-to-heater transition in an information engine Nature Comm (2020)  arXiv 
  

• Wang H Park M Dong R Kim J Cho YK  Tlusty T  & Granick S   Boosted molecular mobility during common chemical reactions   Science   (2020)  
  

• Jee AY  Tlusty T  Granick S Master curve of boosted diffusion for ten catalytic enzymes Proc Nat Acad Sci USA (2020)
  

• Eckmann J-P Rougemont J &  Tlusty T  Protein: The physics of amorphous evolving matter  Reviews of Modern Physics   91 031001 (2019)  arXiv
  

• Reinharz V &  Tlusty T  αβDCA method identifies unspecific binding but specific disruption of the group I intron by the StpA chaperone   RNA (2020)  bioRxiv arXiv
  

• Pineros WD &  Tlusty T  Kinetic Proofreading and the Limits of Thermodynamic Uncertainty Phys Rev E (2020) bioRxiv
  

• Paneru G Dutta S   Tlusty T  & Pak HK   Approaching and violating thermodynamic uncertainty bounds on fluctuation-dissipation tradeoffs of information engines Phys Rev E (2020)   arXiv
  

• Jee AY Chen K  Tlusty T  Zhao J Granick S Enhanced diffusion and enzyme dissociation   J Am Chem Soc  (2019) arXiv
  

• Ha MY Yoon TJ  Tlusty T  Jho YS & Lee WB   Universality, scaling and collapse in super-critical fluids JPC Lett (2019) arXiv
  

• Jee AY Cho YK Granick S &  Tlusty T   Catalytic enzymes are active matter   Proc Nat Acad Sci USA  (2018)
  

• Dutta S Eckmann JP Libchaber A &  Tlusty T   Green functions of correlated genes in a mimimal mechanical model of protein evolution   Proc Nat Acad Sci USA  (2018)   bioRxiv  arXiv
  

• Condon A Kirchner H Lariviere D Marshall W Noireaux V  Tlusty T  & Fourmentin E   Will biologists become computer scientists?   EMBO Reports  e46628 (2018)  
  

• Ha MY Yoon TJ  Tlusty T  Jho YS & Lee WB  Widom delta of supercritical gas-liquid coexistence   J Phys Chem Lett  9 1734-8 (2018) arXiv
  

• Jee AY Dutta S Cho YK  Tlusty T  & Granick S  Enzyme leaps fuel anti-chemotaxis   Proc Nat Acad Sci USA  (2018)
  

• Paneru G Lee DY   Tlusty T  & Pak HK   Lossless Brwonian information engine   Physical Review Letters  120 020601 (2018)
  

• Beatus T Shani I Bar-Ziv R &  Tlusty T   Two-dimensional flow of driven particles: a microfluidic pathway to the non-equilibrium frontier   Chem Soc Rev  (2017)
  

• Tlusty T   Libchaber A & Eckmann JP   Physical model of the sequence-to-function map of proteins   Physical Review X  7 021037 (2017) arXiv
  

• Mitchell MR   Tlusty T  & Leibler S   Strain analysis of protein structures and low dimensionality of mechanical allosteric couplings   Proc Nat Acad Sci USA   113(40) E5847-E5855 (2016)
  

• Tlusty T   Self-referring DNA: a remark on physical and geometrical aspects   Phil Trans Roy Soc A 374:20150070 (2016)   arXiv
  

• Lampert A & Tlusty T   Where two are fighting the third wins: Stronger selection implies greater polymorphism  PLoS one 11(2): e0147970  (2016)
  

• Savir Y Kagan J &   Tlusty T   Binding of transcription factors adapts to resolve information-energy trade-off  J Stat Phys  1-12 (2015)
  

• Shani I Beatus T Bar-Ziv R &   Tlusty T   Long-range orientational order in 2D microfluidic dipoles   Nature Physics   10 (2) 140-144 (2014) [supp][news & views][10 years]
  

• Joseph C Tseng CY Zocchi G &  Tlusty T  Asymmetric Effect of Mechanical Stress on the Forward and Reverse Reaction Catalyzed by an Enzyme PloS one 9 (7) e101442 (2014)
  

• Friedlander T Mayo A Tlusty T & Alon U   Evolution of bow-tie architectures in biology  PLoS Comput Biol  11(3):e1004055 (2015)

• Savir Y & Tlusty T   The ribosome as an optimal decoder: a lesson in molecular recognition    Cell    153(2):471-479 (2013)
  

• Lampert A & Tlusty T   Resonance-Induced Multimodal Body-Size Distributions In Ecosystems  Proc Nat Acad Sci USA  110(1):205-209 (2013)
  

• Friedlander T Mayo A Tlusty T & Alon U   Mutation Rules and the Evolution of Sparseness and Modularity in Biological Systems PLoS ONE 8: e70444 (2013)
  

• Pugatch R Barkai N & Tlusty T   Asymptotic Cellular Growth Rate as the Effective Information Utilization Rate arXiv: 1308.0623 (2013)
  

• Levary D Eckmann J-P Moses E & Tlusty T  Loops and Self-Reference in the Construction of Dictionaries  Phys Rev X  2(3) 031018 (2012)  [physics spotlight]
  

• Savir Y Waysbort N Antebi Y Tlusty T & Friedman N   Balancing speed and accuracy of polyclonal T cell activation: a role for extracellular feedback BMC Systems Biology 6 (2012)
  

• Iyer KV Maharana S Gupta S Libchaber AJ Tlusty T Shivashankar GV Spatial organization of chromosomes is linked to global gene expression program PLoS One 7(10) e46628 (2012)
  

• Maeda Y Tlusty T & Libchaber AJ  Effects of long DNA folding and small RNA stem-loop in thermophoresis  Proc Nat Acad Sci USA  109(44) 17972-7 (2012)
  

• Beatus T Bar-Ziv R & Tlusty T   The physics of 2D microfluidic droplet ensembles  Physics Reports  516(3) 103-145 (2012)
  

• Lampert A & Tlusty T   Density Dependent Cooperation as a Mechanism for Persistence and Coexistence Evolution (2011)
  

• Savir Y & Tlusty T  RecA-Mediated Homology Search as a Nearly Optimal Signal Detection System   Molecular Cell   40(3) 388-396 (2010)  [preview]

• Eckmann J-P Moses E Sttater O Tlusty T Zbinden C  Leaders of Neural Cultures in a Quorum Percolation Model Front Comput Neurosci 4 132 (2010)
  

• Tlusty T  A Colorful Origin for the Genetic Code Phys Life Rev 7 362-376 (2010)
  

• Savir Y Noor E Milo R & Tlusty T Adaptation of Rubisco towards optimality in low dimensional landscape   Proc Nat Acad Sci USA   107 3475-80 (2010)
  

• Cohen O Kesselman A Martinez M R Soriano J Moses E & Tlusty T   Quorum percolation in living neural networks Europhys Lett 89 18008 (2010)
  

• Martinez M R Soriano J Tlusty T Pilpel Y & Furman I  Messenger RNA fluctuations and regulatory RNAs shape the dynamics of a negative feedback loop Phys Rev E 81 031924 (2010)
  

• Beatus T Tlusty T & Bar-Ziv R  Burgers shockwaves and sound in a 2D microfluidic droplets   Phys Rev Lett   103 114502-114504 (2009)
  

• Lampert A & Tlusty T  Mutability as an Altruistic Trait in Finite Asexual Populations Journal of Theoretical Biology 261 414-422 (2009)
  

• Savir Y & Tlusty T Molecular Recognition as an Information Channel: The Role of Conformational Changes Information Sciences and Systems, CISS 2009 841-846 (2009)
  

• Tlusty T  The Physical Language of Molecular Codes Information Sciences and Systems, CISS 2009 835-840 (2009)
  

• Tlusty T & Eckmann J -P   Remarks on Bootstrap Percolation in Metric Networks J Phys A 42 205004 (2009)
  

• Tlusty T  Casting Polymer Nets to Optimize Noisy Molecular Codes    Proc Natl Acad Sci USA   105 8238-8243 (2008)   [commentary]
  

• Soriano J Martinez M R Tlusty T & Moses E   Development of input connections in neural cultures    Proc Natl Acad Sci USA   105 13758-13763 (2008)  [supp]
  

• Savir Y & Tlusty T   Optimal Design of a Molecular Recognizer: Molecular Recognition as a Bayesian Signal Detection Problem IEEE J Special Topics Signal Processing 2 390-399 (2008)
  

• Tadmor A D & Tlusty T   A coarse-grained biophysical model of E coli and its application to perturbation of the rRNA operon copy numberPLoS Comp Bio 4, e1000038 (2008)
  

• Tlusty T  A simple model for the evolution of molecular codes driven by the interplay of accuracy diversity and cost Physical Biology 5 016001 (2008)
  

• Beatus T Bar-Ziv R & Tlusty T  One-Dimensional Microfluidic Crystals Far from Equilibrium Prog Theo Phys 175 S123-130 (2008)
  

• Tlusty T  A relation between the multiplicity of the second eigenvalue of a graph Laplacian, Courant's nodal line theorem and the substantial dimension of tight polyhedral surfaces Electron J Linear Algebra 16 315-324 (2007)
  

• Tlusty T  Rate-distortion scenario for the emergence and evolution of noisy molecular codes  Phys Rev Lett  100 048101 (2008)  [supp]
  

• Tlusty T  A model for the emergence of the genetic code as a transition in a noisy information channel Journal of Theoretical Biology249 331-342 (2007)
  

• Savir Y & Tlusty T  Conformational Proofreading: The Impact of Conformational Changes on the Specificity of Molecular Recognition PLoS ONE 2 e468 (2007)  [journal club]
  

• Eckmann J-P Feinerman O Gruendlinger L Moses E Soriano J & Tlusty T   The physics of living neural networks  Physics Reports  449 54-76 (2007)
  

• Beatus T Bar-Ziv R & Tlusty T   Anomalous Microfluidic Phonons Induced by the Interplay of Hydrodynamic Screening and Incompressibility  Phys Rev Lett  99 124502-4 (2007)
  

• Tlusty T  Screening by symmetry of long-range hydrodynamic interactions of polymers confined in sheets Macromolecules 39 3927-3930 (2006)
  

• Shinar G Dekel E Tlusty T & Alon U  Rules for biological regulation based on error minimization  Proc Natl Acad Sci USA  103 3999-4004 (2006)
  

• Sagi D Tlusty T & Stavans J  High fidelity of RecA-catalyzed recombination: a watchdog of genetic diversity Nucleic Acids Res 34 5021-5031 (2006)
  

• Itzkovitz S Tlusty T & Alon U  Coding limits on the number of transcription factors BMC Genomics 7 239 (2006)
  

• Breskin I Soriano J Moses E & Tlusty T  Percolation in Living Neural Networks  Phys Rev Lett  97 188102-4 (2006)
  

• Soriano J Breskin I Moses E & Tlusty T  Percolation approach to study connectivity living neural networks in Cooperative Behavior in Neural Systems (AIP 2006)
  

• Beatus T Tlusty T & Bar-Ziv R  Phonons in a one-dimensional microfluidic crystal   Nature Phys   2 743-748 (2006)  [news & views]
  

• Safran S A Gov N Nicolas A Schwarz U S & Tlusty T  Physics of cell elasticity, shape and adhesion Physica A 352 171-201 (2005)
  

• Biron D Alvarez-Lacalle E Tlusty T & Moses E   Molecular Model of the Contractile Ring  Phys Rev Lett  95 098102-4 (2005)
  

• Tlusty T Bar-Ziv R & Libchaber A  High-Fidelity DNA Sensing by Protein Binding Fluctuations  Phys Rev Lett  93 258103-4 (2004)  [APS]   [news & views]
  

• Zilman A Tlusty T & Safran S A  Entropic networks in colloidal, polymeric and amphiphilic systems J Phys-Condens Mat 15 S57-S64 (2003)
  

• Bar-Ziv R Tlusty T & Libchaber A  Protein-DNA computation by stochastic assembly cascade  Proc Natl Acad Sci USA  99 11589-11592 (2002)
  

• Tlusty T & Safran S A  Entropic networks in colloidal self-assembly Philos T Roy Soc A 359 879-881 (2001)
  

• Tlusty T Safran S A & Strey R  Topology, phase instabilities, and wetting of microemulsion networks  Phys Rev Lett  84 1244-1247 (2000)
  

• Tlusty T & Safran S A  Microemulsion networks: the onset of bicontinuity J Phys-Condens Mat 12 A253-A262 (2000)
  

• Tlusty T & Safran S A  Defect-induced phase separation in dipolar fluids   Science   290 1328-1331 (2000)   [perspective]
  

• Bernheim-Groswasser A Tlusty T Safran S A & Talmon Y Direct observation of phase separation in microemulsion networks Langmuir 15 5448-5453 (1999)
  

• Bar-Ziv R Tlusty T Moses E Safran S A & Bershadsky A  Pearling in cells: A clue to understanding cell shape.   Proc Natl Acad Sci USA   96 10140-10145 (1999)
  

• Tlusty T Meller A & Bar-Ziv R  Optical gradient forces of strongly localized fields  Phys Rev Lett  81 1738-1741 (1998)
  

• Meller A Bar-Ziv R Tlusty T Moses E Stavans J & Safran S A   Localized dynamic light scattering: A new approach to dynamic measurements in optical microscopy Biophys J 74 1541-1548 (1998)
  

• Tlusty T Safran S A Menes R & Strey R  Scaling laws for microemulsions governed by spontaneous curvature  Phys Rev Lett  78 2616-2619 (1997)
  

• Bar-Ziv R Tlusty T & Moses E  Critical dynamics in the pearling instability of membranes  Phys Rev Lett  79 1158-1161 (1997)
  

• Bar-Ziv R Meller A Tlusty T Moses E Stavans J & Safran S A   Localized dynamic light scattering: Probing single particle dynamics at the nanoscale  Phys Rev Lett  78 154-157 (1997)
  

• Safran S A & Tlusty T  Curvature elasticity models of microemulsions Ber Bunsen Phys Chem 100 252-263 (1996)
  

• Tlusty T & Berger J  A Simple Maximization Technique for Statistical-Mechanics Expressions Am J Phys 60 379-380 (1992)