Note: any PDF uploads of publications may differ slightly from the official journal versions.
Measuring irreversibility from learned representations of biological patterns
J. Li*, C.W.J. Liu*, M. Szurek, N. Fakhri
arXiv:2305.19983
Dissipative timescales from coarse-graining irreversibility
F.A. Cisneros, N. Fakhri, J.M. Horowitz
Journal of Statistical Mechanics 2023
Inferring scale-dependent non-equilibrium activity using carbon nanotubes
A. Bacanu, J.F. Pelletier, Y. Jung, N. Fakhri
Nature Nanotechnology 2023
Nature News & Views: Measurement of scale-dependent time-reversal asymmetry in biological systems
ATP-induced crosslinking of a biomolecular condensate
S.T. Coupe, N. Fakhri
Biophysical Journal 2023
[link to bioRxiv] [link to PDF] [link to SI]
Odd dynamics of living chiral crystals
T.H. Tan*, A. Mietke*, J. Li, Y. Chen, H. Higinbotham, P.J. Foster, S. Gokhale, J. Dunkel, N. Fakhri
Nature 2022
Nature News & Views: Odd living matter defies the golden rule of mechanics
Nature Video: Watch starfish embryos become living crystals
Dynamic clustering of passive colloids in dense suspensions of motile bacteria
S. Gokhale, J. Li, A. Solon, J. Gore, N. Fakhri
Physical Review E 2022
Symmetry, thermodynamics, and topology in active matter
M.J. Bowick, N. Fakhri, M.C. Marchetti, S. Ramaswamy
Physical Review X 2022
Active mechanics of sea star oocytes
P.J. Foster, S. Fürthauer, N. Fakhri
bioRxiv, 2022.04. 22.489189
Polarized Dishevelled dissolution and reassembly drives embryonic axis specification in sea star oocytes
SZ Swartz, TH Tan, M Perillo, N Fakhri, GM Wessel, AH Wikramanayake, ...
Current biology 2021
Scale-dependent irreversibility in living active matter
T. H. Tan*, G. A. Watson*, Y. Chen*, T. R. Gingrich, J. M. Horowitz, N. Fakhri
arXiv:2107.05701
Topological braiding and virtual particles on the cell membrane
J. Liu, J. F. Totz, P. W. Miller, A. D. Hastewell, Y. Chao, J. Dunkel, N. Fakhri
PNAS 2021
A hierarchy of protein patterns robustly decodes cell shape information
M. C. Wigbers*, T. H. Tan*, F. Brauns, J. Liu, S. Z. Swartz, E. Frey, N. Fakhri
Nature Physics 2021
Topological turbulence in the membrane of a living cell
T. H. Tan*, J. Liu*, P. W. Miller*, M. Tekant, J. Dunkel, N. Fakhri
Nature Physics 2020
Cover: June Issue
Nature Research Highlights: How a starfish egg is like a quantum system
Quantifying dissipation using fluctuating currents
J. Li, J. M. Horowitz, T. R. Gingrich, N. Fakhri
Nature Communications 2019 (also: arXiv:1809.02118)
The science of living matter for tomorrow
G. Bauer, N. Fakhri, A. Kicheva, J. Kondev, K. Kruse, H. Noji, D. Riveline, T. E. Saunders, M. Thattai, E. Wieschaus.
Cell Systems 2018
Self-organization of stress patterns drives state transitions in actin cortices
T. H. Tan*, M. M. Garbi*, E. Abu-Shah*, J. Li, A. Sharma, F. C. MacKintosh, K. Keren, C. F. Schmidt, N. Fakhri
Science Advances 2018 (also: arXiv:1603.07600)
Broken detailed balance of filament dynamics in active networks
J. Gladrow, N. Fakhri, F. C. MacKintosh, C. F. Schmidt, C. P. Broedersz
Physical Review Letters 2016 (also: arXiv:1603.04783)
Broken detailed balance at mesoscopic scales in active biological systems
C. Battle*, C. P. Broedersz*, N. Fakhri*, V. F. Geyer, J. Howard, C. F. Schmidt, F. C. MacKintosh (* equal contribution)
Science 2016
Perspective: A fresh eye on nonequilibrium systems
Vinculin is required for cell polarization, migration, and extracellular matrix remodeling in 3D collagen
I. Thievessen, N. Fakhri, J. Steinwachs, V. Kraus, R. S. McIsaac, L. Gao, B. Chen, M. A. Baird, M. W. Davidson, E. Betzig, R. Oldenbourg, C. M. Waterman, B. Fabry
The FASEB Journal 2015
Drebrin-like protein DBN-1 is a sarcomere component that stabilizes actin filaments during muscle contraction
E. Butkevich, K. Bodensiek, N. Fakhri, K. Roden, I. A. T. Schaap, I. Majoul, C. F. Schmidt, D. R. Klopfenstein
Nature Communications 2015
High resolution mapping of intracellular fluctuations using carbon nanotubes
N. Fakhri, A. D. Wessel, C. Willms, M. Pasquali, D. Klopfenstein, F. C. MacKintosh, C. F. Schmidt
Science 2014
A surprising twist
N. Fakhri, C. F. Schmidt
eLife 2014
Axial thermal rotation of slender rods
D. Li, N. Fakhri, M. Pasquali, S. L. Biswal
Physical Review Letters 2011
Brownian motion of stiff filaments in a crowded environment
N. Fakhri, F. C. MacKintosh, B. Lounis, L. Cognet, M. Pasquali
Science 2010
Do inner shells of double-walled carbon nanotubes fluoresce?
D. A. Tsyboulski, Y. Hou, N. Fakhri, S. Ghosh, R. Zhang, S. M. Bachilo, M. Pasquali, L. Chen, J. Liu, R. B. Weisman
Nano Letters 2009
Diameter-dependent bending dynamics of single-walled carbon nanotubes in liquids
N. Fakhri, D. A. Tsyboulski, L. Cognet, R. B. Weisman, M. Pasquali
PNAS 2009
Self-assembly of ordered nanowires in biological suspensions of single- walled carbon nanotubes
E. K. Hobbie, J. A. Fagan, M. L. Becker, S. D. Hudson, N. Fakhri, M. Pasquali
ACS Nano 2009
Measuring irreversibility from learned representations of biological patterns
J. Li*, C.W.J. Liu*, M. Szurek, N. Fakhri
arXiv:2305.19983
Dissipative timescales from coarse-graining irreversibility
F.A. Cisneros, N. Fakhri, J.M. Horowitz
Journal of Statistical Mechanics 2023
Inferring scale-dependent non-equilibrium activity using carbon nanotubes
A. Bacanu, J.F. Pelletier, Y. Jung, N. Fakhri
Nature Nanotechnology 2023
Nature News & Views: Measurement of scale-dependent time-reversal asymmetry in biological systems
ATP-induced crosslinking of a biomolecular condensate
S.T. Coupe, N. Fakhri
Biophysical Journal 2023
[link to bioRxiv] [link to PDF] [link to SI]
Odd dynamics of living chiral crystals
T.H. Tan*, A. Mietke*, J. Li, Y. Chen, H. Higinbotham, P.J. Foster, S. Gokhale, J. Dunkel, N. Fakhri
Nature 2022
Nature News & Views: Odd living matter defies the golden rule of mechanics
Nature Video: Watch starfish embryos become living crystals
Dynamic clustering of passive colloids in dense suspensions of motile bacteria
S. Gokhale, J. Li, A. Solon, J. Gore, N. Fakhri
Physical Review E 2022
Symmetry, thermodynamics, and topology in active matter
M.J. Bowick, N. Fakhri, M.C. Marchetti, S. Ramaswamy
Physical Review X 2022
Active mechanics of sea star oocytes
P.J. Foster, S. Fürthauer, N. Fakhri
bioRxiv, 2022.04. 22.489189
Polarized Dishevelled dissolution and reassembly drives embryonic axis specification in sea star oocytes
SZ Swartz, TH Tan, M Perillo, N Fakhri, GM Wessel, AH Wikramanayake, ...
Current biology 2021
Scale-dependent irreversibility in living active matter
T. H. Tan*, G. A. Watson*, Y. Chen*, T. R. Gingrich, J. M. Horowitz, N. Fakhri
arXiv:2107.05701
Topological braiding and virtual particles on the cell membrane
J. Liu, J. F. Totz, P. W. Miller, A. D. Hastewell, Y. Chao, J. Dunkel, N. Fakhri
PNAS 2021
A hierarchy of protein patterns robustly decodes cell shape information
M. C. Wigbers*, T. H. Tan*, F. Brauns, J. Liu, S. Z. Swartz, E. Frey, N. Fakhri
Nature Physics 2021
Topological turbulence in the membrane of a living cell
T. H. Tan*, J. Liu*, P. W. Miller*, M. Tekant, J. Dunkel, N. Fakhri
Nature Physics 2020
Cover: June Issue
Nature Research Highlights: How a starfish egg is like a quantum system
Quantifying dissipation using fluctuating currents
J. Li, J. M. Horowitz, T. R. Gingrich, N. Fakhri
Nature Communications 2019 (also: arXiv:1809.02118)
The science of living matter for tomorrow
G. Bauer, N. Fakhri, A. Kicheva, J. Kondev, K. Kruse, H. Noji, D. Riveline, T. E. Saunders, M. Thattai, E. Wieschaus.
Cell Systems 2018
Self-organization of stress patterns drives state transitions in actin cortices
T. H. Tan*, M. M. Garbi*, E. Abu-Shah*, J. Li, A. Sharma, F. C. MacKintosh, K. Keren, C. F. Schmidt, N. Fakhri
Science Advances 2018 (also: arXiv:1603.07600)
Broken detailed balance of filament dynamics in active networks
J. Gladrow, N. Fakhri, F. C. MacKintosh, C. F. Schmidt, C. P. Broedersz
Physical Review Letters 2016 (also: arXiv:1603.04783)
Broken detailed balance at mesoscopic scales in active biological systems
C. Battle*, C. P. Broedersz*, N. Fakhri*, V. F. Geyer, J. Howard, C. F. Schmidt, F. C. MacKintosh (* equal contribution)
Science 2016
Perspective: A fresh eye on nonequilibrium systems
Vinculin is required for cell polarization, migration, and extracellular matrix remodeling in 3D collagen
I. Thievessen, N. Fakhri, J. Steinwachs, V. Kraus, R. S. McIsaac, L. Gao, B. Chen, M. A. Baird, M. W. Davidson, E. Betzig, R. Oldenbourg, C. M. Waterman, B. Fabry
The FASEB Journal 2015
Drebrin-like protein DBN-1 is a sarcomere component that stabilizes actin filaments during muscle contraction
E. Butkevich, K. Bodensiek, N. Fakhri, K. Roden, I. A. T. Schaap, I. Majoul, C. F. Schmidt, D. R. Klopfenstein
Nature Communications 2015
High resolution mapping of intracellular fluctuations using carbon nanotubes
N. Fakhri, A. D. Wessel, C. Willms, M. Pasquali, D. Klopfenstein, F. C. MacKintosh, C. F. Schmidt
Science 2014
A surprising twist
N. Fakhri, C. F. Schmidt
eLife 2014
Axial thermal rotation of slender rods
D. Li, N. Fakhri, M. Pasquali, S. L. Biswal
Physical Review Letters 2011
Brownian motion of stiff filaments in a crowded environment
N. Fakhri, F. C. MacKintosh, B. Lounis, L. Cognet, M. Pasquali
Science 2010
Do inner shells of double-walled carbon nanotubes fluoresce?
D. A. Tsyboulski, Y. Hou, N. Fakhri, S. Ghosh, R. Zhang, S. M. Bachilo, M. Pasquali, L. Chen, J. Liu, R. B. Weisman
Nano Letters 2009
Diameter-dependent bending dynamics of single-walled carbon nanotubes in liquids
N. Fakhri, D. A. Tsyboulski, L. Cognet, R. B. Weisman, M. Pasquali
PNAS 2009
Self-assembly of ordered nanowires in biological suspensions of single- walled carbon nanotubes
E. K. Hobbie, J. A. Fagan, M. L. Becker, S. D. Hudson, N. Fakhri, M. Pasquali
ACS Nano 2009