265 citations
Counting papers with at most 25 authors, so collaboration author lists do not stand in for the people here.
- Imperial College LondonGB14 papers
- University College LondonGB9 papers
- Centre National de la Recherche ScientifiqueFR8 papers
- Max Planck Institute for the Physics of Complex SystemsDE7 papers
- Queen Mary University of LondonGB6 papers
- University of CambridgeGB6 papers
- University of GenevaCH6 papers
- Université Paris CitéFR5 papers
- Sapienza University of RomeIT4 papers
- University of OxfordGB4 papers
- Duke UniversityUS3 papers
- École Polytechnique Fédérale de LausanneCH3 papers
51 papers
Dynamic laboratory X-ray phase-contrast microtomography with structure-based prior regularisation
Harry Allan, Tom Partridge, Joseph Jacob +1
X-ray microtomography is a versatile tool allowing the measurement of the 3D structure of optically thick samples. As a non-destructive technique, it is readily adapted to 4D imagi…
Enabling Global Image Data Sharing in the Life Sciences
Peter Bajcsy, Sreenivas Bhattiprolu, Katy Boerner +20
Coordinated collaboration is essential to realize the added value of and infrastructure requirements for global image data sharing in the life sciences. In this White Paper, we tak…
Community recommendations on cryoEM data archiving and validation
Gerard J. Kleywegt, Paul D. Adams, Sarah J. Butcher +44
In January 2020, a workshop was held at EMBL-EBI (Hinxton, UK) to discuss data requirements for deposition and validation of cryoEM structures, with a focus on single-particle anal…
The Protein Engineering Tournament: An Open Science Benchmark for Protein Modeling and Design
Chase Armer, Hassan Kane, Dana Cortade +7
The grand challenge of protein engineering is the development of computational models that can characterize and generate protein sequences for any arbitrary function. However, prog…
14 Examples of How LLMs Can Transform Materials Science and Chemistry: A Reflection on a Large Language Model Hackathon
Kevin Maik Jablonka, Qianxiang Ai, Alexander Al-Feghali +50
Large-language models (LLMs) such as GPT-4 caught the interest of many scientists. Recent studies suggested that these models could be useful in chemistry and materials science. To…
Optimal power extraction from active particles with hidden states
Luca Cocconi, Jacob Knight, Connor Roberts
We identify generic protocols achieving optimal power extraction from a single active particle subject to continuous feedback control under the assumption that its spatial trajecto…
Bonded straight and helical flagellar filaments form ultra-low-density glasses
Sevim Yardimci, Thomas Gibaud, Walter Schwenger +4
We study how the three-dimensional shape of rigid filaments determines the microscopic dynamics and macroscopic rheology of entangled semi-dilute Brownian suspensions. To control t…
Fast Topological Signal Identification and Persistent Cohomological Cycle Matching
Inés García-Redondo, Anthea Monod, Anna Song
Within the context of topological data analysis, the problems of identifying topological significance and matching signals across datasets are important and useful inferential task…
Spectral properties of stochastic processes possessing finite propagation velocity
Massimiliano Giona, Andrea Cairoli, Davide Cocco +1
This article investigates the spectral structure of the evolution operators associated with the statistical description of stochastic processes possessing finite propagation veloci…
In the folds of the Central Limit Theorem: Lévy walks, large deviations and higher-order anomalous diffusion
Massimiliano Giona, Andrea Cairoli, Rainer Klages
This article considers the statistical properties of Lévy walks possessing a regular long-term linear scaling of the mean square displacement with time, for which the conditions of…
Particle Entity in the Doi-Peliti and Response Field Formalisms
Marius Bothe, Luca Cocconi, Zigan Zhen +1
We introduce a procedure to test a theory for point particle entity, that is, whether said theory takes into account the discrete nature of the constituents of the system. We then…
Non-equilibrium thermodynamics of diffusion in fluctuating potentials
Henry Alston, Luca Cocconi, Thibault Bertrand
A positive rate of entropy production at steady state is a distinctive feature of truly non-equilibrium processes. Exact results, while being often limited to simple models, offer…
Impact of Side Chain Hydrophilicity on Packing, Swelling and Ion Interactions in Oxy-bithiophene Semiconductors
Nicholas Siemons, Drew Pearce, Camila Cendra +12
Exchanging hydrophobic alkyl-based side chains to hydrophilic glycol-based side chains is a widely adopted method for improving mixed-transport device performance, despite the impa…
Theory of nematic and polar active fluid surfaces
Guillaume Salbreux, Frank Jülicher, Jacques Prost +1
We derive a fully covariant theory of the hydrodynamics of nematic and polar active surfaces, subjected to internal and external forces and torques. We study the symmetries of pola…
Active morphogenesis of patterned epithelial shells
Diana Khoromskaia, Guillaume Salbreux
Shape transformations of epithelial tissues in three dimensions, which are crucial for embryonic development or in vitro organoid growth, can result from active forces generated wi…
Scaling of Entropy Production under Coarse Graining in Active Disordered Media
Luca Cocconi, Guillaume Salbreux, Gunnar Pruessner
Entropy production plays a fundamental role in the study of non-equilibrium systems by offering a quantitative handle on the degree of time-reversal symmetry breaking. It depends c…
Field theory of survival probabilities, extreme values, first passage times, and mean span of non-Markovian stochastic processes
Benjamin Walter, Gunnar Pruessner, Guillaume Salbreux
We provide a perturbative framework to calculate extreme events of non-Markovian processes, by mapping the stochastic process to a two-species reaction diffusion process in a Doi-P…
Fluctuations of water quality time series in rivers follow superstatistics
Benjamin Schäfer, Catherine M. Heppell, Hefin Rhys +1
Superstatistics is a general method from nonequilibrium statistical physics which has been applied to a variety of complex systems, ranging from hydrodynamic turbulence to traffic…
Geometry of Gene Regulatory Dynamics
David A. Rand, Archishman Raju, Meritxell Saez +2
Embryonic development leads to the reproducible and ordered appearance of complexity from egg to adult. The successive differentiation of different cell types, that elaborates this…
Objective comparison of methods to decode anomalous diffusion
Gorka Muñoz-Gil, Giovanni Volpe, Miguel Angel Garcia-March +31
Deviations from Brownian motion leading to anomalous diffusion are found in transport dynamics from quantum physics to life sciences. The characterization of anomalous diffusion fr…
Best practices for constructing, preparing, and evaluating protein-ligand binding affinity benchmarks
David F. Hahn, Christopher I. Bayly, Hannah E. Bruce Macdonald +8
Free energy calculations are rapidly becoming indispensable in structure-enabled drug discovery programs. As new methods, force fields, and implementations are developed, assessing…
QUAREP-LiMi: A community-driven initiative to establish guidelines for quality assessment and reproducibility for instruments and images in light microscopy
Glyn Nelson, Ulrike Boehm, Steve Bagley +97
In April 2020, the QUality Assessment and REProducibility for Instruments and Images in Light Microscopy (QUAREP-LiMi) initiative was formed. This initiative comprises imaging scie…
Entropy production in exactly solvable systems
Luca Cocconi, Rosalba Garcia-Millan, Zigan Zhen +2
The rate of entropy production by a stochastic process quantifies how far it is from thermodynamic equilibrium. Equivalently, entropy production captures the degree to which detail…
Extended Poisson-Kac theory: A unifying framework for stochastic processes with finite propagation velocity
Massimiliano Giona, Andrea Cairoli, Rainer Klages
Stochastic processes play a key role for modeling a huge variety of transport problems out of equilibrium, with manifold applications throughout the natural and social sciences. To…