Publications

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Les Houches lectures on flow networks in biology

Swarnavo Basu, Karen Alim

SciPost Phys. Lect. Notes 101 (2025) · published 10 October 2025 | · pdf

Flows are essential to transport resources over large distances. As soon as diffusion becomes time-limiting, flows are needed. Flows are key for the function of multiple human organs, from the blood vasculature to the lungs, the digestive tract, the lymphatic system, and many more. While physics governs the flow dynamics, biology's response to flows governs the flow network architecture. We start with the fluid physics of Stokes flow, the prerequisite to describe the flows in biological flow networks. Then we explore how the network adaptation dynamics of biological flow networks reorganize network architecture to minimize flow dissipation or homogenize transport, storing memories of past flows along the way.
Hydrodynamics without boost-invariance from kinetic theory: From perfect fluids to active flocks

Kevin T. Grosvenor, Niels A. Obers, Subodh P. Patil

SciPost Phys. 19, 071 (2025) · published 25 September 2025 | · pdf

We derive the hydrodynamic equations of perfect fluids without boost invariance [J. de Boer et al., SciPost Phys. 5, 003 (2018)] from kinetic theory. Our approach is to follow the standard derivation of the Vlasov hierarchy based on an a-priori unknown collision functional satisfying certain axiomatic properties consistent with the absence of boost invariance. The kinetic theory treatment allows us to identify various transport coefficients in the hydrodynamic regime. We identify a drift term that effects a relaxation to an equilibrium where detailed balance with the environment with respect to momentum transfer is obtained. We then show how the derivative expansion of the hydrodynamics of flocks can be recovered from boost non-invariant kinetic theory and hydrodynamics. We identify how various coefficients of the former relate to a parameterization of the so-called equation of kinetic state that yields relations between different coefficients, arriving at a symmetry-based understanding as to why certain coefficients in hydrodynamic descriptions of active flocks are naturally of order one, and others, naturally small. When inter-particle forces are expressed in terms of a kinetic theory influence kernel, a coarse-graining scale and resulting derivative expansion emerge in the hydrodynamic limit, allowing us to derive diffusion terms as infrared-relevant operators distilling different parameterizations of microscopic interactions. We conclude by highlighting possible applications.

1 citation
Gauge theory for topological waves in continuum fluids with odd viscosity

Keisuke Fujii, Yuto Ashida

SciPost Phys. Core 8, 058 (2025) · published 28 August 2025 | · pdf

We consider two-dimensional continuum fluids with odd viscosity under a chiral body force. The chiral body force makes the low-energy excitation spectrum of the fluids gapped, and the odd viscosity allows us to introduce the first Chern number of each energy band in the fluids. Employing a mapping between hydrodynamic variables and U(1) gauge field strengths, we derive a U(1) gauge theory for topologically nontrivial waves. The resulting U(1) gauge theory is given by the Maxwell-Chern-Simons theory with an additional term associated with odd viscosity. We then explicitly solve the equations of motion for the gauge fields in the presence of the boundary and find edge mode solutions. We finally confirm the bulk-boundary correspondence in the context of continuum systems.
Codebase release 0.2 for JFSD

Kim William Torre, Raoul D. Schram, Joost de Graaf

SciPost Phys. Codebases 56-r0.2 (2025) · published 30 June 2025 | · src

Stokesian Dynamics (SD) is a powerful computational framework for simulating the motion of particles in a viscous Newtonian fluid under Stokes-flow conditions. Traditional SD implementations can be computationally expensive as they rely on the inversion of large mobility matrices to determine hydrodynamic interactions. Recently, however, the simulation of thermalized systems with large numbers of particles has become feasible [Fiore and Swan, J. Fluid Mech. 878, 544 (2019)]. Their "fast Stokesian dynamics" (FSD) method leverages a saddle-point formulation to ensure overall scaling of the algorithm that is linear in the number of particles $\mathcal{O}(N)$; performance relies on dedicated graphics-processing-unit computing. Here, we present a different route toward implementing FSD, which instead leverages the Just-in-Time (JIT) compilation capabilities of Google JAX. We refer to this implementation as JFSD and perform benchmarks on it to verify that it has the right scaling and is sufficiently fast by the standards of modern computational physics. In addition, we provide a series of physical test cases that help ensure accuracy and robustness, as the code undergoes further development. Thus, JFSD is ready to facilitate the study of hydrodynamic effects in particle suspensions across the domains of soft, active, and granular matter.

1 citation
Python-JAX-based fast Stokesian dynamics

Kim William Torre, Raoul D. Schram, Joost de Graaf

SciPost Phys. Codebases 56 (2025) · published 30 June 2025 | · pdf

Stokesian Dynamics (SD) is a powerful computational framework for simulating the motion of particles in a viscous Newtonian fluid under Stokes-flow conditions. Traditional SD implementations can be computationally expensive as they rely on the inversion of large mobility matrices to determine hydrodynamic interactions. Recently, however, the simulation of thermalized systems with large numbers of particles has become feasible [Fiore and Swan, J. Fluid Mech. 878, 544 (2019)]. Their "fast Stokesian dynamics" (FSD) method leverages a saddle-point formulation to ensure overall scaling of the algorithm that is linear in the number of particles $\mathcal{O}(N)$; performance relies on dedicated graphics-processing-unit computing. Here, we present a different route toward implementing FSD, which instead leverages the Just-in-Time (JIT) compilation capabilities of Google JAX. We refer to this implementation as JFSD and perform benchmarks on it to verify that it has the right scaling and is sufficiently fast by the standards of modern computational physics. In addition, we provide a series of physical test cases that help ensure accuracy and robustness, as the code undergoes further development. Thus, JFSD is ready to facilitate the study of hydrodynamic effects in particle suspensions across the domains of soft, active, and granular matter.

2 citations
On quantum melting of superfluid vortex crystals: From Lifshitz scalar to dual gravity

Dung Xuan Nguyen, Sergej Moroz

SciPost Phys. 17, 164 (2024) · published 11 December 2024 | · pdf

Despite a long history of studies of vortex crystals in rotating superfluids, their melting due to quantum fluctuations is poorly understood. Here we develop a fracton-elasticity duality to investigate a two-dimensional vortex lattice within the fast rotation regime, where the Lifshitz model of the collective Tkachenko mode serves as the leading-order low-energy effective theory. We incorporate topological defects and discuss several quantum melting scenarios triggered by their proliferation. Furthermore, we lay the groundwork for a dual non-linear emergent gravity description of the superfluid vortex crystals.

3 citations
Suppression of the superfluid Kelvin-Helmholtz instability due to massive vortex cores, friction and confinement

Matteo Caldara, Andrea Richaud, Massimo Capone, Pietro Massignan

SciPost Phys. 17, 076 (2024) · published 10 September 2024 | · pdf

We characterize the dynamical instability responsible for the breakdown of regular rows and necklaces of quantized vortices that appear at the interface between two superfluids in relative motion. Making use of a generalized point-vortex model, we identify several mechanisms leading to the suppression of this instability. They include a non-zero mass of the vortex cores, dissipative processes resulting from the interaction between the vortices and the excitations of the superfluid, and the proximity of the vortex array to the sample boundaries. We show that massive vortex cores not only have a mitigating effect on the dynamical instability, but also change the associated scaling law and affect the direction along which it develops. The predictions of our massive and dissipative point-vortex model are eventually compared against recent experimental measurements of the maximum instability growth rate relevant to vortex necklaces in a cold-atom platform.

7 citations
Identifying diffusive length scales in one-dimensional Bose gases

Frederik Møller, Federica Cataldini, Jörg Schmiedmayer

SciPost Phys. Core 7, 025 (2024) · published 7 May 2024 | · pdf

In the hydrodynamics of integrable models, diffusion is a subleading correction to ballistic propagation. Here we quantify the diffusive contribution for one-dimensional Bose gases and find it most influential in the crossover between the main thermodynamic regimes of the gas. Analysing the experimentally measured dynamics of a single density mode, we find diffusion to be relevant only for high wavelength excitations. Instead, the observed relaxation is solely caused by a ballistically driven dephasing process, whose time scale is related to the phonon lifetime of the system and is thus useful to evaluate the applicability of the phonon bases typically used in quantum field simulators.

3 citations
The functional generalization of the Boltzmann-Vlasov equation and its gauge-like symmetry

Giorgio Torrieri

SciPost Phys. 16, 070 (2024) · published 11 March 2024 | · pdf

We argue that one can model deviations from the ensemble average in non-equilibrium statistical mechanics by promoting the Boltzmann equation to an equation in terms of functionals , representing possible candidates for phase space distributions inferred from a finite observed number of degrees of freedom. We find that, provided the collision term and the Vlasov drift term are both included, a gauge-like redundancy arises which does not go away even if the functional is narrow. We argue that this effect is linked to the gauge-like symmetry found in relativistic hydrodynamics [Ann. Phys. 442, 168902 (2022)] and that it could be part of the explanation for the apparent fluid-like behavior in small systems in hadronic collisions and other strongly-coupled small systems [Annu. Rev. Nucl. Part. Sci. 68, 211 (2018)]. When causality and Lorentz invariance are omitted this problem can be look at via random matrix theory show, and we show that in such a case thermalization happens much more quickly than the Boltzmann equation would infer. We also sketch an algorithm to study this problem numerically.

3 citations
Ideal fracton superfluids

Jay Armas, Emil Have

SciPost Phys. 16, 039 (2024) · published 30 January 2024 | · pdf

We investigate the thermodynamics of equilibrium thermal states and their near-equilibrium dynamics in systems with fractonic symmetries in arbitrary curved space. By explicitly gauging the fracton algebra we obtain the geometry and gauge fields that field theories with conserved dipole moment couple to. We use the resultant fracton geometry to show that it is not possible to construct an equilibrium partition function for global thermal states unless part of the fractonic symmetries is spontaneously broken. This leads us to introduce two classes of fracton superfluids with conserved energy and momentum, namely $p$-wave and $s$-wave fracton superfluids. The latter phase is an Aristotelian superfluid at ideal order but with a velocity constraint and can be split into two separate regimes: The U(1) fracton superfluid and the pinned $s$-wave superfluid regimes. For each of these classes and regimes we formulate a hydrodynamic expansion and study the resultant modes. We find distinctive features of each of these phases and regimes at ideal order in gradients, without introducing dissipative effects. In particular we note the appearance of a sound mode for $s$-wave fracton superfluids. We show that previous work on fracton hydrodynamics falls into these classes. Finally, we study ultra-dense $p$-wave fracton superfluids with a large kinetic mass in addition to studying the thermodynamics of ideal Aristotelian superfluids.

16 citations

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