From single neurons to behavior in the jellyfish Aurelia aurita

F Pallasdies, S Goedeke, W Braun… - Elife, 2019 - elifesciences.org
Jellyfish nerve nets provide insight into the origins of nervous systems, as both their
taxonomic position and their evolutionary age imply that jellyfish resemble some of the …

Biofilm viscoelasticity and nutrient source location control biofilm growth rate, migration rate, and morphology in shear flow

H Nguyen, A Ybarra, H Başağaoğlu, O Shindell - Scientific Reports, 2021 - nature.com
We present a numerical model to simulate the growth and deformation of a viscoelastic
biofilm in shear flow under different nutrient conditions. The mechanical interaction between …

IB2d Reloaded: A more powerful Python and MATLAB implementation of the immersed boundary method

NA Battista, WC Strickland, A Barrett… - … Methods in the …, 2018 - Wiley Online Library
The immersed boundary (IB) method is an elegant way to fully couple the motion of a fluid
and deformations of an immersed elastic structure. In that vein, the IB2d software allows for …

Naut your everyday jellyfish model: exploring how tentacles and oral arms impact locomotion

JG Miles, NA Battista - Fluids, 2019 - mdpi.com
Jellyfish are majestic, energy-efficient, and one of the oldest species that inhabit the oceans.
It is perhaps the second item, their efficiency, that has captivated scientists for decades into …

Deep reinforcement learning of viscous incompressible flow

KMS Park, AR Stinchcombe - Journal of Computational Physics, 2022 - Elsevier
We develop a new computational method to solve viscous incompressible fluid flow. This
method is an extension of the Derivative-Free Loss Method, which solves elliptic and …

Aquarium: A fully differentiable fluid-structure interaction solver for robotics applications

JH Lee, MY Michelis, R Katzschmann… - … on Robotics and …, 2023 - ieeexplore.ieee.org
We present Aquarium, a differentiable fluid-structure interaction solver for robotics that offers
stable simulation, accurately coupled fluid-robot physics in two dimensions, and full …

Swimming through parameter subspaces of a simple anguilliform swimmer

NA Battista - Integrative and Comparative Biology, 2020 - academic.oup.com
Computational scientists have investigated swimming performance across a multitude of
different systems for decades. Most models depend on numerous model input parameters …

Flow field analyses of a porous membrane-separated, double-layered microfluidic chip for cell co-culture

S Chen, J Xue, J Hu, Q Ding, L Zhou, S Feng… - Acta Mechanica …, 2020 - Springer
Organs-on-chips composed of a porous membrane-separated, double-layered channels are
used widely in elucidating the effects of cell co-culture and flow shear on biological …

Capturing functional relations in fluid–structure interaction via machine learning

T Soni, A Sharma, R Dutta, A Dutta… - Royal Society …, 2022 - royalsocietypublishing.org
While fluid–structure interaction (FSI) problems are ubiquitous in various applications from
cell biology to aerodynamics, they involve huge computational overhead. In this paper, we …

Tools for computational analysis of moving boundary problems in cellular mechanobiology

KT DiNapoli, DN Robinson… - WIREs Mechanisms of …, 2021 - Wiley Online Library
A cell's ability to change shape is one of the most fundamental biological processes and is
essential for maintaining healthy organisms. When the ability to control shape goes awry, it …