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Posted to bioRxiv: 3D Cell Cultures Amplify Diffusion Signals

We've made our group's first pre-print submission to bioRxiv. We posted our paper 3D Cell Cultures Amplify Diffusion Signals. This paper models the amplification of diffusion signals that occurs across the boundary of an organoid immersed in liquid. With a combination of theory and experiments, we verify the amplification factor as a function of diffusion coefficients inside and outside the organoid. The main result is that, on a very short timescale, organoids act like sponges and can make measurable changes to nutrient concentrations in the surrounding environment. This provides useful insight for lab-on-chip systems and other applications that have dense collections of cells.

This paper is an output of the SIMBA project. It is first-authored by our group member Hamidreza Arjmandi and co-authored with our SIMBA project collaborators at AstraZeneca Sweden (Kajsa Kanebratt, Liisa Vilen, and Peter Gennemark).

Fri 30 Jun 2023, 09:39 | Tags: molecular communication, biorxiv

Posted to arXiv: Biophysical Model for Signal-Embedded Droplet Soaking into 2D Cell Culture

Our paper "Biophysical Model for Signal-Embedded Droplet Soaking into 2D Cell Culture" has been posted to arXiv. This paper presents our group's first experimental work with bacteria where we develop a model for liquid droplets soaking into an agar plate. We derive a channel response to describe the molecule dynamics within the agar and the molecules that get absorbed by bacteria growing on top of the agar. We use a basic experiment to estimate the droplet soaking parameters and use particle simulations for the diffusion and absorption processes. This work will be the foundation for us understanding how signals can propagate within and between surface bacterial communities. The paper was co-authored with Christophe Corre (University of Warwick School of Life Sciences and Department of Chemistry).

Fri 12 May 2023, 15:36 | Tags: arxiv, molecular communication

Dr Hamidreza Arjmandi Promoted to Assistant Professor

We're very pleased to share that Dr Hamidreza Arjmandi has been promoted to Assistant Professor (Research Focused). Hamidreza has been a valuable member of our group for the last 18 months and this promotion is a great recognition of his many research contributions, plus his commitment to service and teaching.

Dr Hamidreza Arjmandi

Thu 11 May 2023, 16:23 | Tags: group

New CFP - Molecular Communication in Crowded and Multi-Cellular Environments

We are pleased to announce an upcoming special issue in IEEE Transactions on Molecular, Biological, and Multi-scale Communications, entitled "Seeing Through the Crowd: Molecular Communication in Crowded and Multi-Cellular Environments". You can find the full CFP on the T-MBMC websiteLink opens in a new window. Please consider submitting to the issue and sharing this call with your collaborators.
We do welcome contributions from authors outside of IEEE/ComSoc. To facilitate this, initial submissions do not need to follow the IEEE formatting guidelines, as long as the scientific and technical ideas are conveyed clearly.
In short, the aim of this Special Issue is to raise a spotlight on the diversity of complex environments and the tools that are needed to describe molecular signaling and communication in these systems. We have a particular interest in biophysical models that have not yet been subject to extensive molecular communication analysis, but contributions using any models that are appropriate for “large” cellular systems are welcome.
The list of invited topics includes (but is not limited to) research articles and surveys on the following:
  • Signal propagation models designed for intercellular environments such as organoids, tissues, organs, tumors, and biofilms
  • Signal propagation models designed for intracellular environments such as cytoplasm, nuclei, and organelles
  • Signal propagation models designed for crowded environments (biological or non-biological) such as porous media
  • Unconventional diffusion modeling, including anisotropic diffusion, anomalous diffusion (superdiffusion or subdiffusion), fractional Brownian motion, and multi-phase diffusion
  • Biophysical flow modelling, including turbulent and laminar flow
  • Multi-cellular chemical reaction networks
  • Design of synthetic or natural communication systems in multi-cellular environments
  • Communication system analysis in multi-cellular environments
  • Decentralized cellular decision-making and computation
  • Experimental methods to apply or detect signals in multi-cellular environments, either in aggregate or at single-cell resolution

Manuscript Submission Deadline: 15 September 2023
Publication Date: March 2024
Thu 16 Mar 2023, 11:01 | Tags: cfp, editorial, molecular communication

Paper Accepted: Diffusive Molecular Communication with a Spheroidal Receiver for Organ-on-Chip Systems

Our paper "Diffusive Molecular Communication with a Spheroidal Receiver for Organ-on-Chip Systems" was accepted for presentation at IEEE ICC this May in Rome, Italy. This paper will be our group's first publication focused on organ-on-chip systems. We model an organoid of cells as a receiver and derive the channel response from a nearby point transmitter. We approximate the porous organoid receiver as a sphere with a lower diffusion coefficient and show its impact on the received signal. This paper was co-authored with Hamidreza Arjmandi and Mitra Rezaei from our group, in addition to Mohamad Zoofaghari (Yazd University, Iran) and our SIMBA project collaborators at AstraZeneca Sweden (Kajsa Kanebratt, Liisa Vilen, David Janzen, and Peter Gennemark).

Wed 22 Feb 2023, 21:54 | Tags: arxiv, conference, molecular communication

Hosting Conference - 2023 ACM NanoCom

ACM NanoCom banner

We're pleased to announce that we will be hosting the 10th ACM International Conference on Nanoscale Computing and Communication (ACM NanoCom) here at the University of Warwick. The conference will be held from 20-22 September, 2023. Adam Noel is serving as General Chair along with Andrew Eckford (York University, Canada). Other local organisers include Hamidreza Arjmandi as Local Organization Chair, Matthew Higgins as Sponsorship Chair, and Yanahan Paramalingam as Social Media Chair.

ACM NanoCom 2023 is endorsed by the Technical Committee on Molecular, Biological, and Multi-Scale Communications of the IEEE Communications Society.

The Call for Papers is now available. Full details can be found here. The initial deadline for Regular Papers is 9 April 2023.

Thu 02 Feb 2023, 15:51 | Tags: conference, molecular communication, event

New Visiting Research Fellow - Dr Ibrahim Isik

We're pleased to welcome Dr Ibrahim Isik who joins us as a Visiting Research Fellow to work on fluid dynamics and signal transport for bacteria. Ibrahim has a B.Sc. in Electrical Electronics Engineering from the University of Gaziantep, Turkey, and both an M.Sc. and Ph.D. in Electrical Electronics Engineering from Inonu University, Turkey. His Ph.D. research was on the impact of amyloid beta on molecular communication.

Ibrahim Isik photo

Sat 10 Dec 2022, 16:34 | Tags: group

New PhD Scholarship Student: Mitra Rezaei

We're pleased to welcome Mitra Rezaei who joins us with a Chancellor's International Scholarship to do her PhD on communication between cell organoids. Mitra has a B.Sc. in Biomedical Engineering from Sahand University of Technology and an M.Sc. in Biomedical Engineering from Tarbiat Modares University.

Mitra Rezaei photo

Fri 04 Nov 2022, 09:34 | Tags: PhD, funding, group

Paper Accepted: Membrane Fusion-Based Transmitter Design for Static and Diffusive Mobile Molecular Communication Systems

Our paper "Membrane Fusion-Based Transmitter Design for Static and Diffusive Mobile Molecular Communication Systems" (alternative arXiv link) was accepted for publication in IEEE Transactions on Communications. This paper considers a novel molecular communication system where the transmitter is a membrane-bound sphere and vesicles bind to and fuse with the sphere in order to release molecules into the propagation environment. Such a system is more reflective of cellular signalling than the point- or volume-based transmitters that are usually modelled. We derive the resulting molecule release probability and the corresponding impact on what is observed at an absorbing receiver. Our simulation results show how the hitting probability at the receiver is impacted by slow vesicle diffusion or a low membrane fusion probability. The paper was co-authored with Xinyu Huang (Australian National University), Yuting Fang (Melbourne, Australia), and Nan Yang (Australian National University).

Wed 03 Nov 2021, 13:16 | Tags: journal, molecular communication

Group Update: New Research Members in 2021

We're pleased to welcome the new research members that have joined the BioPhysComm Lab this year.

Dr Hamidreza Arjmandi joins us as a Research Fellow to work on the SIMBA Project (Signal Propagation and Information in Microscale Biological Applications). Dr Arjmandi was previously an Assistant Professor at Yazd University, Iran, and an ERCIM Postdoctoral Fellow at Norwegian University of Science and Technology. He completed his PhD in Electrical Engineering from Sharif University of Technology (Tehran, Iran) in 2016.

We're also pleased to welcome 2 new PhD students: Yanahan Paramalingam and Mahir Taher. Yanahan is co-supervised by Freya Harrison and Tara Schiller, and is studying signalling within biofilms. Mahir joins us as a member of the Interdisciplinary Biomedical Research PhD Program. He is co-supervised by Anne Straube and is studying molecular transport in neurons.

Tue 02 Nov 2021, 12:00 | Tags: PhD, group

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