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Presentation by A. Callegari at SPIE-ETAI, San Diego, 22 August 2023

Focused rays scattered by an ellipsoidal particles (left). Optical torque along y calculated in the x-y plane using ray scattering with a grid of 1600 rays (up, right) and using a trained neural network (down, right). (Image by the Authors of the manuscript.)
Faster and More Accurate Geometrical-Optics Optical Force Calculation Using Neural Networks
David Bronte Ciriza, Alessandro Magazzù, Agnese Callegari, Gunther Barbosa, Antonio A. R. Neves, Maria Antonia Iatì, Giovanni Volpe, and Onofrio M. Maragò
SPIE-ETAI, San Diego, CA, USA, 20 – 24 August 2023
Date: 22 August 2023

Optical tweezers are an established and versatile tool for the optical trapping and manipulation of microscopic object using light. Modelling the interaction between particles and light, i.e., being able to calculate the optical force and torque the light exerts on the particle, is important to both understand the outcome of experiments and help designing the experimental setup to the obtain a certain outcome. Different modelling approximation and relative calculation techniques are employed depending on the size of the particle and the features of the trapping light. In this work, we will focus on the geometrical optics regime, which hold for particles whose size is significantly larger than the wavelength of the light. In this approximation, optical forces and torques are calculated by discretizing the trapping light beam into a set of rays. Each ray, impinging on the particle, is reflected and refracted multiple times and, in this scattering process, transfers momentum and angular momentum to the particle. However, the choice of the discretization, i.e., which and how many rays we use to represent a beam, sets a trade-off between calculation speed and accuracy. Here, we show that using neural networks allows overcoming this limitation, obtaining not only faster but also more accurate simulations. We demonstrate this using an optically trapped spherical particle for which we obtain an analytical solution to use as ground truth. Then, we exploit our neural networks method to study the dynamics of ellipsoidal particles in a double trap, a system that would be computationally impossible otherwise.

Reference
David Bronte Ciriza, Alessandro Magazzù, Agnese Callegari, Gunther Barbosa, Antonio A. R. Neves, Maria A. Iatì, Giovanni Volpe, Onofrio M. Maragò, Faster and more accurate geometrical-optics optical force calculation using neural networks, ACS Photonics 10, 234–241 (2023)

Poster by H. Zhao at SPIE-ETAI, San Diego, 22 August 2023

Low dose and standard dose PET translation. (Image by H. Zhao.)
High quality PET image synthesis using GAN-transformer
Hang Zhao
Date: 21 August 2023
Time: 5:30 PM PDT

Amyloid-beta positron emission tomography (PET) is used for the diagnosis of Alzheimer’s disease (AD). However, the inherent radiation of radioactive tracers used for PET is potentially harmful to the human body. In this study, we present a deep-learning framework for generating high-quality standard-dose PET brain images from scans that have a simulated reduced injected dose of 12.5% of the standard injected dose, thus reducing radiation exposure without compromising image quality. This novel approach achieves remarkable similarity to full-dose images in both visual and quantitative aspects. Our method offers the potential of enabling safer and more accessible PET imaging for early Alzheimer’s disease detection.

Poster by J. Pineda at SPIE-ETAI, San Diego, 21 August 2023

The proposed method allows for robust detection, segmentation, and tracking of soft granular clusters. (Image by J. Pineda.)
Unveiling the complex dynamics of soft granular materials using deep learning
Jesús Pineda
Date: 21 August 2023
Time: 5:30 PM PDT

Soft granular materials, comprising closely packed grains held together by a thin layer of lubricating fluid, display intricate many-body dynamics resulting in complex flows and rheological behavior, including plasticity and viscoelasticity, memory effects, and avalanches. Despite their widespread presence in nature and industrial applications, the structural mechanics and microscale dynamics of soft granular clusters still need to be better understood, especially those under strong confinement or surrounded by free interfaces. This work aims to bridge the gap in understanding the internal dynamics of finite-sized soft granular media by introducing a deep learning approach to characterize the shapes and movements of deformable grains in the material. We demonstrate the reliability and versatility of the method by studying the dynamics of soft granular clusters that self-organize under external flow in various physically relevant scenarios.

Poster by A. Callegari at SPIE-OTOM, San Diego, 21 August 2023

Schematic of the scattering of a light ray on a Janus particle. (Image by A. Callegari.)
Janus Particles in Geometrical Optics
Agnese Callegari, Giovanni Volpe
SPIE-OTOM, San Diego, CA, USA, 20 – 24 August 2023
Date: 21 August 2023

Janus particles are microscopic objects characterized by one feature with dual properties. Typical examples of Janus particles are metal-coated silica particles, widely used in soft and active matter applications because of their versatility and relative simplicity of their fabrication. Janus particles are often utilized in the presence of optical potentials. Given the non-homogeneous nature of their refractive index composition, the interaction between the Janus particle and light is non-trivial to model: in addition to the optical force, the particle experiences an optical torque, even in the case of spherically shaped Janus particles, and its metallic cap can also absorb part of the optical power impinging on the particle. Here, we provide a description of the Janus particle in the geometrical optics approximation, and an implementation for calculating forces, torques, and absorption on partially coated Janus particles of spherical and ellipsoidal shape. This implementation is based on the existing OTGO toolbox, developed in Matlab for calculating optical forces and torques in the geometrical optics regime. We first validate our model against the known experimental results and show that interesting dynamical effects arise in the presence of travelling-wave optical potential.

Presentation by A. Callegari at SPIE-OTOM, San Diego, 21 August 2023

One exemplar of the HEXBUGS used in the experiment. (Image by the Authors of the manuscript.)
Playing with Active Matter
Angelo Barona Balda, Aykut Argun, Agnese Callegari, Giovanni Volpe
SPIE-OTOM, San Diego, CA, USA, 20 – 24 August 2023
Date: 21 August 2023

In the last 20 years, active matter has been a very successful research field, bridging the fundamental physics of nonequilibrium thermodynamics with applications in robotics, biology, and medicine. This field deals with active particles, which, differently from passive Brownian particles, can harness energy to generate complex motions and emerging behaviors. Most active-matter experiments are performed with microscopic particles and require advanced microfabrication and microscopy techniques. Here, we propose some macroscopic experiments with active matter employing commercially available toy robots, i.e., the Hexbugs. We demonstrate how they can be easily modified to perform regular and chiral active Brownian motion. We also show that Hexbugs can interact with passive objects present in their environment and, depending on their shape, set them in motion and rotation. Furthermore, we show that, by introducing obstacles in the environment, we can sort the robots based on their motility and chirality. Finally, we demonstrate the emergence of Casimir-like activity-induced attraction between planar objects in the presence of active particles in the environment.

Reference
Angelo Barona Balda, Aykut Argun, Agnese Callegari, Giovanni Volpe, Playing with Active Matter, arXiv: 2209.04168

Soft Matter Lab members present at SPIE Optics+Photonics conference in San Diego, 20-24 August 2023

The Soft Matter Lab participates to the SPIE Optics+Photonics conference in San Diego, CA, USA, 20-24 August 2023, with the presentations listed below.

Giovanni Volpe is also co-author of the presentations:

  • Jiawei Sun (KI): (Poster) Assessment of nonlinear changes in functional brain connectivity during aging using deep learning
    21 August 2023 • 5:30 PM – 7:00 PM PDT | Conv. Ctr. Exhibit Hall A
  • Blanca Zufiria Gerbolés (KI): (Poster) Exploring age-related changes in anatomical brain connectivity using deep learning analysis in cognitively healthy individuals
    21 August 2023 • 5:30 PM – 7:00 PM PDT | Conv. Ctr. Exhibit Hall A
  • Mite Mijalkov (KI): Uncovering vulnerable connections in the aging brain using reservoir computing
    22 August 2023 • 9:15 AM – 9:30 AM PDT | Conv. Ctr. Room 6C

CT-based volumetric measures obtained through deep learning: Association with biomarkers of neurodegeneration published on Alzheimer’s & Dementia

Imaging-based volumetric measures. (Image by the Authors of the manuscript.)
CT-based volumetric measures obtained through deep learning: Association with biomarkers of neurodegeneration
Meera Srikrishna, Nicholas J. Ashton, Alexis Moscoso, Joana B. Pereira, Rolf A. Heckemann, Danielle van Westen, Giovanni Volpe, Joel Simrén, Anna Zettergren, Silke Kern, Lars-Olof Wahlund, Bibek Gyanwali, Saima Hilal, Joyce Chong Ruifen, Henrik Zetterberg, Kaj Blennow, Eric Westman, Christopher Chen, Ingmar Skoog, Michael Schöll
Alzheimer’s & Dementia 20, 629–640 (2024)
arXiv: 2401.06260
doi: 10.1002/alz.13445

INTRODUCTION
Cranial computed tomography (CT) is an affordable and widely available imaging modality that is used to assess structural abnormalities, but not to quantify neurodegeneration. Previously we developed a deep-learning–based model that produced accurate and robust cranial CT tissue classification.

MATERIALS AND METHODS
We analyzed 917 CT and 744 magnetic resonance (MR) scans from the Gothenburg H70 Birth Cohort, and 204 CT and 241 MR scans from participants of the Memory Clinic Cohort, Singapore. We tested associations between six CT-based volumetric measures (CTVMs) and existing clinical diagnoses, fluid and imaging biomarkers, and measures of cognition.

RESULTS
CTVMs differentiated cognitively healthy individuals from dementia and prodromal dementia patients with high accuracy levels comparable to MR-based measures. CTVMs were significantly associated with measures of cognition and biochemical markers of neurodegeneration.

DISCUSSION
These findings suggest the potential future use of CT-based volumetric measures as an informative first-line examination tool for neurodegenerative disease diagnostics after further validation.

Peripheral inflammatory subgroup differences in anterior Default Mode network and multiplex functional network topology are associated with cognition in psychosis published in Brain Behaviour and Immunity

Illustration of resting state network activity. (Image by the Authors of the manuscript.)
Peripheral inflammatory subgroup differences in anterior Default Mode network and multiplex functional network topology are associated with cognition in psychosis
Paulo Lizano, Chelsea Kiely, Mite Mijalkov, Shashwath A. Meda, Sarah K. Keedy, Dung Hoang, Victor Zeng, Olivia Lutz, Joana B. Pereira, Elena I. Ivleva, Giovanni Volpe, Yanxun Xu, Adam M. Lee, Leah H. Rubin, S Kristian Hill, Brett A. Clementz, Carol A. Tamminga, Godfrey D. Pearlson, John A. Sweeney, Elliot S. Gershon, Matcheri S. Keshavan, Jeffrey R. Bishop
Brain Behavior and Immunity, 114, 3-15 (2023)
doi: 10.1016/j.bbi.2023.07.014

Introduction
High-inflammation subgroups of patients with psychosis demonstrate cognitive deficits and neuroanatomical alterations. Systemic inflammation assessed using IL-6 and C-reactive protein may alter functional connectivity within and between resting-state networks, but the cognitive and clinical implications of these alterations remain unknown. We aim to determine the relationships of elevated peripheral inflammation subgroups with resting-state functional networks and cognition in psychosis spectrum disorders.

Methods
Serum and resting-state fMRI were collected from psychosis probands (schizophrenia, schizoaffective, psychotic bipolar disorder) and healthy controls (HC) from the B-SNIP1 (Chicago site) study who were stratified into inflammatory subgroups based on factor and cluster analyses of 13 cytokines (HC Low n = 32, Proband Low n = 65, Proband High n = 29). Nine resting-state networks derived from independent component analysis were used to assess functional and multilayer connectivity. Inter-network connectivity was measured using Fisher z-transformation of correlation coefficients. Network organization was assessed by investigating networks of positive and negative connections separately, as well as investigating multilayer networks using both positive and negative connections. Cognition was assessed using the Brief Assessment of Cognition in Schizophrenia. Linear regressions, Spearman correlations, permutations tests and multiple comparison corrections were used for analyses in R.

Results
Anterior default mode network (DMNa) connectivity was significantly reduced in the Proband High compared to Proband Low (Cohen’s d = -0.74, p = 0.002) and HC Low (d = -0.85, p = 0.0008) groups. Inter-network connectivity between the DMNa and the right-frontoparietal networks was lower in Proband High compared to Proband Low (d = -0.66, p = 0.004) group. Compared to Proband Low, the Proband High group had lower negative (d = 0.54, p = 0.021) and positive network (d = 0.49, p = 0.042) clustering coefficient, and lower multiplex network participation coefficient (d = -0.57, p = 0.014). Network findings in high inflammation subgroups correlate with worse verbal fluency, verbal memory, symbol coding, and overall cognition.

Conclusion
These results expand on our understanding of the potential effects of peripheral inflammatory signatures and/or subgroups on network dysfunction in psychosis and how they relate to worse cognitive performance. Additionally, the novel multiplex approach taken in this study demonstrated how inflammation may disrupt the brain’s ability to maintain healthy co-activation patterns between the resting-state networks while inhibiting certain connections between them.

Perspectives on adaptive dynamical systems published in Chaos

Adaptivity across different scientific disciplines (blue) and applications (yellow) as well as its strong inter- linking and interlocking, similar to a system of gears.
(Image by the Authors of the manuscript)
Perspectives on adaptive dynamical systems
Jakub Sawicki, Rico Berner, Sarah A. M. Loos, Mehrnaz Anvari, Rolf Bader, Wolfram Barfuss, Nicola Botta, Nuria Brede, Igor Franović, Daniel J. Gauthier, Sebastian Goldt, Aida Hajizadeh, Philipp Hövel, Omer Karin, Philipp Lorenz-Spreen, Christoph Miehl, Jan Mölter, Simona Olmi, Eckehard Schöll, Alireza Seif, Peter A. Tass, Giovanni Volpe, Serhiy Yanchuk, Jürgen Kurths
Chaos 33, 071501 (2023)
doi: 10.1063/5.0147231
arXiv: 2303.01459

Adaptivity is a dynamical feature that is omnipresent in nature, socio-economics, and technology. For example, adaptive couplings appear in various real-world systems like the power grid, social, and neural networks, and they form the backbone of closed-loop control strategies and machine learning algorithms. In this article, we provide an interdisciplinary perspective on adaptive systems. We reflect on the notion and terminology of adaptivity in different disciplines and discuss which role adaptivity plays for various fields. We highlight common open challenges, and give perspectives on future research directions, looking to inspire interdisciplinary approaches.

Antonio Ciarlo joins as postdoc the Soft Matter Lab

(Photo by A. Argun.)
Antonio Ciarlo joined as postdoc the Soft Matter Lab on 18th July 2023.

Antonio has a PhD degree in Physics from the University of University of Naples, Italy.

During his postdoc, Antonio will continue his work on the modelling and the analysis of the data of his experiments with intracavity optical trapping.