Force Reconstruction via Maximum-likelihood-estimator (MLE) Analysis (FORMA) preprint on ArXiv

High-Performance Reconstruction of Microscopic Force Fields from Brownian Trajectories

High-Performance Reconstruction of Microscopic Force Fields from Brownian Trajectories
Laura Pérez García, Jaime Donlucas Pérez, Giorgio Volpe, Alejandro V. Arzola & Giovanni Volpe
arXiv: 1808.05468

The accurate measurement of microscopic force fields is crucial in many branches of science and technology, from biophotonics and mechanobiology to microscopy and optomechanics. These forces are often probed by analysing their influence on the motion of Brownian particles. Here, we introduce a powerful algorithm for microscopic Force Reconstruction via Maximum-likelihood-estimator (MLE) Analysis (FORMA) to retrieve the force field acting on a Brownian particle from the analysis of its displacements. FORMA yields accurate simultaneous estimations of both the conservative and non-conservative components of the force field with important advantages over established techniques, being parameter-free, requiring ten-fold less data and executing orders-of- magnitude faster. We first demonstrate FORMA performance using optical tweezers. We then show how, outperforming any other available technique, FORMA can identify and characterise stable and unstable equilibrium points in generic extended force fields. Thanks to its high performance, this new algorithm can accelerate the development of microscopic and nanoscopic force transducers capable of operating with high reliability, speed, accuracy and precision for applications in physics, biology and engineering.

Stability of Brain Graph Measures published in Sci. Rep.

Stability of graph theoretical
measures in structural brain
networks in Alzheimer’s disease

Stability of graph theoretical measures in structural brain networks in Alzheimer’s disease
Gustav Mårtensson, Joana B. Pereira, Patrizia Mecocci, Bruno Vellas, Magda Tsolaki, Iwona Kłoszewska, Hilkka Soininen, Simon Lovestone, Andrew Simmons, Giovanni Volpe & Eric Westman
Scientific Reports 8, 11592 (2018)
DOI: 10.1038/s41598-018-29927-0

Graph analysis has become a popular approach to study structural brain networks in neurodegenerative disorders such as Alzheimer’s disease (AD). However, reported results across similar studies are often not consistent. In this paper we investigated the stability of the graph analysis measures clustering, path length, global efficiency and transitivity in a cohort of AD (N = 293) and control subjects (N = 293). More specifically, we studied the effect that group size and composition, choice of neuroanatomical atlas, and choice of cortical measure (thickness or volume) have on binary and weighted network properties and relate them to the magnitude of the differences between groups of AD and control subjects. Our results showed that specific group composition heavily influenced the network properties, particularly for groups with less than 150 subjects. Weighted measures generally required fewer subjects to stabilize and all assessed measures showed robust significant differences, consistent across atlases and cortical measures. However, all these measures were driven by the average correlation strength, which implies a limitation of capturing more complex features in weighted networks. In binary graphs, significant differences were only found in the global efficiency and transitivity measures when using cortical thickness measures to define edges. The findings were consistent across the two atlases, but no differences were found when using cortical volumes. Our findings merits future investigations of weighted brain networks and suggest that cortical thickness measures should be preferred in future AD studies if using binary networks. Further, studying cortical networks in small cohorts should be complemented by analyzing smaller, subsampled groups to reduce the risk that findings are spurious.

Phototactic Robot Tunable by Sensorial Delays preprint in arXiv

Phototactic Robot Tunable by Sensorial Delays

Phototactic Robot Tunable by Sensorial Delays
Maximilian Leyman, Freddie Ogemark, Jan Wehr & Giovanni Volpe
arXiv: 1807.11765

The presence of a delay between sensing and reacting to a signal can determine the long-term behavior of autonomous agents whose motion is intrinsically noisy.
In a previous work [M. Mijalkov, A. McDaniel, J. Wehr, and G. Volpe, Phys. Rev. X 6, 011008 (2016)], we have shown that sensorial delay can alter the drift and the position probability distribution of an autonomous agent whose speed depends on the illumination intensity it measures. Here, using theory, simulations, and experiments with a phototactic robot, we generalize this effect to an agent for which both speed and rotational diffusion depend on the illumination intensity and are subject to two independent sensorial delays. We show that both the drift and the probability distribution are influenced by the presence of these sensorial delays. In particular, the radial drift may have positive as well as negative sign, and the position probability distribution peaks in different regions depending on the delay.
Furthermore, the presence of multiple sensorial delays permits us to explore the role of the interaction between them.

Review on Optical Tweezers published in J. Quant. Spectrosc. Rad. Transf.

Optical tweezers and their applications

Optical tweezers and their applications
Paolo Polimeno, Alessandro Magazzù, Maria Antonia Iata, Francesco Patti, Rosalba  Saija, Cristian Degli Esposti Boschi, Maria Grazia Donato, Pietro G. Gucciardi, Philip H. Jones, Giovanni Volpe & Onofrio M. Maragò
Journal of Quantitative Spectroscopy and Radiative Transfer 218(October 2018), 131—150 (2018)
DOI: 10.1016/j.jqsrt.2018.07.013

Optical tweezers, tools based on strongly focused light, enable optical trapping, manipulation, and characterisation of a wide range of microscopic and nanoscopic materials. In the limiting cases of spherical particles either much smaller or much larger than the trapping wavelength, the force in optical tweezers separates into a conservative gradient force, which is proportional to the light intensity gradient and responsible for trapping, and a non-conservative scattering force, which is proportional to the light intensity and is generally detrimental for trapping, but fundamental for optical manipulation and laser cooling. For non-spherical particles or at intermediate (meso)scales, the situation is more complex and this traditional identification of gradient and scattering force is more elusive. Moreover, shape and composition can have dramatic consequences for optically trapped particle dynamics. Here, after an introduction to the theory and practice of optical forces with a focus on the role of shape and composition, we give an overview of some recent applications to biology, nanotechnology, spectroscopy, stochastic thermodynamics, critical Casimir forces, and active matter.

Active Atoms and Interstitials published in Phys. Rev. Lett.

Active Atoms and Interstitials in Two-dimensional Colloidal Crystals

Active Atoms and Interstitials in Two-dimensional Colloidal Crystals
Kilian Dietrich, Giovanni Volpe, Muhammad Nasruddin Sulaiman, Damina Renggli, Ivo Buttinoni & Lucio Isa
Physical Review Letters 120(26), 268004 (2018)
DOI: 10.1103/PhysRevLett.120.268004
arXiv: 1710.08680

We study experimentally and numerically the motion of a self-phoretic active particle in two-dimensional loosely packed colloidal crystals at fluid interfaces. Two scenarios emerge depending on the interactions between the active particle and the lattice: the active particle either navigates throughout the crystal as an interstitial or is part of the lattice and behaves as an active atom. Active interstitials undergo a run-and-tumble-like motion, with the passive colloids of the crystal acting as tumbling sites. Instead, active atoms exhibit an intermittent motion, stemming from the interplay between the periodic potential landscape of the passive crystal and the particle’s self-propulsion. Our results constitute the first step towards the realization of non-close-packed crystalline phases with internal activity.

Seminar on non-conservative optical forces in speckle fields by Laura Pérez García from UNAM, Faraday, 26 jun 18

Non conservative optical forces of speckle fields generated with a SLM
Seminar by Laura Pérez García from the Universidad National Autónoma de México (UNAM).

Speckle patterns arise when a highly coherent light source impinges on a rough surface or when it propagates through an inhomogeneous media. This phenomenon appeared after the invention of the laser in the 70’s and, initially was considered as a feature to avoid in optical setups since it limits the imaging resolution. However, speckle patterns can give information about the process that generates it and also can be incorporated by researchers in astronomy, surface characterization, biology, medicine and chemical processes [1, 2, 3]. In particular, speckle has been used in the last years in the area of optical micromanipulation to study the interaction of colloidal particles in random potentials[4, 5]. It is important the use of speckle patterns since it has a wide range of characteristic lengths, optical vortexes and intrinsic robustness to misalignment.

We’ve studied speckle patterns generated by a spatial light modulator (SLM), emphasizing in the intensity distribution, its spatial properties and the dynamical properties of particles subjected to these fields. Specifically, I studied the dynamical behavior of 1.54μm and 1μm spherical polystyrene particles embedded in deionized water in the presence of a speckle light field. We generated the speckle pattern using a 532 nm-wavelength laser which impinged on an SLM, which projected random values for each pixel, and then redirected to an optical micromanipulation system. It is important to mention that, by varying the optical resolution of the system with a diaphragm, we allowed the interference between all the wavefronts.

We analyzed the particle’s trajectories in the overdamped regime as an approximation for the particle dynamics. We didn’t assume the existence of a scalar potential, so we can study the nonconservative nature of the optical forces[6]. Additionally, the mean squared displacement was calculated and com- pared with free diffusion, we observed different regimes, owing to the spatial features in the speckle patterns used.

  1.  J.C. Dainty. Laser speckle and related phenomena. Topics in Applied Physics. Springer-Verlag, 1984.
  2.  J.W. Goodman. Speckle Phenomena in Optics: Theory and Applications. Roberts & Company, 2007.
  3. H.J. Rabal and R.A. Braga. Dynamic Laser Speckle and Applications. Optical Science and Engineering. CRC Press, 2008.
  4. Florian Evers, Christoph Zunke, Richard D L Hanes, J ̈org Bewerunge, Imad Ladadwa, Andreas Heuer, Stefan U. Egelhaaf, Giorgio Giovanni Volpe, Giorgio Giovanni Volpe, and Sylvain Gigan. Particle dynamics in two-dimensional random-energy landscapes: Experiments and simulations. Physical Review E – Statistical, Nonlinear, and Soft Matter Physics, 88(2):3936, 2014.
  5. Giorgio Volpe, Giovanni Volpe, and Sylvain Gigan. Brownian motion in a speckle light field: tunable anomalous diffusion and selective optical manipulation. Scientific Reports, 4:3936, 2014.
  6. Pinyu Wu, Rongxin Huang, Christian Tischer, Alexandr Jonas, and Ernst Ludwig Florin. Direct measurement of the nonconservative force field generated by optical tweezers. Physical Review Letters, 103(10):4–7, 2009.

Place: Faraday room, Fysik Origo, Fysik
Time: 26 June, 2018, 15:00

Seminar on Langevin equation in the small mass limit by Jan Wehr from the University of Arizona, Nexus, 21 Jun 18

Langevin equation in the small mass limit: higher order approximations
Seminar by Jan Wehr from the University of Arizona, Tucson (AZ), USA.

Abstract: We study the Langevin equation describing the motion of a particle of mass m in a potential and/or magnetic field, with state-dependent drift and diffusion.  We develop a hierarchy of approximate equations for the position degrees of freedom that achieve accuracy of order m^{k/2} over finite time intervals for any positive integer k.  This extends the previous work in which effective equations for the position variables were derived in the limit when the mass goes to zero.  The work was done jointly with Jeremiah Birrell.

Place: Nexus, meeting room, Fysik Origo, Fysik
Time: 21 June, 2018, 11:00

Freddie Ogemark & Maximlian Leyman defended their Master Thesis. Congrats!

Freddie Ogemark & Maximlian Leyman defended their Master thesis in Complex Adaptive Systems at Chalmers University of Technology on 14 June 2018

Title: Cooperative Robotics with Sensorial Delay

The purpose of this work is to study how the behaviour of robots changes when the data from their sensors is affected by a certain delay. Robots of the model Elisa-3 were therefore studied while performing Brownian motion and with certain features varying as a function of the intensity measured by its sensors. Introducing a delay and varying its sign is shown to have a significant effect on a robot’s behavior. A single robot moving in an intensity field is either drawn to or avoiding higher inten- sities for a positive or a negative delay respectively. In this case experimental data show good agreement with simulated behavior. Simulations also show that multi- ple robots should form clusters when interacting under the influence of a positive delay; however, only weak tendencies towards cluster formation can be seen in the experiments.

​Name of the master programme: MPCAS – Complex Adaptive Systems
Supervisor: Giovanni Volpe, Department of Physics, University of Gothenburg
Examiner: Giovanni Volpe, Department of Physics, University of Gothenburg
Opponents: Andres Hansson & Richard Sundqvist, MP Complex Adaptive Systems, Department of Physics, Chalmers University of Technology

Place: ES51, EDIT building
Time: 14 June, 2018, 17:00



Viridiana Carmosa Sosa visits the Soft Matter Lab. Welcome!

Viridiana Carmosa Sosa studied her bachelor and master degree in Physics in the National Autonomous University of Mexico. In those years, she was working with optical tweezers, structured laser beams, and cavitation bubbles. Nowadays, she is a PhD student at Sapienza University of Rome under the supervision of Roberto Di Leonardo, where she uses two-photon polymerization to fabricate microstructures that allow her to study the dynamics of active and non-active matter at the micron scale.

She will spend a week at the Soft Matter Lab to work together with Alessandro Magazzù on a joint project.