Coercive Region-level Registration for Multi-modal Images

We propose a coercive approach to simultaneously register and segment multi-modal images which share similar spatial structure. Registration is done at the region level to facilitate data fusion while avoiding the need for interpolation. The algorithm performs alternating minimization of an objective function informed by statistical models for pixel values in different modalities. Hypothesis tests are developed to determine whether to refine segmentations by splitting regions. We demonstrate that our approach has significantly better performance than the state-of-the-art registration and segmentation methods on microscopy images.Comment: This work has been accepted to International Conference on Image Processing (ICIP) 201

Towards ultra-high resolution 3D reconstruction of a whole rat brain from 3D-PLI data

3D reconstruction of the fiber connectivity of the rat brain at microscopic scale enables gaining detailed insight about the complex structural organization of the brain. We introduce a new method for registration and 3D reconstruction of high- and ultra-high resolution (64 $\mu$m and 1.3 $\mu$m pixel size) histological images of a Wistar rat brain acquired by 3D polarized light imaging (3D-PLI). Our method exploits multi-scale and multi-modal 3D-PLI data up to cellular resolution. We propose a new feature transform-based similarity measure and a weighted regularization scheme for accurate and robust non-rigid registration. To transform the 1.3 $\mu$m ultra-high resolution data to the reference blockface images a feature-based registration method followed by a non-rigid registration is proposed. Our approach has been successfully applied to 278 histological sections of a rat brain and the performance has been quantitatively evaluated using manually placed landmarks by an expert.Comment: 9 pages, Accepted at 2nd International Workshop on Connectomics in NeuroImaging (CNI), MICCAI'201

Image registration algorithm for molecular tagging velocimetry applied to unsteady flow in Hele-Shaw cell

In order to develop velocimetry methods for confined geometries, we propose to combine image registration and volumetric reconstruction from a monocular video of the draining of a Hele-Shaw cell filled with water. The cell’s thickness is small compared to the other two dimensions (e.g. 1x400 x 800 mm3). We use a technique known as molecular tagging which consists in marking by photobleaching a pattern in the fluid and then tracking its deformations. The evolution of the pattern is filmed with a camera whose principal axis coincides with the cell’s gap. The velocity of the fluid along this direction is not constant. Consequently, tracking the pattern cannot be achieved with classical methods because what is observed is the integral of the marked molecules over the entire cell’s gap. The proposed approach is built on top of direct image registration that we extend to specifically model the volumetric image formation. It allows us to accurately measure the motion and the velocity profiles for the entire volume (including the cell’s gap) which is something usually hard to achieve. The results we obtained are consistent with the theoretical hydrodynamic behaviour for this flow which is known as the Poiseuille flow

A PUF-and biometric-based lightweight hardware solution to increase security at sensor nodes

Security is essential in sensor nodes which acquire and transmit sensitive data. However, the constraints of processing, memory and power consumption are very high in these nodes. Cryptographic algorithms based on symmetric key are very suitable for them. The drawback is that secure storage of secret keys is required. In this work, a low-cost solution is presented to obfuscate secret keys with Physically Unclonable Functions (PUFs), which exploit the hardware identity of the node. In addition, a lightweight fingerprint recognition solution is proposed, which can be implemented in low-cost sensor nodes. Since biometric data of individuals are sensitive, they are also obfuscated with PUFs. Both solutions allow authenticating the origin of the sensed data with a proposed dual-factor authentication protocol. One factor is the unique physical identity of the trusted sensor node that measures them. The other factor is the physical presence of the legitimate individual in charge of authorizing their transmission. Experimental results are included to prove how the proposed PUF-based solution can be implemented with the SRAMs of commercial Bluetooth Low Energy (BLE) chips which belong to the communication module of the sensor node. Implementation results show how the proposed fingerprint recognition based on the novel texture-based feature named QFingerMap16 (QFM) can be implemented fully inside a low-cost sensor node. Robustness, security and privacy issues at the proposed sensor nodes are discussed and analyzed with experimental results from PUFs and fingerprints taken from public and standard databases.Ministerio de Economía, Industria y Competitividad TEC2014-57971-R, TEC2017-83557-

A surgical system for automatic registration, stiffness mapping and dynamic image overlay

In this paper we develop a surgical system using the da Vinci research kit (dVRK) that is capable of autonomously searching for tumors and dynamically displaying the tumor location using augmented reality. Such a system has the potential to quickly reveal the location and shape of tumors and visually overlay that information to reduce the cognitive overload of the surgeon. We believe that our approach is one of the first to incorporate state-of-the-art methods in registration, force sensing and tumor localization into a unified surgical system. First, the preoperative model is registered to the intra-operative scene using a Bingham distribution-based filtering approach. An active level set estimation is then used to find the location and the shape of the tumors. We use a recently developed miniature force sensor to perform the palpation. The estimated stiffness map is then dynamically overlaid onto the registered preoperative model of the organ. We demonstrate the efficacy of our system by performing experiments on phantom prostate models with embedded stiff inclusions.Comment: International Symposium on Medical Robotics (ISMR 2018

Towards automated visual flexible endoscope navigation

Background:\ud The design of flexible endoscopes has not changed significantly in the past 50 years. A trend is observed towards a wider application of flexible endoscopes with an increasing role in complex intraluminal therapeutic procedures. The nonintuitive and nonergonomical steering mechanism now forms a barrier in the extension of flexible endoscope applications. Automating the navigation of endoscopes could be a solution for this problem. This paper summarizes the current state of the art in image-based navigation algorithms. The objectives are to find the most promising navigation system(s) to date and to indicate fields for further research.\ud Methods:\ud A systematic literature search was performed using three general search terms in two medical–technological literature databases. Papers were included according to the inclusion criteria. A total of 135 papers were analyzed. Ultimately, 26 were included.\ud Results:\ud Navigation often is based on visual information, which means steering the endoscope using the images that the endoscope produces. Two main techniques are described: lumen centralization and visual odometry. Although the research results are promising, no successful, commercially available automated flexible endoscopy system exists to date.\ud Conclusions:\ud Automated systems that employ conventional flexible endoscopes show the most promising prospects in terms of cost and applicability. To produce such a system, the research focus should lie on finding low-cost mechatronics and technologically robust steering algorithms. Additional functionality and increased efficiency can be obtained through software development. The first priority is to find real-time, robust steering algorithms. These algorithms need to handle bubbles, motion blur, and other image artifacts without disrupting the steering process

Pedestrian Flow Simulation Validation and Verification Techniques

For the verification and validation of microscopic simulation models of pedestrian flow, we have performed experiments for different kind of facilities and sites where most conflicts and congestion happens e.g. corridors, narrow passages, and crosswalks. The validity of the model should compare the experimental conditions and simulation results with video recording carried out in the same condition like in real life e.g. pedestrian flux and density distributions. The strategy in this technique is to achieve a certain amount of accuracy required in the simulation model. This method is good at detecting the critical points in the pedestrians walking areas. For the calibration of suitable models we use the results obtained from analyzing the video recordings in Hajj 2009 and these results can be used to check the design sections of pedestrian facilities and exits. As practical examples, we present the simulation of pilgrim streams on the Jamarat bridge. The objectives of this study are twofold: first, to show through verification and validation that simulation tools can be used to reproduce realistic scenarios, and second, gather data for accurate predictions for designers and decision makers.Comment: 19 pages, 10 figure