EndoAbS dataset: Endoscopic abdominal stereo image dataset for benchmarking 3D stereo reconstruction algorithms

Background: 3D reconstruction algorithms are of fundamental importance for augmented reality applications in computer-assisted surgery. However, few datasets of endoscopic stereo images with associated 3D surface references are currently openly available, preventing the proper validation of such algorithms. This work presents a new and rich dataset of endoscopic stereo images (EndoAbS dataset). Methods: The dataset includes (i) endoscopic stereo images of phantom abdominal organs, (ii) a 3D organ surface reference (RF) generated with a laser scanner and (iii) camera calibration parameters. A detailed description of the generation of the phantom and the camera–laser calibration method is also provided. Results: An estimation of the overall error in creation of the dataset is reported (camera–laser calibration error 0.43 mm) and the performance of a 3D reconstruction algorithm is evaluated using EndoAbS, resulting in an accuracy error in accordance with state-of-the-art results (<2 mm). Conclusions: The EndoAbS dataset contributes to an increase the number and variety of openly available datasets of surgical stereo images, including a highly accurate RF and different surgical conditions

EndoAbS dataset: Endoscopic abdominal stereo image dataset for benchmarking 3D stereo reconstruction algorithms

none5siembargoed_20190801Penza, Veronica; Ciullo, Andrea S.; Moccia, Sara; Mattos, Leonardo S.; De Momi, ElenaPenza, Veronica; Ciullo, Andrea S.; Moccia, Sara; Mattos, Leonardo S.; De Momi, Elen

Label-based Optimization of Dense Disparity Estimation for Robotic Single Incision Abdominal Surgery

Minimally invasive surgical techniques have led to novel approaches such as Single Incision Laparoscopic Surgery (SILS), which allows the reduction of post-operative infections and patient recovery time, improving surgical outcomes. However, the new techniques pose also new challenges to surgeons: during SILS, visualization of the surgical field is limited by the endoscope field of view, and the access to the target area is limited by the fact that instruments have to be inserted through a single port. In this context, intra-operative navigation and augmented reality based on pre-operative images have the potential to enhance SILS procedures by providing the information necessary to increase the intervention accuracy and safety. Problems arise when structures of interest change their pose or deform with respect to pre-operative planning, as usually happens in soft tissue abdominal surgery. This requires online estimation of the deformations to correct the pre-operative plan, which can be done, for example, through methods of depth estimation from stereo endoscopic images (3D reconstruction). The denser the reconstruction, the more accurate the deformation identification can be. This work presents an algorithm for 3D reconstruction of soft tissue, focusing on the refinement of the disparity map in order to obtain an accurate and dense point map. This algorithm is part of an assistive system for intra-operative guidance and safety supervision for robotic abdominal SILS . Results show that comparing our method with state-of-the-art CPU implementations, the percentage of valid pixel obtained with our method is 24% higher while providing comparable accuracy. Future research will focus on the development of a real-time implementation of the proposed algorithm, potentially based on a hybrid CPU-GPU processing framework

The OLYMPUS Internal Hydrogen Target

An internal hydrogen target system was developed for the OLYMPUS experiment at DESY, in Hamburg, Germany. The target consisted of a long, thin-walled, tubular cell within an aluminum scattering chamber. Hydrogen entered at the center of the cell and exited through the ends, where it was removed from the beamline by a multistage pumping system. A cryogenic coldhead cooled the target cell to counteract heating from the beam and increase the density of hydrogen in the target. A fixed collimator protected the cell from synchrotron radiation and the beam halo. A series of wakefield suppressors reduced heating from beam wakefields. The target system was installed within the DORIS storage ring and was successfully operated during the course of the OLYMPUS experiment in 2012. Information on the design, fabrication, and performance of the target system is reported.Comment: 9 pages, 13 figure

Creating Climate Resilience by Increasing Flexibility

Governmental Fiscal Performances after Hurricanes in CCRIF-Insured Countrie

Research for REGI Committee – EU tools to respond to natural disasters

This study provides an analysis and assessment of EU tools to respond to natural disasters. Particular attention is paid to the European Union Solidarity Fund and the potential synergies and overlaps with other EU instruments including the Emergency Aid Reserve, the EU Civil Protection Mechanism as well as Cohesion Policy. Also, the recent modifications to the EUSF including the extension to address major public health emergencies as well as the modifications linked to the 2021-2027 programming period are examined. Based on this assessment, policy recommendations are put forward

Whole Exome Sequencing Study of Parkinson Disease and Related Endophenotypes in the Italian Population

Parkinson Disease (PD) is a complex neurodegenerative disorder characterized by large genetic heterogeneity and missing heritability. Since the genetic background of PD can partly vary among ethnicities and neurological scales have been scarcely investigated in a PD setting, we performed an exploratory Whole Exome Sequencing (WES) analysis of 123 PD patients from mainland Italy, investigating scales assessing motor (UPDRS), cognitive (MoCA), and other non-motor symptoms (NMS). We performed variant prioritization, followed by targeted association testing of prioritized variants in 446 PD cases and 211 controls. Then we ran Exome-Wide Association Scans (EWAS) within sequenced PD cases (N = 113), testing both motor and non-motor PD endophenotypes, as well as their associations with Polygenic Risk Scores (PRS) influencing brain subcortical volumes. We identified a variant associated with PD, rs201330591 in GTF2H2 (5q13; alternative T allele: OR [CI] = 8.16[1.08; 61.52], FDR = 0.048), which was not replicated in an independent cohort of European ancestry (1,148 PD cases, 503 controls). In the EWAS, polygenic analyses revealed statistically significant multivariable associations of amygdala- [\u3b2(SE) = -0.039(0.013); FDR = 0.039] and caudate-PRS [0.043(0.013); 0.028] with motor symptoms. All subcortical PRSs in a multivariable model notably increased the variance explained in motor (adjusted-R2 = 38.6%), cognitive (32.2%) and other non-motor symptoms (28.9%), compared to baseline models (~20%). Although, the small sample size warrants further replications, these findings suggest shared genetic architecture between PD symptoms and subcortical structures, and provide interesting clues on PD genetic and neuroimaging features

Age- and sex-related variations in platelet count in Italy: a proposal of reference ranges based on 40987 subjects' data

BACKGROUND AND OBJECTIVES: Although several studies demonstrated that platelet count is higher in women, decreases with age, and is influenced by genetic background, most clinical laboratories still use the reference interval 150-400×10(9) platelets/L for all subjects. The present study was to identify age- and sex-specific reference intervals for platelet count. METHODS: We analysed electronic records of subjects enrolled in three population-based studies that investigated inhabitants of seven Italian areas including six geographic isolates. After exclusion of patients with malignancies, liver diseases, or inherited thrombocytopenias, which could affect platelet count, reference intervals were estimated from 40,987 subjects with the non parametric method computing the 2.5° and 97.5° percentiles. RESULTS: Platelet count was similar in men and women until the age of 14, but subsequently women had steadily more platelets than men. The number of platelets decreases quickly in childhood, stabilizes in adulthood, and further decreases in oldness. The final result of this phenomenon is that platelet count in old age was reduced by 35% in men and by 25% in women compared with early infancy. Based on these findings, we estimated reference intervals for platelet count ×10(9)/L in children (176-452), adult men (141-362), adult women (156-405), old men (122-350) and, old women (140-379). Moreover, we calculated an extended reference interval that takes into account the differences in platelet count observed in different geographic areas. CONCLUSIONS: The age-, sex-, and origin-related variability of platelet count is very wide, and the patient-adapted reference intervals we propose change the thresholds for diagnosing both thrombocytopenia and thrombocytosis in Italy

Toward polarized antiprotons: Machine development for spin-filtering experiments

The paper describes the commissioning of the experimental equipment and the machine studies required for the first spin-filtering experiment with protons at a beam kinetic energy of $49.3\,$MeV in COSY. The implementation of a low-$\beta$ insertion made it possible to achieve beam lifetimes of $\tau_{\rm{b}}=8000\,$s in the presence of a dense polarized hydrogen storage-cell target of areal density $d_{\rm t}=(5.5\pm 0.2)\times 10^{13}\,\mathrm{atoms/cm^{2}}$. The developed techniques can be directly applied to antiproton machines and allow for the determination of the spin-dependent $\bar{p}p$ cross sections via spin filtering

Measuring the Polarization of a Rapidly Precessing Deuteron Beam

This paper describes a time-marking system that enables a measurement of the in-plane (horizontal) polarization of a 0.97-GeV/c deuteron beam circulating in the Cooler Synchrotron (COSY) at the Forschungszentrum J\"ulich. The clock time of each polarimeter event is used to unfold the 120-kHz spin precession and assign events to bins according to the direction of the horizontal polarization. After accumulation for one or more seconds, the down-up scattering asymmetry can be calculated for each direction and matched to a sinusoidal function whose magnitude is proportional to the horizontal polarization. This requires prior knowledge of the spin tune or polarization precession rate. An initial estimate is refined by re-sorting the events as the spin tune is adjusted across a narrow range and searching for the maximum polarization magnitude. The result is biased toward polarization values that are too large, in part because of statistical fluctuations but also because sinusoidal fits to even random data will produce sizeable magnitudes when the phase is left free to vary. An analysis procedure is described that matches the time dependence of the horizontal polarization to templates based on emittance-driven polarization loss while correcting for the positive bias. This information will be used to study ways to extend the horizontal polarization lifetime by correcting spin tune spread using ring sextupole fields and thereby to support the feasibility of searching for an intrinsic electric dipole moment using polarized beams in a storage ring. This paper is a combined effort of the Storage Ring EDM Collaboration and the JEDI Collaboration.Comment: 28 pages, 15 figures, prepared for Physical Review ST - Accelerators and Beam