Miracle-dz/UniFAR-FTUs huggingface dataset:
LORIS: a web-based data management system for multi-center studies

Longitudinal Online Research and Imaging System (LORIS) is a modular and extensible web-based data management system that integrates all aspects of a multi-center study: from heterogeneous data acquisition (imaging, clinical, behavior, and genetics) to storage, processing, and ultimately dissemination. It provides a secure, user-friendly, and streamlined platform to automate the flow of clinical trials and complex multi-center studies. A subject-centric internal organization allows researchers to capture and subsequently extract all information, longitudinal or cross-sectional, from any subset of the study cohort. Extensive error-checking and quality control procedures, security, data management, data querying, and administrative functions provide LORIS with a triple capability (1) continuous project coordination and monitoring of data acquisition (2) data storage/cleaning/querying, (3) interface with arbitrary external data processing “pipelines. ” LORIS is a complete solution that has been thoroughly tested through a full 10 year life cycle of a multi-center longitudinal project1 and is now supporting numerous international neurodevelopment and neurodegeneration research projects.
The nu gene acts cell-autonomously and is required for differentiation of thymic epithelial progenitors.

The nude mutation (nu) causes athymia and hairlessness, but the molecular mechanisms by which it acts have not been determined. To address the role of nu in thymogenesis, we investigated whether all or part of the nude thymic epithelium could be rescued by the presence of wild-type cells in nude <--> wild-type chimeric mice. Detailed immunohistochemical analyses revealed that nude-derived cells could persist in the chimeric thymus but could not contribute to cortical or medullary epithelial networks. Nude-derived cells, present in few clusters in the medulla, expressed markers of a rare subpopulation of adult medullary epithelium. The thymic epithelial rudiment of nude mice strongly expressed these same markers, which may therefore define committed immature thymic epithelial precursor cells. To our knowledge, these data provide the first evidence that the nu gene product acts cell-autonomously and is necessary for the development of all major subpopulations of mature thymic epithelium. We propose that nu acts to regulate growth and/or differentiation, but not determination, of thymic epithelial progenitors.
Hypervisor Support for Identifying Covertly Executing Binaries

Hypervisors have been proposed as a security tool to defend against malware that subverts the OS kernel. However, hypervisors must deal with the semantic gap between the low-level information available to them and the high-level OS abstractions they need for analysis. To bridge this gap, systems have proposed making assumptions derived from the kernel source code or symbol information. Unfortunately, this information is nonbinding - rootkits are not bound to uphold these assumptions and can escape detection by breaking them. In this paper, we introduce Patagonix, a hypervisor-based system that detects and identifies covertly executing binaries without making assumptions about the OS kernel. Instead, Patagonix depends only on the processor hardware to detect code execution and on the binary format specifications of executables to identify code and verify code modifications. With this, Patagonix can provide trustworthy information about the binaries running on a system, as well as detect when a rootkit is hiding or tampering with executing code. We have implemented a Patagonix prototype on the Xen 3.0. 3 hypervisor. Because Patagonix makes no assumptions about the OS kernel, it can identify code from application and kernel binaries on both Linux and Windows XP. Patagonix introduces less than 3% overhead on most applications.
Leisure activity and cognitive decline in incident Alzheimer disease.

BACKGROUND High rates of leisure activity have been associated with reduced risk of Alzheimer disease (AD). OBJECTIVE To determine whether prediagnosis leisure activity modifies the rate of cognitive decline in patients with AD. DESIGN Inception cohort followed up longitudinally for a mean of 5.3 years (up to 13.9 years). SETTING Urban community. PARTICIPANTS A total of 283 patients with incident AD (mean age, 79 years; 56.2% Hispanic and 31.1% African American). MAIN OUTCOME MEASURES Change in a composite cognitive score from diagnosis on and during the entire study follow-up. RESULTS In multivariate-adjusted generalized estimating equation models of postdiagnosis change (n = 133), each leisure activity was associated with an additional yearly decline of 0.005 of a z-score unit in cognitive score (P = .17). In models expanded to include cognitive change during study follow-up, including evaluations before and after diagnosis (n = 283), each activity was associated with an additional yearly decline of 0.005 of a z-score unit in cognitive score (P = .03). The association was strongest for intellectual activities. CONCLUSIONS Greater participation in prediagnosis leisure activities, especially intellectual activities, was associated with faster cognitive decline, supporting the hypothesis that the disease course in AD may vary as a function of cognitive reserve.
Piezoresistive behavior of epoxy matrix‐carbon fiber composites with different reinforcement arrangements

In this work, the self-monitoring capability of epoxy matrix-carbon fiber composites has been studied. Different concentrations and arrangements of reinforcements were used, including random chopped, unidirectional and bi-directional continuous carbon fibers, weaved and nonweaved. Mechanical properties were determined by uniaxial tensile tests. The composite electric to mechanical behavior was established by determining its electrical resistivity variation as a function of the stress-strain curve. It was observed that the composites electrical resistance increased during tensile tests, a trend that indicates piezoresistive behavior. The increase was linear for the chopped reinforced composites, while it exhibits different slopes in the continuous reinforced composites. The initial smaller slope corresponds mainly to separation of the 90° oriented fibers and/or transversal cracking of the matrix, whereas the latter higher slope is caused by fiber fracture. The results demonstrated how each reinforcement configuration exhibited a unique and typical electrical response depending on the specific reinforcement, which might be appropriate either for strain-monitoring or damage-monitoring. © 2008 Wiley Periodicals, Inc. J Appl Polym Sci, 2009
DAG based library-free technology mapping

This paper proposes a library-free technology mapping algorithm to reduce delay in combinational circuits. The algorithm reduces the overall number of series transistors through the longest path, considering that each cell network has to obey to a maximum admitted chain. The number of series transistors is computed in a Boolean way, reducing the structural bias. The mapping algorithm is performed on a Directed Acyclic Graph (DAG) description of the circuit. Preliminary results for delay were obtained through SPICE simulations. When compared to the SIS technology mapping, the proposed method shows significant delay reductions, considering circuits mapped with different libraries.
Stable Convergence Behavior Under Summable Perturbations of a Class of Projection Methods for Convex Feasibility and Optimization Problems

We study the convergence behavior of a class of projection methods for solving convex feasibility and optimization problems. We prove that the algorithms in this class converge to solutions of the consistent convex feasibility problem, and that their convergence is stable under summable perturbations. Our class is a subset of the class of string-averaging projection methods, large enough to contain, among many other procedures, a version of the Cimmino algorithm, as well as the cyclic projection method. A variant of our approach is proposed to approximate the minimum of a convex functional subject to convex constraints. This variant is illustrated on a problem in image processing: namely, for optimization in tomography.
Responses of IL-18- and IL-18 receptor-deficient pancreatic islets with convergence of positive and negative signals for the IL-18 receptor

Pancreatic islets contain cells that produce IL-18 and cells that express IL-18 receptors. In experimentally induced diabetes, islet failure correlates with IL-18 levels and diabetes is delayed with blockade of endogenous IL-18. We studied islet-derived IL-18 and responses to IL-18 in a mouse model of islet allograft transplantation. In vitro, IL-18-stimulated islets produced nitric oxide, which closely matched islet apoptosis. By neutralizing IL-18 activity with IL-18 binding protein (IL-18BP), we observed that islets produce bioactive IL-18. In vivo, transgenic mice overproducing IL-18BP (IL-18BP-Tg) exhibited delayed hyperglycemia induced by β cell toxic streptozotocin. Similarly, cultured IL-18BP-Tg islets were protected from streptozotocin-induced apoptosis. In the transplant model, islets grafted from WT to IL-18BP-Tg mice achieved prolonged normoglycemia (P = 0.031). Improved graft function was also observed by using IL-18-deficient islets transplanted into WT recipients, demonstrating that endogenous, islet-derived IL-18 mediates IL-18-driven graft damage. Unexpectedly, islets from mice deficient in IL-18 receptor α chain (IL-18R) exhibited rapid graft failure (P = 0.024; IL-18- versus IL-18R-deficient grafts in WT recipients). In related studies, IL-18R-deficient splenocytes and macrophages produced 2- to 3-fold greater amounts of IL-18, TNFα, macrophage inflammatory protein 1, macrophage inflammatory protein 2, and IFNγ upon stimulation with Con A, Toll-like receptor 2 agonist, or anti-CD3 antibodies. These data reveal a role for islet-derived IL-18 activity during inflammation-mediated islet injury. Importantly, discrepancies between IL-18- and IL-18R-deficient cells suggest that IL-18Rα chain is used by an inflammation-suppressing signal.
Computational Simulation of Composites Reinforced by Planar Random Fibers: Homogenization and Localization by Unit Cell and Mean Field Approaches

The linear thermoelastic and thermophysical behavior of a short fiber reinforced composite material with planar random fiber arrangement is investigated by advanced numerical and analytical micromechanical methods. On the one hand, finite element based multi-fiber unit cells are introduced that contain 40-50 short fibers in arrangements approximating 2D random orientation distributions. On the other hand, the same fiber arrangements are investigated by an extended Mori-Tanaka mean field approach that can handle both statistical and discrete descriptions of the fiber orientations. Within the Mori-Tanaka scheme average microfields are extracted for individual fibers, and finite-length cylindrical reinforcements are modeled via averaged dilute concentration tensors that are evaluated numerically by finite element analysis. Homogenization and localization are performed for a metal matrix composite consisting of copper, reinforced by 21 vol% of carbon fibers that closely approximate a planar random arrangement. Simulation results on the macroscopic and microscopic linear elastic, thermoelastic, and thermal conductivity responses obtained by the two approaches are compared and excellent agreement is found.
Improved Automated Perimetry Performance in Elderly Subjects after Listening To Mozart

PURPOSE: To evaluate the performance of automated perimetry of elderly subjects naïve to AP after listening to a Mozart sonata. INTRODUCTION: Automated perimetry (AP) is a psychophysical test used to assess visual fields in patients with neurological disorders and glaucoma. In a previous study, Fiorelli et al. showed that young subjects who listened to a Mozart sonata prior to undergoing AP performed better in terms of reliability than those who did not listen to the sonata. METHODS: Fifty-two AP-naïve, normal subjects underwent Automated perimetry (SITA 24-2). The study group (25 subjects) underwent AP after listening to Mozart’s Sonata for Two Pianos in D Major, and the control group (27 subjects) underwent Automated perimetry without prior exposure to the music. RESULTS: The study group had significantly lower false negative rates and a lower visual field reliability score than the controls (P=0.04 and P=0.04, respectively). The test time was shorter for the study group (P=0.03). DISCUSSION: This study shows that elderly subjects, when exposed to the Mozart sonata immediately before AP testing, have lower false negative rates and lower visual field reliability scores when compared with an age- and gender-matched control group. Our results differ from those of Fiorelli et al. who found lower false positive rates and less fixation loss in addition to lower false negative rates. CONCLUSION: Listening to a Mozart sonata seems to improve automated perimetry reliability in elderly subjects.
Rotation rate of Saturn's interior from magnetic field observations

Analysis of magnetic field data from the Pioneer 11, Voyager 1 and Voyager 2 spacecraft produced the first models of Saturn's internal field. One striking feature of these models is the lack of non axisymmetric terms, which poses strong constraints on the dynamo mechanism. Resolution of the internal field using magnetic field data from different epochs is complicated by the uncertainty in our knowledge of the planetary rotation rate. By reanalyzing the flyby data, using modern inversion techniques, we derive the first tentative direct measurement of the rotation rate of the magnetic field. The measured rotation period agrees within 0.6 s with the value obtained from remote radio emission measurements, and its uncertainty is reduced to ±2.4 s. From an inversion of all available magnetic field data, we conclude that it is premature to exclude the presence of non‐axisymmetric terms when describing the internal planetary field, and in particular we find a significant dipole tilt of 0.17°.
An Element-based Approach to XML Retrieval

paper describes the INEX 2003 participation of the Language & Inference Technology group of the University of Amsterdam. We participated in all three of the tasks, content-only, strict content- and-structure and vague content-and-structure. Our main strategic lines were to find the appropriate units of retrieval and to mix evi- dence from several layers in the XML hierarchy.
Identity-Based Encryption with Outsourced Revocation in Cloud Computing

Identity-Based Encryption (IBE) which simplifies the public key and certificate management at Public Key Infrastructure (PKI) is an important alternative to public key encryption. However, one of the main efficiency drawbacks of IBE is the overhead computation at Private Key Generator (PKG) during user revocation. Efficient revocation has been well studied in traditional PKI setting, but the cumbersome management of certificates is precisely the burden that IBE strives to alleviate. In this paper, aiming at tackling the critical issue of identity revocation, we introduce outsourcing computation into IBE for the first time and propose a revocable IBE scheme in the server-aided setting. Our scheme offloads most of the key generation related operations during key-issuing and key-update processes to a Key Update Cloud Service Provider, leaving only a constant number of simple operations for PKG and users to perform locally. This goal is achieved by utilizing a novel collusion-resistant technique: we employ a hybrid private key for each user, in which an AND gate is involved to connect and bound the identity component and the time component. Furthermore, we propose another construction which is provable secure under the recently formulized Refereed Delegation of Computation model. Finally, we provide extensive experimental results to demonstrate the efficiency of our proposed construction.
On the definition of a criterion of immunogenicity

The main objective of immunology is to establish why and when an immune response occurs, that is, to determine a criterion of immunogenicity. According to the consensus view, the proper criterion of immunogenicity lies in the discrimination between self and nonself. Here we challenge this consensus by suggesting a simpler and more comprehensive criterion, the criterion of continuity. Moreover, we show that this criterion may be considered as an interpretation of the immune “self. ” We conclude that immunologists can continue to speak of the self, provided that they admit that the self/nonself discrimination is not an adequate criterion of immunogenicity.
Evaluation of a tandem gas chromatography/time-of-flight mass spectrometry metabolomics platform as a single method to investigate the effect of starvation on whole-animal metabolism in rainbow trout (Oncorhynchus mykiss)

SUMMARY This study was conducted to evaluate the use of a two-dimensional gas chromatography/time-of-flight mass spectrometry (GC×GC/TOF-MS) metabolomic platform to comprehensively analyze the effect of starvation on whole-animal metabolism in rainbow trout (Oncorhynchus mykiss). Trout were either fed a commercial diet at 2% body mass twice daily or starved for 4 weeks. Metabolomic analysis was conducted on serum, liver and muscle tissue from each fish. Database searching and statistical analysis revealed that concentrations of more than 50 positively identified molecules changed significantly (P<0.05) as a result of starvation. Our results indicate that starving rainbow trout for 4 weeks promotes increased utilization of select tissue fatty acids in liver and muscle. However, starvation did not significantly affect protein catabolism in peripheral tissues, as indicated by reductions in the level of serum amino acids in starved fish. In contrast, starvation appears to promote protein catabolism in liver as the level of methionine, proline and lysine metabolite 2-piperidine carboxylic acid increased significantly. Also, starvation resulted in significant changes in the level of numerous xenobiotics that could indicate the origin of particular feed ingredients and selective retention of these molecules in tissues. We suggest that metabolomic analysis using GC×GC/TOF-MS is an effective tool in studying whole-animal metabolism and the fate of important xenobiotic compounds in rainbow trout as numerous polar and non-polar metabolites were rapidly and accurately profiled using a single method.
Gait feature selection in walker-assisted gait using NSGA-II and SVM hybrid algorithm

Nowadays, walkers are prescribed based on subjective standards that lead to incorrect indication of such devices to patients. This leads to the increase of dissatisfaction and occurrence of discomfort and fall events. Therefore, it is necessary to objectively evaluate the effects that walker can have on the gait patterns of its users, comparatively to non-assisted gait. A gait analysis, focusing on spatiotemporal and kinematics parameters, will be issued for this purpose. However, gait analysis yields redundant information and this study addresses this problem by selecting the most relevant gait features required to differentiate between assisted and non-assisted gait. In order to do this, it is proposed an approach that combines multi-objective genetic and support vector machine algorithms to discriminate differences. Results with healthy subjects have shown that the main differences are characterized by balance and joints excursion. Thus, one can conclude that this technique is an efficient feature selection approach.
Why Temporal Locality Matters: Evaluating Cache Performance for Content-on-Demand Distribution

The dimensioning of caching systems represents a difﬁcult task in the design of infrastructures for content distribution in the current Internet. Any performance evaluation study, either analytical or simulative, requires, in the ﬁrst place, to incorporate a realistic arrival process of contents’ requests generated by users. The goal of this paper is two-fold: ﬁrst, with the help of Youtube traces collected inside operational residential networks, we identify which characteristics of real trafﬁc need to be taken into account for an accurate prediction of cache performance, and which, instead, can be neglected; second, we propose a new, parsimonious trafﬁc model, named Shot Noise Model (SNM), which natively captures the dynamics of contents’ popularity, providing a much better solution to account for the temporal locality in the trafﬁc than existing approaches. Our SNM is sufﬁciently simple to be effectively employed in both analytical and scalable simulative studies of caching systems.
Influence of narrowband ultraviolet-B phototherapy on plasma concentration of matrix metalloproteinase-12 in psoriatic patients

Introduction Matrix metalloproteinase-12 (MMP-12) may play an important role in the pathogenesis and spread of psoriatic disease. Aim To investigate plasma levels of the selected enzyme in plaque psoriasis patients before and after the course of narrowband UVB (NBUVB) therapy with respect to disease advancement. Material and methods The cohort included 49 patients suffering from plaque psoriasis, divided into groups according to severity of the disease. The control group consisted of 40 healthy volunteers. Plasma levels of MMP-12 were determined using immunoenzyme assay (ELISA), while the Psoriasis Area and Severity Index (PASI) was used to define disease advancement. Results The results have shown a significantly decreased plasma level of MMP-12 in the total psoriasis patient group compared to healthy individuals, declining with the increase in disease advancement. The NBUVB therapy caused a decrease in the concentration of the analyzed enzyme, but this change was not statistically significant in the total group of psoriatic patients, while a significant change was detected in patients with a mild advancement of the disease. Conclusions Decreased synthesis of MMP-12 may lead to the stimulation of the epidermal angiogenesis process, which results in the appearance and spread of psoriatic scales. Based on the obtained results, macrophage metalloelastase seems to be a negatively reacting plasma biomarker of the studied disease.
Biomechanical assessment of a novel tendon junction

The Pulvertaft weave has been the standard tendon junction technique used both in tendon transfers and tendon grafts. A limitation of this repair is the sequential failure of stabilizing sutures, rather than the tendon. A novel loop weave is described and compared with the Pulvertaft weave in biomechanical performance. Ovine deep flexor and extensor tendons were used to simulate Pulvertaft or loop weaves (n = 11) for tensile testing. The Pulvertaft weaves failed at the stabilizing sutures, whereas the loop weaves repairs failed by longitudinal splitting of the motor tendon. The loop weave demonstrated significantly higher mean initial failure and ultimate strengths. Tensile loads required to elongate the loop weave by 4, 6, and 8 mm were significantly higher, while more displacement was associated with the Pulvertaft repair under the application of 50, 75, and 100 N tensile loads. This study demonstrates favourable biomechanical characteristics of the new loop weave technique.
A data analysis competition to evaluate machine learning algorithms for use in brain-computer interfaces

We present three datasets that were used to conduct an open competition for evaluating the performance of various machine-learning algorithms used in brain-computer interfaces. The datasets were collected for tasks that included: 1) detecting explicit left/right (L/R) button press; 2) predicting imagined L/R button press; and 3) vertical cursor control. A total of ten entries were submitted to the competition, with winning results reported for two of the three datasets.