Miracle-dz/UniFAR-FTUs huggingface dataset:
Functional Reorganization of the Brain in Humans Following Spinal Cord Injury: Evidence for Underlying Changes in Cortical Anatomy

Loss of somatosensory drive results in functional reorganization of the primary somatosensory cortex (SI). While the phenomenon of functional cortical reorganization is well established, it remains unknown whether in humans, functional reorganization results from changes in brain anatomy, or simply reflects an unmasking of already existing dormant synapses. In 20 subjects with complete thoracic spinal cord injuries (SCIs) and 23 controls, we used functional and structural magnetic resonance imaging to determine whether SI reorganization was associated with changes in SI anatomy. SCI resulted in a significant SI reorganization, with the little finger representation moving medially toward the lower body representation (i.e., area of sensory loss). Furthermore, although SCI was associated with gray matter volume loss in the lower body representation, this loss was minimized as reorganization increased. That is, the greater the medial shift in little finger representation, the greater the gray matter preservation in the lower body representation. In addition, in the region of greatest SI reorganization (little finger), fractional anisotropy was correlated with SI reorganization. That is, as SI reorganization increased, the extent of aligned structures decreased. Finally, although thalamocortical fibers remained unchanged, the ease and direction of water movement within the little finger representation was altered, being directed more toward the midline in SCI subjects. These data show that SI reorganization following SCI is associated with changes in SI anatomy and provide compelling evidence that SI reorganization in humans results from the growth of new lateral connections, and not simply from the unmasking of already existing lateral connections.
The effect of vitamin D on clinical manifestations and activity of Behçet’s disease

Introduction Immune mechanisms have been implemented to have a role in the pathogenesis of Behçet’s disease (BD) and vitamin D has been shown to have a regulatory role in the immune system function. Aim To evaluate the vitamin D levels of BD patients and its relationship between clinical findings and disease activity of BD. Material and methods Sixty-eight patients with BD and 70 age- and sex-matched controls were examined retrospectively. Demographic features, vitamin D levels for both groups and clinical findings, disease activity, drug usage for BD patients were examined from their medical reports. Disease activity was calculated for each patient according to Krause’s BD activity assessment. Results Mean vitamin D levels of patients and controls were 15.35 ±7.18 ng/ml and 18.44 ±5.79 ng/ml, respectively. Vitamin D levels were significantly lower in BD patients than in controls (p = 0.006). Mean vitamin D levels of active and inactive BD cases were 15.68 ±7.31 ng/ml and 15.08 ±7.17 ng/ml, respectively (p = 0.73). Disease activity of patients using and not using vitamin D was similar (p = 0.51). Conclusions Significantly lower levels of vitamin D were observed in BD patients. Our results indicate that there is no correlation between BD activity and a vitamin D level. Together with these, vitamin D replacement treatment was found to have no effect on disease activity.
Nearest Neighbor Clustering: A Baseline Method for Consistent Clustering with Arbitrary Objective Functions

Clustering is often formulated as a discrete optimization problem. The objective is to find, among all partitions of the data set, the best one according to some quality measure. However, in the statistical setting where we assume that the finite data set has been sampled from some underlying space, the goal is not to find the best partition of the given sample, but to approximate the true partition of the underlying space. We argue that the discrete optimization approach usually does not achieve this goal, and instead can lead to inconsistency. We construct examples which provably have this behavior. As in the case of supervised learning, the cure is to restrict the size of the function classes under consideration. For appropriate "small" function classes we can prove very general consistency theorems for clustering optimization schemes. As one particular algorithm for clustering with a restricted function space we introduce "nearest neighbor clustering". Similar to the k-nearest neighbor classifier in supervised learning, this algorithm can be seen as a general baseline algorithm to minimize arbitrary clustering objective functions. We prove that it is statistically consistent for all commonly used clustering objective functions.
PIPINO: A Software Package to Facilitate the Identification of Protein-Protein Interactions from Affinity Purification Mass Spectrometry Data

The functionality of most proteins is regulated by protein-protein interactions. Hence, the comprehensive characterization of the interactome is the next milestone on the path to understand the biochemistry of the cell. A powerful method to detect protein-protein interactions is a combination of coimmunoprecipitation or affinity purification with quantitative mass spectrometry. Nevertheless, both methods tend to precipitate a high number of background proteins due to nonspecific interactions. To address this challenge the software Protein-Protein-Interaction-Optimizer (PIPINO) was developed to perform an automated data analysis, to facilitate the selection of bona fide binding partners, and to compare the dynamic of interaction networks. In this study we investigated the STAT1 interaction network and its activation dependent dynamics. Stable isotope labeling by amino acids in cell culture (SILAC) was applied to analyze the STAT1 interactome after streptavidin pull-down of biotagged STAT1 from human embryonic kidney 293T cells with and without activation. Starting from more than 2,000 captured proteins 30 potential STAT1 interaction partners were extracted. Interestingly, more than 50% of these were already reported or predicted to bind STAT1. Furthermore, 16 proteins were found to affect the binding behavior depending on STAT1 phosphorylation such as STAT3 or the importin subunits alpha 1 and alpha 6.
Cardiac Sympathetic Nervous Activit in Congestive Heart Failure Evidence for Increased Neuronal Norepinephrine Release and Preserved Neuronal Uptake

BackgroundIncreased concentrations of norepinephrine in coronary sinus plasma reported in congestive heart failure (CHF) could result from increased cardiac sympathetic nerve firing and norepinephrine release or from failure of neuronal uptake mechanisms to recapture released norepinephrine. We have applied neurochemical indexes of cardiac sympathetic nerve function in heart failure patients to delineate the underlying neural pathophysiology. Methods and ResultsCardiac norepinephrine synthesis, assessed from the cardiac overflow of the norepinephrine precursor dihydroxyphenylalanine (DOPA), intraneuronal metabolism estimated from the overflow of the intraneuronal metabolite dihydroxyphenylglycol (DHPG), neuronal norepinephrine reuptake assessed from the fractional extraction of plasma-tritiated norepinephrine and production of tritiated DHPG across the heart, and norepinephrine spillover to plasma were examined in eight patients with CHF caused by coronary artery disease (left ventricular ejection fraction of 26±5%, meantSEM) and 14 age-matched healthy subjects. Cardiac norepinephrine spillover was increased eightfold in CHF subjects (127 ng/min versus 14 ng/min in healthy subjects; standard error of the difference [SED], 8 ng/min; P<.002), and cardiac DOPA was increased twofold (P<.02). The fractional extraction of tritiated norepinephrine across the heart was marginally less in CHF subjects (0.63 versus 0.73 in normal subjects; SED, 0.02), but the extent to which pharmacological neuronal uptake blockade with desipramine reduced the cardiac extraction of tritiated norepinephrine (by 71% versus 73% in normal subjects) and reduced the production of tritiated DHPG derived from uptake and intraneuronal metabolism of tritiated norepinephrine was similar in CHF patients and healthy subjects. ConclusionsThe marked increase in norepinephrine spillover from the heart in CHF attributable to coronary artery disease results primarily from an increase in sympathetic nerve firing and neuronal release of norepinephrine, not from faulty neuronal reuptake of norepinephrine.
Encrypted polar codes for wiretap channel

The wiretap channel proposed by Wyner is an important model of physical layer for security, where the channel between legal users (Alice and Bob) is called the main channel and the channel between eavesdropper and legal users is called eavesdropping channel. The channel coding technique has proven to good means to ensure the security of the Wyner wiretap channel. Recently, polar codes attract a lot of attentions due to their capacity-achieving property. In this paper, we propose a novel construction method for achieving more large secrecy capacity of wiretap channel with polar codes. In the scheme, we integrate encryption algorithm to the construction of polar code and prove the validity, reliability, and security of the proposed scheme in theory. Later, we present the transmission rate of the scheme by numerical simulations. The numerical simulation results show that the secrecy transmission rate can be improved significantly and a larger secrecy transmission rate could be achieved by the proposed scheme.
Road-map assisted ground moving target tracking

Tracking ground targets with airborne GMTI (ground moving target indicator) sensor measurements proves to be a challenging task due to high target density, high clutter, and low visibility. The exploitation of nonstandard background information such as road maps and terrain information is therefore highly desirable for the enhancement of track quality and track continuity. The present paper presents a Bayesian approach to incorporate such information consistently. It is particularly suited to deal with winding roads and networks of roads. The target dynamics is modeled in quasi one-dimensional road coordinates and mapped onto ground coordinates using linear road segments taking road map errors into account. The case of several intersecting roads with different characteristics, such as mean curvature, slope, or visibility, is treated within an interacting multiple model (IMM) scheme. Targets can be masked both by the clutter notch of the sensor and by terrain obstacles. Both effects are modeled using a sensor-target state dependent detection probability. The iterative filter equations are formulated within a framework of Gaussian sum approximations on the one hand and a particle filter approach on the other hand. Simulation results for single targets taken from a realistic ground scenario show strongly reduced target location errors compared with the case of neglecting road-map information. By modeling the clutter notch of the GMTI sensor, early detection of stopping targets is demonstrated
The Position of Aβ22−40 and Aβ1−42 in Anionic Lipid Membranes Containing Cholesterol

Amyloid-β peptides interact with cell membranes in the human brain and are associated with neurodegenerative diseases, such as Alzheimer’s disease. An emerging explanation of the molecular mechanism, which results in neurodegeneration, places the cause of neurotoxicity of the amyloid-β peptides on their potentially negative interaction with neuronal membranes. It is known that amyloid-β peptides interact with the membrane, modifying the membrane’s structural and dynamic properties. We present a series of X-ray diffraction experiments on anionic model lipid membranes containing various amounts of cholesterol. These experiments provide experimental evidence for an interaction of both the full length amyloid-β1−42 peptide, and the peptide fragment amyloid-β22−40 with anionic bilayer containing cholesterol. The location of the amyloid-β peptides was determined from these experiments, with the full length peptide embedding into the membrane, and the peptide fragment occupying 2 positions—on the membrane surface and embedded into the membrane core.
Pannexin 1 Channels Link Chemoattractant Receptor Signaling to Local Excitation and Global Inhibition Responses at the Front and Back of Polarized Neutrophils*

Background: Chemotaxis requires excitatory and inhibitory signals at the front and back of cells. PANX1 and P2Y2 receptors provide local excitation at the front. Results: We found that PANX1 triggers A2A receptor activation and inhibits chemotactic signaling at the back. Conclusion: PANX1 thus integrates excitatory and inhibitory signals that regulate chemotaxis at the front and back of cells. Significance: These findings suggest new strategies to modulate neutrophil chemotaxis. Neutrophil chemotaxis requires excitatory signals at the front and inhibitory signals at the back of cells, which regulate cell migration in a chemotactic gradient field. We have previously shown that ATP release via pannexin 1 (PANX1) channels and autocrine stimulation of P2Y2 receptors contribute to the excitatory signals at the front. Here we show that PANX1 also contributes to the inhibitory signals at the back, namely by providing the ligand for A2A adenosine receptors. In resting neutrophils, we found that A2A receptors are uniformly distributed across the cell surface. In polarized cells, A2A receptors redistributed to the back where their stimulation triggered intracellular cAMP accumulation and protein kinase A (PKA) activation, which blocked chemoattractant receptor signaling. Inhibition of PANX1 blocked A2A receptor stimulation and cAMP accumulation in response to formyl peptide receptor stimulation. Treatments that blocked endogenous A2A receptor signaling impaired the polarization and migration of neutrophils in a chemotactic gradient field and resulted in enhanced ERK and p38 MAPK signaling in response to formyl peptide receptor stimulation. These findings suggest that chemoattractant receptors require PANX1 to trigger excitatory and inhibitory signals that synergize to fine-tune chemotactic responses at the front and back of neutrophils. PANX1 channels thus link local excitatory signals to the global inhibitory signals that orchestrate chemotaxis of neutrophils in gradient fields.
Extracting the discussion structure in comments on news-articles

Several on-line daily newspapers offer readers the opportunity to directly comment on articles. In the Netherlands this feature is used quite often and the quality (grammatically and content-wise) is surprisingly high. We develop techniques to collect, store, enrichand analyze these comments. After giving a high-level overview of the Dutch 'commentosphere' we zoom in on extracting the discussion structure found in flat comment threads; people not only comment on the news article, they also heavily comment on other comments, resembling discussion fora. We show how techniques from information retrieval, natural language processing and machine learning can be used to extract the 'reacts-on' relation between comments with high precision and recall.
Cluster Correlation in Mixed Models

We evaluate the dependence of the cluster correlation length, rc, on the mean intercluster separation, Dc, for three models with critical matter density, vanishing vacuum energy (Λ = 0), and COBE normalization: a tilted cold dark matter (tCDM) model (n = 0.8) and two blue mixed models with two light massive neutrinos, yielding Ωh = 0.26 and 0.14 (MDM1 and MDM2, respectively). All models approach the observational value of σ8 (and hence the observed cluster abundance) and are consistent with the observed abundance of damped Lyα systems. Mixed models have a motivation in recent results of neutrino physics; they also agree with the observed value of the ratio σ8/σ25, yielding the spectral slope parameter Γ, and nicely fit Las Campanas Redshift Survey (LCRS) reconstructed spectra. We use parallel AP3M simulations, performed in a wide box (of side 360 h-1 Mpc) and with high mass and distance resolution, enabling us to build artificial samples of clusters, whose total number and mass range allow us to cover the same Dc interval inspected through Automatic Plate Measuring Facility (APM) and Abell cluster clustering data. We find that the tCDM model performs substantially better than n = 1 critical density CDM models. Our main finding, however, is that mixed models provide a surprisingly good fit to cluster clustering data.
Finding Frequent Structures in XML Stream Data

The XML data of continuous stream type are popular in network application through the internet. And also there are researches related to query processing for streaming XML data. As a basic research to efficiently query, we propose not only a labeled ordered tree model representing the XML but also a mining method to extract frequent structures from streaming XML data. That is, XML data to continuously be inputted are modeled by a stream tree which is called XFP_tree and we exactly extract the frequent structures from the XFP_tree of current window to mine recent data. The proposed method can be applied to the basis of the query processing and index method for XML stream data.
Iron absorption by heterozygous carriers of the HFE C282Y mutation associated with hemochromatosis.

BACKGROUND Research conducted before genotyping was possible suggested that subjects heterozygous for the genetic mutation associated with hemochromatosis absorbed nonheme iron more efficiently than did control subjects when tested with a fortified meal. Heme-iron absorption in these subjects has not been reported. OBJECTIVE We compared the absorption of heme and nonheme iron from minimally or highly fortified test meals between HFE C282Y-heterozygous and wild-type control subjects. DESIGN After prospective genotyping of 256 healthy volunteers, 11 C282Y-heterozygous and 12 wild-type control subjects were recruited, and their iron absorption was compared by using a hamburger test meal with or without added iron and ascorbic acid. After retrospective genotyping of 103 participants in previous iron-absorption studies, 5 C282Y-heterozygous subjects were compared with 72 wild-type control subjects. RESULTS HFE C282Y-heterozygous subjects did not differ significantly from wild-type control subjects in their absorption of either heme or nonheme iron from minimally or highly fortified test meals. No differences were detected in blood indexes of iron status (including serum ferritin, transferrin saturation, and non-transferrin-bound iron) or in blood lipids or transaminases, but heterozygotes had significantly greater, although normal, fasting glucose concentrations than did wild-type control subjects. Compound heterozygotes (those who had both HFE C282Y and H63D mutations) absorbed more nonheme (but not heme) iron from meals with high (but not low) iron bioavailability. CONCLUSIONS HFE C282Y-heterozygous subjects did not absorb dietary iron more efficiently, even when foods were highly fortified with iron from ferrous sulfate and ascorbic acid, than did control subjects. Iron fortification of foods should not pose an additional health risk to HFE C282Y heterozygotes.
Automated weighing by sequential inference in dynamic environments

We demonstrate sequential mass inference of a suspended bag of milk powder from simulated measurements of the vertical force component at the pivot while the bag is being filled. We compare the predictions of various sequential inference methods both with and without a physics model to capture the system dynamics. We find that non-augmented and augmented-state unscented Kalman filters (UKFs) in conjunction with a physics model of a pendulum of varying mass and length provide rapid and accurate predictions of the milk powder mass as a function of time. The UKFs outperform the other method tested - a particle filter. Moreover, inference methods which incorporate a physics model outperform equivalent algorithms which do not.
IT Outsourcing in Tourism Businesses in the UK: Decision-Making Approach

As sophistication and complexity in information technology (IT) increases, organisations are discovering difficulties in managing their information systems efficiently and effectively for commercial success. The access to state-of-the-art technologies has accelerated the need for different approaches to managing IT resources. Companies increasingly perceive IT outsourcing as a necessary organisational resource-acquisition venture, and tourism enterprises are not an exception. This paper is based on a recent research study into IT outsourcing in tourism businesses. It investigates the attitudes towards IT outsourcing in the industry, identifies the benefits sought from outsourcing arrangements and the results achieved, and based on how the benefits and detriments of outsourcing are measured and justified, evaluates the ‘quality’ of IT outsourcing decision-making. The research is theoretically supported, drawing reference to general published literature on outsourcing and linking this to observations arising from the findings based on a survey of managers and those involved in IT decisions in 56 tourism organisations in the UK.
On Lifetime-Based Node Failure and Stochastic Resilience of Decentralized Peer-to-Peer Networks

To model P2P networks that are commonly faced with high rates of churn and random departure decisions by end-users, this paper investigates the resilience of random graphs to lifetime-based node failure and derives the expected delay before a user is forcefully isolated from the graph and the probability that this occurs within his/her lifetime. Using these metrics, we show that systems with heavy-tailed lifetime distributions are more resilient than those with light-tailed (e.g., exponential) distributions and that for a given average degree, k-regular graphs exhibit the highest level of fault tolerance. As a practical illustration of our results, each user in a system with n = 100 billion peers, 30-minute average lifetime, and 1-minute node-replacement delay can stay connected to the graph with probability 1 - 1/n using only 9 neighbors. This is in contrast to 37 neighbors required under previous modeling efforts. We finish the paper by observing that many P2P networks are almost surely (i.e., with probability 1 - o(1)) connected if they have no isolated nodes and derive a simple model for the probability that a P2P system partitions under churn.
Green tea consumption and risk of stomach cancer: A meta‐analysis of epidemiologic studies

This meta‐analysis investigated the quantitative association between the consumption of green tea and the risk of stomach cancer in epidemiologic studies using crude data and adjusted data. We searched MEDLINE, EMBASE and the Cochrane Review in August 2007. All the articles searched were independently reviewed and selected by 3 evaluators according to predetermined criteria. A total of 13 epidemiologic studies were included. When all the case–control and cohort studies were pooled, the relative risks (RR) of stomach cancer for the highest level of green tea consumption when compared with the lowest level of consumption were shown to be 1.10 (95% confidence interval (CI), 0.92–1.32) using the crude data and 0.82 (95% CI, 0.70–0.96) using the adjusted data. In the meta‐analyses of case–control studies, no significant association was seen between green tea consumption and stomach cancer using the crude data (RR, 0.79; 95% CI, 0.58–1.07), but green tea was shown to have a preventive effect on stomach cancer using the adjusted data (RR, 0.73; 95% CI, 0.64–0.83). In the meta‐analyses of the recent cohort studies, the highest green tea consumption was shown to significantly increase stomach cancer risk using the crude data (RR, 1.59; 95% CI, 1.16–2.18), but no significant association between them was seen when using the adjusted data (RR, 1.04; 95% CI, 0.93–1.17). Unlike the case–control studies, no preventive effect on stomach cancer was seen for the highest green tea consumption in the meta‐analysis of the recent cohort studies. Further clinical trials are needed. © 2008 Wiley‐Liss, Inc.