Miracle-dz/UniFAR-FTUs huggingface dataset:
Computational Analysis of the AK 092578 Locus

An RNAz-based (v1.0, [10]) search for structured RNAs within the 32k-region hg18.chr4:166,012,000166,043,999 yields only five ncRNA candidates. The input for RNAzwas generated with the mafsInRegion program, which is part of Kent’s UCSC-source-tree. For this locus, mafsInRegion reports 260 conserved sequence blocks within the UCSC 28-way vertebrate alignments. Further pre-processing of those 260 alignments was done using rnazWindows.pl, a part of the RNAz package, which selects up to six of the aligned sequences for screening by RNAz in such a way that their pairwise sequence similarity is optimized for the performance of RNAz. This is necessary because RNAz at present can evaluate alignments of no more than 6 species. The tool also prepares alignment windows of appropriate length and sequence composition matching the RNAz training scope. Actually only two of the five RNAz hits have an acceptable classification probability. The coding potential calculator (CPC, [8]) scores all RNAz hits as non-coding regions, but it votes for coding when it scores the complete AK092578 locus. Details of the RNAz hits are given in table 1 and predicted structures are available at http://www.bioinf. uni-leipzig.de/data/REVERSADE/.
Liraglutide Improves Hypertension and Metabolic Perturbation in a Rat Model of Polycystic Ovarian Syndrome

Polycystic ovarian syndrome (PCOS) is the most common endocrine disorder in women of reproductive age, with a prevalence of 5–8%. Type 2 diabetes and cardiovascular disease (CVD) are its long-term complications. Targeted therapies addressing both these complications together are lacking. Glucagon like peptide-1 (GLP-1) agonists that are used to treat type 2 diabetes mellitus have beneficial effects on the cardiovascular system. Hence we hypothesized that a GLP-1 agonist would improve both cardiovascular and metabolic outcomes in PCOS. To test this hypothesis, we used an established rat model of PCOS. Prepubertal female Sprague Dawley rats were sham-implanted or implanted s.c. with dihydrotestosterone (DHT) pellets (90 day release; 83μg/day). At 12 wks of age, sham implanted rats received saline injections and the DHT treated animals were administered either saline or liraglutide (0.2mg/kg s.c twice daily) for 4 weeks. Subgroups of rats were implanted with telemeters between 12-13 weeks of age to monitor blood pressure. DHT implanted rats had irregular estrus cycles and were significantly heavier than the control females at 12 weeks (mean± SEM 251.9±3.4 vs 216.8±3.4 respectively; p<0.05) and 4 weeks of treatment with liraglutide in DHT treated rats significantly decreased body weight (mean± SEM 294.75 ±3.2 in DHT+ saline vs 276.25±2.7 in DHT+ liraglutide group respectively; p<0.01). Liraglutide treatment in the DHT implanted rats significantly improved glucose excursion during oral glucose tolerance test (area under the curve: DHT+ saline 28674±310 vs 24990± 420 in DHT +liraglutide p <0.01). DHT rats were hypertensive and liraglutide treatment significantly improved mean arterial pressure. These results suggest that GLP-1 treatment could improve DHT–induced metabolic and blood pressure deficits associated with PCOS.
MCG-ICT at MediaEval 2015: Verifying Multimedia Use with a Two-Level Classification Model

The Verifying Multimedia Use task aims to detect misuse of online multimedia content and verify them as real or fake. This is a highly challenging problem because of strong variations among tweets from dierent events. Traditional approaches train the classier at message level, which ignores inter-message relations. We propose a two-level classication model to exploit the information that tweets of a same topic are probably have same credibility values. In this model a topic level is introduced to eliminate message variations. Messages are aggregated into topics as a higher level representation. Pre-results gained from classication at the topic
Mean field Markov models of wireless local area networks

In 1998, Giuseppe Bianchi introduced a mean field Markov model of the fundamental medium access control protocol used in Wireless Local Area Networks (WLANs). Due to the model’s intuitive appeal and the accuracy of its predictions, since then there has been a vast body of material published that extends and analyzes models of a similar character. As the majority of this development has taken place within the culture and nomenclature of the telecommunications community, the aim of the present article is to review this work in a way that makes it accessible to probabilists. In doing so, we hope to illustrate why this modeling approach has proved so popular, to explain what is known rigorously, and to draw attention to outstanding questions of a mathematical nature whose solution would be of interest to the telecommunications community. For non-saturated WLANs, these questions include rigorous support for its fundamental decoupling approximation, determination of the properties of the self-consistent equations and the identification of the queueing stability region.
Boosting the SNR by adding a receive‐only endorectal monopole to an external antenna array for high‐resolution, T2‐weighted imaging of early‐stage cervical cancer with 7‐T MRI

The aim of this study was to investigate the signal‐to‐noise ratio (SNR) gain in early‐stage cervical cancer at ultrahigh‐field MRI (e.g. 7 T) using a combination of multiple external antennas and a single endorectal antenna. In particular, we used an endorectal monopole antenna to increase the SNR in cervical magnetic resonance imaging (MRI). This should allow high‐resolution, T2‐weighted imaging and magnetic resonance spectroscopy (MRS) for metabolic staging, which could facilitate the local tumor status assessment. In a prospective feasibility study, five healthy female volunteers and six patients with histologically proven stage IB1–IIB cervical cancer were scanned at 7 T. We used seven external fractionated dipole antennas for transmit–receive (transceive) and an endorectally placed monopole antenna for reception only. A region of interest, containing both normal cervix and tumor tissue, was selected for the SNR measurement. Separated signal and noise measurements were obtained in the region of the cervix for each element and in the near field of the monopole antenna (radius < 30 mm) to calculate the SNR gain of the endorectal antenna in each patient. We obtained high‐resolution, T2‐weighted images with a voxel size of 0.7 × 0.8 × 3.0 mm3. In four cases with optimal placement of the endorectal antenna (verified on the T2‐weighted images), a mean gain of 2.2 in SNR was obtained at the overall cervix and tumor tissue area. Within a radius of 30 mm from the monopole antenna, a mean SNR gain of 3.7 was achieved in the four optimal cases. Overlap between the two different regions of the SNR calculations was around 24%. We have demonstrated that the use of an endorectal monopole antenna substantially increases the SNR of 7‐T MRI at the cervical anatomy. Combined with the intrinsically high SNR of ultrahigh‐field MRI, this gain may be employed to obtain metabolic information using MRS and to enhance spatial resolutions to assess tumor invasion.
Efficacy of TachoSil, a Fibrin-Based Hemostat, for Anterior Lumbar Spine Surgery

Study Design Retrospective case series. Purpose To examine the efficacy of TachoSil for vessel injury in 6 patients who underwent anterior lumbar fusion surgery (ALF). Overview of Literature ALF for the lumbar spine has a high rate of success, although intraoperative concerns and iatrogenic complications are known, and injury of a major vessel is sometimes a complication. The efficacy of TachoSil, a fibrin-based hemostat, has been reported for several types of surgery; however, use of TachoSil for ALF surgery has not been described. Here, we report on the efficacy of TachoSil in 6 patients, who underwent ALF after vascular surgeons having difficulty in repairing vessels. Methods Two man and 4 women with average age of 50.8±10.9 (mean±standard deviation) were diagnosed with a vertebral tumor (2 patients), L4 degenerative spondylolisthesis (2 patients), and L5 spondylolytic spondylolisthesis (2 patients) and underwent ALF. The blood vessels injured included the common iliac vein in 2 patients and a branch of a segmental artery from the aorta in 4 patients. We consulted a vascular surgeon to suture or repair the vessels during surgery, and although the vascular surgeon attempted to address the injuries, suturing or repair was not possible in these cases. For this reason, we used TachoSil to repair the injury in the vessels walls or to stop the bleeding. Results Time to pressure hemostasis using TachoSil was 34±12 minutes, and total blood loss was 1,488±1,711 mL. Nevertheless, all vessel injuries were controlled by the use of TachoSil. Conclusions We recommend the use of TachoSil for vessel injuries that vascular surgeons cannot suture or repair during ALF surgery.
Image enhancement by unsharp masking the depth buffer

We present a simple and efficient method to enhance the perceptual quality of images that contain depth information. Similar to an unsharp mask, the difference between the original depth buffer content and a low-pass filtered copy is utilized to determine information about spatially important areas in a scene. Based on this information we locally enhance the contrast, color, and other parameters of the image. Our technique aims at improving the perception of complex scenes by introducing additional depth cues. The idea is motivated by artwork and findings in the field of neurology, and can be applied to images of any kind, ranging from complex landscape data and technical artifacts, to volume rendering, photograph, and video with depth information.
Sunflower Oil but Not Fish Oil Resembles Positive Effects of Virgin Olive Oil on Aged Pancreas after Life-Long Coenzyme Q Addition

An adequate pancreatic structure is necessary for optimal organ function. Structural changes are critical in the development of age-related pancreatic disorders. In this context, it has been reported that different pancreatic compartments from rats were affected according to the fat composition consumed. Since there is a close relationship between mitochondria, oxidative stress and aging, an experimental approach has been developed to gain more insight into this process in the pancreas. A low dosage of coenzyme Q was administered life-long in rats in order to try to prevent pancreatic aging-related alterations associated to some dietary fat sources. According to that, three groups of rats were fed normocaloric diets containing Coenzyme Q (CoQ) for two years, where virgin olive, sunflower, or fish oil was included as unique fat source. Pancreatic samples for microscopy and blood samples were collected at the moment of euthanasia. The main finding is that CoQ supplementation gives different results according to fat used in diet. When sunflower oil was the main fat in the diet, CoQ supplementation seems to improve endocrine pancreas structure and in particular β-cell mass resembling positive effects of virgin olive oil. Conversely, CoQ intake does not seem to improve the structural alterations of exocrine compartment previously observed in fish oil fed rats. Therefore CoQ may improve pancreatic alterations associated to the chronic intake of some dietary fat sources.
What is in a text and what does it do: Qualitative Evaluations of an NLG system – the BT-Nurse – using content analysis and discourse analysis

Evaluations of NLG systems generally are quantiative, that is, based on corpus comparison statistics and/or results of experiments with people. Outcomes of such evaluations are important in demonstrating whether or not an NLG system is successful, but leave gaps in understanding why this is the case. Alternatively, qualitative evaluations carried out by experts provide knowledge on where a system needs to be improved. In this paper we describe two such evaluations carried out for the BT-Nurse system, using two different methodologies (content analysis and discourse analysis). The outcomes of such evaluations are discussed in comparison to what was learnt from a quantitiave evaluation of BT-Nurse. Implications for the role of similar evaluations in NLG are also discussed.
Edinburgh Research Explorer Association of variation in Fcgamma receptor 3B gene copy number with rheumatoid arthritis in Caucasian samples

Objective— There is increasing evidence that variation in gene copy number (CN) influences clinical phenotype. The low-affinity Fc γ receptor 3B (FCGR3B) located in the FCGR gene cluster is a CN polymorphic gene involved in the recruitment to sites of inflammation and activation of polymorphonuclear neutrophils (PMNs). Given recent evidence that low FCGR3B CN is a risk factor for systemic but not organ-specific autoimmune disease and the potential importance of PMN in the pathophysiology of rheumatoid arthritis (RA), the authors hypothesised that FCGR3B gene dosage influences susceptibility to RA. Methods— FCGR3B CN was measured in 643 cases of RA and 461 controls from New Zealand (NZ), with follow-up analysis in 768 cases and 702 controls from the Netherlands and 250 cases and 211 controls from the UK. All subjects were of Caucasian ancestry. Results— Significant evidence for an association between CN <2 and RA was observed in the Dutch cohort (OR 2.01 (95% CI 1.37 to 2.94), p=3×10–4) but not in the two smaller cohorts (OR 1.45 (95% CI 0.92 to 2.26), p=0.11 and OR 1.33 (95% CI 0.58 to 3.02), p=0.50 for the NZ and UK populations, respectively). The association was evident in a meta-analysis which included a previously published Caucasian sample set (OR 1.67 (95% CI 1.28 to 2.17), p=1.2×10–4). Conclusions— One possible mechanism to explain the association between reduced FCGR3B CN and RA is the reduced clearance of immune complex during infl ammation. However, it is not known whether the association between RA and FCGR3B CN is aetiological or acts as a proxy marker for another biologically relevant variant. More detailed examination of genetic variation within the FCGR gene cluster is required.
Prevalence of neurologic autoantibodies in cohorts of patients with new and established epilepsy

Autoantibodies to specific neurologic proteins are associated with subacute onset encephalopathies, which often present with seizures that are poorly controlled by conventional antiepileptic drugs (AEDs). Previous cross‐sectional studies have found specific neurologic antibodies in a small proportion of people with established epilepsy, but these investigations have seldom included patients with recent diagnosis.
The value of whole lesion ADC histogram profiling to differentiate between morphologically indistinguishable ring enhancing lesions–comparison of glioblastomas and brain abscesses

Background Morphologically similar appearing ring enhancing lesions in the brain parenchyma can be caused by a number of distinct pathologies, however, they consistently represent life-threatening conditions. The two most frequently encountered diseases manifesting as such are glioblastoma multiforme (GBM) and brain abscess (BA), each requiring disparate therapeutical approaches. As a result of their morphological resemblance, essential treatment might be significantly delayed or even ommited, in case results of conventional imaging remain inconclusive. Therefore, our study aimed to investigate, whether ADC histogram profiling reliably can distinguish between both entities, thus enhancing the differential diagnostic process and preventing treatment failure in this highly critical context. Methods 103 patients (51 BA, 52 GBM) with histopathologically confirmed diagnosis were enrolled. Pretreatment diffusion weighted imaging (DWI) was obtained in a 1.5T system using b values of 0, 500, and 1000 s/mm2. Whole lesion ADC volumes were analyzed using a histogram-based approach. Statistical analysis was performed using SPSS version 23. Results All investigated parameters were statistically different in comparison of both groups. Most importantly, ADCp10 was able to differentiate reliably between BA and GBM with excellent accuracy (0.948) using a cutpoint value of 70 × 10−5 mm2 × s−1. Conclusions ADC whole lesion histogram profiling provides a valuable tool to differentiate between morphologically indistinguishable mass lesions. Among the investigated parameters, the 10th percentile of the ADC volume distinguished best between GBM and BA.
The Price of Pain and the Value of Suffering

Estimating the financial value of pain informs issues as diverse as the market price of analgesics, the cost-effectiveness of clinical treatments, compensation for injury, and the response to public hazards. Such valuations are assumed to reflect a stable trade-off between relief of discomfort and money. Here, using an auction-based health-market experiment, we show that the price people pay for relief of pain is strongly determined by the local context of the market, that is, by recent intensities of pain or immediately disposable income (but not overall wealth). The absence of a stable valuation metric suggests that the dynamic behavior of health markets is not predictable from the static behavior of individuals. We conclude that the results follow the dynamics of habit-formation models of economic theory, and thus, this study provides the first scientific basis for this type of preference modeling.
The relationship between transpiration and nutrient uptake in wheat changes under elevated atmospheric CO2.

The impact of elevated [CO2 ] (e[CO2 ]) on crops often includes a decrease in their nutrient concentrations where reduced transpiration-driven mass flow of nutrients has been suggested to play a role. We used two independent approaches, a free-air CO2 enrichment (FACE) experiment in the South Eastern wheat belt of Australia and a simulation study employing the agricultural production systems simulator (APSIM), to show that transpiration (mm) and nutrient uptake (g m-2 ) of nitrogen (N), potassium (K), sulfur (S), calcium (Ca), magnesium (Mg) and manganese (Mn) in wheat are correlated under e[CO2 ], but that nutrient uptake per unit water transpired is higher under e[CO2 ] than under ambient [CO2 ] (a[CO2 ]). This result suggests that transpiration-driven mass flow of nutrients contributes to decreases in nutrient concentrations under e[CO2 ], but cannot solely explain the overall decline.
Iterated Random Functions

Iterated random functions are used to draw pictures or simulate large Ising models, among other applications. They offer a method for studying the steady state distribution of a Markov chain, and give useful bounds on rates of convergence in a variety of examples. The present paper surveys the field and presents some new examples. There is a simple unifying idea: the iterates of random Lipschitz functions converge if the functions are contracting on the average.
Plants Probiotics as a Tool to Produce Highly Functional Fruits: The Case of Phyllobacterium and Vitamin C in Strawberries

The increasing interest in the preservation of the environment and the health of consumers is changing production methods and food consumption habits. Functional foods are increasingly demanded by consumers because they contain bioactive compounds involved in health protection. In this sense biofertilization using plant probiotics is a reliable alternative to the use of chemical fertilizers, but there are few studies about the effects of plant probiotics on the yield of functional fruits and, especially, on the content of bioactive compounds. In the present work we reported that a strain of genus Phyllobacterium able to produce biofilms and to colonize strawberry roots is able to increase the yield and quality of strawberry plants. In addition, the fruits from plants inoculated with this strain have significantly higher content in vitamin C, one of the most interesting bioactive compounds in strawberries. Therefore the use of selected plant probiotics benefits the environment and human health without agronomical losses, allowing the production of highly functional foods.
Disconnected Synchronized Regions of Complex Dynamical Networks

This technical note addresses the synchronized region problem, which is converted to a more convenient matrix stability problem, for complex dynamical networks. For any natural number n , the existence of a network with n disconnected synchronized regions is theoretically proved and numerically demonstrated. This shows the intrinsic complexity of the network synchronization problem. Convexity characteristic of stability for relevant matrix pencils is further discussed. A smooth Chua's circuit network is finally discussed as an example for illustration.
Virtual agent interactions

The continuous advancements in technology are changing the manner in which instruction and training is provided. Advanced virtual environments and computer simulations that provide automated instruction are swiftly replacing the traditional classrooms and human instructors. Although these instructional technologies can utilize advanced training metaphors, they are unable to support the needs (i.e. anxiety, frustration, boredom) of each individual student as do human instructors. Individual differences in learning is a topic that has long been studied (i.e. Ackerman, 1974; Ackerman, Kanfer, & Goff, 1995; Cronbach, 1949; Emerson et al., 1999; Gagne, 1989; Kyollen & Shute, 1989; Snow, 1989), and evidence has been provided that student's have different needs. Additionally, researchers have advocated the importance of noncognitive variables (i.e. Ackerman, Kanfer, & Goff, 1995; Bandura, 1997; Efklides et al., 1997; Kanfer & Heggestad, 1999) such as affect (i.e. emotion), personality, and motivation on learning outcomes. There is another body of research (i.e. Cacioppo & Petty, 1986; Fowles, 1986; Grossman, 1992; Levine, 1986; Scherer, 1993) that has investigated techniques, such as physiological and behavioral analysis, for evaluating affect. Furthermore, it is indicated that an individual's affect is reflective of his perception of the environment. Consequently, it has been proposed that an affective component (a tool for evaluating student affect) can be developed to enhance instructional technologies with the ability to tailor instruction to optimize the student's interaction with the instructional application. This document describes an experiment that was conducted to provide support for the development of an affective component. Specifically, this experiment investigated the contributions of instructional feedback styles, personality, and affect on the learning outcomes for a crisis management tutorial. The results of this experiment provided support that these variables (feedback style, personality, and affect) influenced knowledge retention and that affect can be evaluated while a student is interacting with a computerized instructional application.