Miracle-dz/UniFAR-FTUs huggingface dataset:
On Connectivity of Airborne Networks

Mobility pattern of nodes in a mobile network has significant impact on the connectivity properties of the network. One such mobile network that has drawn attention of researchers in the past few years is the Airborne Networks (AN) due to its importance in civil and military purpose and due to the several complex issues in these domains. Since the nodes in an airborne network (AN) are heterogeneous and mobile, the design of a reliable and robust AN is highly complex and challenging. In this paper a persistent backbone based architecture for an AN has been considered where a set of airborne networking platforms (ANPs - aircrafts, UAVs and satellites) form the backbone of the AN. End to end connectivity of the backbone nodes is crucial in providing the communication among the hosts. Since ANPs are prone to failure because of attacks like EMP attack or jamming, another important issue is to improve the robustness of the backbone network against these attacks. Such attacks will impact specific geographic regions at specific times and if an ANP is within the fault region during the time of attack, it will fail. This paper focuses on connectivity and fault-tolerance issues in ANs and studies algorithms to compute the minimum transmission range of ANPs in fault free and faulty scenarios to ensure network connectivity all the times. It also considers the scenario where the network may have to operate in a disconnected mode for some part of time and data transmissions may be tolerant to some amount of delay. Hence, ANPs may not need to have end-to-end paths all the time but they should be able to transmit data to each other within bounded time.
Word Segmentation for Burmese (Myanmar)

Experiments on various word segmentation approaches for the Burmese language are conducted and discussed in this note. Specifically, dictionary-based, statistical, and machine learning approaches are tested. Experimental results demonstrate that statistical and machine learning approaches perform significantly better than dictionary-based approaches. We believe that this note, based on an annotated corpus of relatively considerable size (containing approximately a half million words), is the first systematic comparison of word segmentation approaches for Burmese. This work aims to discover the properties and proper approaches to Burmese textual processing and to promote further researches on this understudied language.
Lexical Clustering and Definite Description Interpretation

We present preliminary results concerning the use of lexical clustering algorithms to acquire the kind of lexical knowledge needed to resolve definite descriptions, and in particular what we call ’inferential’ descriptions. We tested the hypothesis that the antecedent of an inferential description is primarily identified on the basis of its semantic distance from the description; we also tested several variants of the clustering algorithm. We found that the choice of parameters has a clear effect, and that the best results are obtained by measuring the distance between lexical vectors using the cosine measure. We also found, however, that factors other than semantic distance play the main role in the majority of cases; but in those cases in which the sort of lexical knowledge we acquired is the main factor, the algorithms we used performed reasonably well; several standing problems are discussed.
Yap1 is dispensable for self‐renewal but required for proper differentiation of mouse embryonic stem (ES) cells

Yap1 is a transcriptional co‐activator of the Hippo pathway. The importance of Yap1 in early cell fate decision during embryogenesis has been well established, though its role in embryonic stem (ES) cells remains elusive. Here, we report that Yap1 plays crucial roles in normal differentiation rather than self‐renewal of ES cells. Yap1‐depleted ES cells maintain undifferentiated state with a typical colony morphology as well as robust alkaline phosphatase activity. These cells also retain comparable levels of the core pluripotent factors, such as Pou5f1 and Sox2, to the levels in wild‐type ES cells without significant alteration of lineage‐specific marker genes. Conversely, overexpression of Yap1 in ES cells promotes nuclear translocation of Yap1, resulting in disruption of self‐renewal and triggering differentiation by up‐regulating lineage‐specific genes. Moreover, Yap1‐deficient ES cells show impaired induction of lineage markers during differentiation. Collectively, our data demonstrate that Yap1 is a required factor for proper differentiation of mouse ES cells, while remaining dispensable for self‐renewal.
Fast parallel image registration on CPU and GPU for diagnostic classification of Alzheimer's disease

Nonrigid image registration is an important, but time-consuming task in medical image analysis. In typical neuroimaging studies, multiple image registrations are performed, i.e., for atlas-based segmentation or template construction. Faster image registration routines would therefore be beneficial. In this paper we explore acceleration of the image registration package elastix by a combination of several techniques: (i) parallelization on the CPU, to speed up the cost function derivative calculation; (ii) parallelization on the GPU building on and extending the OpenCL framework from ITKv4, to speed up the Gaussian pyramid computation and the image resampling step; (iii) exploitation of certain properties of the B-spline transformation model; (iv) further software optimizations. The accelerated registration tool is employed in a study on diagnostic classification of Alzheimer's disease and cognitively normal controls based on T1-weighted MRI. We selected 299 participants from the publicly available Alzheimer's Disease Neuroimaging Initiative database. Classification is performed with a support vector machine based on gray matter volumes as a marker for atrophy. We evaluated two types of strategies (voxel-wise and region-wise) that heavily rely on nonrigid image registration. Parallelization and optimization resulted in an acceleration factor of 4–5x on an 8-core machine. Using OpenCL a speedup factor of 2 was realized for computation of the Gaussian pyramids, and 15–60 for the resampling step, for larger images. The voxel-wise and the region-wise classification methods had an area under the receiver operator characteristic curve of 88 and 90%, respectively, both for standard and accelerated registration. We conclude that the image registration package elastix was substantially accelerated, with nearly identical results to the non-optimized version. The new functionality will become available in the next release of elastix as open source under the BSD license.
Early cognitive development and parental education

Relations between cognitive development in infancy and early childhood, and parental education were examined. Previous research has found little association between measures of the parenting environment, including parental education and socio-economic status (SES), and cognitive development in infants and children under 2 years of age. However, the earlier studies may not have reliably measured individual differences in cognitive abilities, thus, there is uncertainty as to what age elements in the parental environment affect cognitive development. Seventy-six infants were tested on a range of cognitive tasks at 3-month intervals between the ages of 9 and 18 months. Information on parental education (a component of SES) was collected. Seventy-one of the children returned at 27 months and completed the Bayley Scales of Infant Development, Mental Scale, which was used as an outcome measure for the earlier tasks. The findings present a clear indication that cognitive development in early childhood is affected by the parenting environment, at least from as early as 12 months. Copyright © 1999 John Wiley & Sons, Ltd.
MultiCoil: A program for predicting two‐and three‐stranded coiled coils

A new multidimensional scoring approach for identifying and distinguishing trimeric and dimeric coiled coils is implemented in the MultiCoil program. The program extends the two‐stranded coiled‐coil prediction program PairCoil to the identification of three‐stranded coiled coils. The computations are based upon data gathered from a three‐stranded coiled‐coil database comprising 6,319 amino acid residues, as well as from the previously constructed two‐stranded coiled‐coil database. In addition to identifying coiled coils not predicted by the two‐stranded database programs, MultiCoil accurately classifies the oligomerization states of known dimeric and trimeric coiled coils. Analysis of the MultiCoil scores provides insight into structural features of coiled coils, and yields estimates that 0.9% of all protein residues form three‐stranded coiled coils and that 1.5% form two‐stranded coiled coils. The MultiCoil program is available at http://theory.Ics. mit.edu/multicoil.
Serotonin transporter genotype modulates functional connectivity between amygdala and PCC/PCu during mood recovery

The short (S) allele of the serotonin transporter-linked polymorphic region (5-HTTLPR) has been associated with increased susceptibility to depression. Previous neuroimaging studies have consistently showed increased amygdala activity during the presentation of negative stimuli or regulation of negative emotion in the homozygous short allele carriers, suggesting the key role of amygdala response in mediating increased risk for depression. The brain default mode network (DMN) has also been shown to modulate amygdala activity. However, it remains unclear whether 5-HTTLPR genetic variation modulates functional connectivity (FC) between the amygdala and regions of DMN. In this study, we re-analyzed our previous imaging dataset and examined the effects of 5-HTTLPR genetic variation on amygdala connectivity. A total of 15 homozygous short (S/S) and 15 homozygous long individuals (L/L) were scanned in functional magnetic resonance imaging (fMRI) during four blocks: baseline, sad mood, mood recovery, and return to baseline. The S/S and L/L groups showed a similar pattern of FC and no differences were found between the two groups during baseline and sad mood scans. However, during mood recovery, the S/S group showed significantly reduced anti-correlation between amygdala and posterior cingulate cortex/precuneus (PCC/PCu) compared to the L/L group. Moreover, PCC/PCu-amygdala connectivity correlated with amygdala activity in the S/S group but not the L/L group. These results suggest that 5-HTTLPR genetic variation modulates amygdala connectivity which subsequently affects its activity during mood regulation, providing an additional mechanism by which the S allele confers depression risk.
Biofilm Development on Caenorhabditis elegans by Yersinia Is Facilitated by Quorum Sensing-Dependent Repression of Type III Secretion

Yersinia pseudotuberculosis forms biofilms on Caenorhabditis elegans which block nematode feeding. This genetically amenable host-pathogen model has important implications for biofilm development on living, motile surfaces. Here we show that Y. pseudotuberculosis biofilm development on C. elegans is governed by N-acylhomoserine lactone (AHL)-mediated quorum sensing (QS) since (i) AHLs are produced in nematode associated biofilms and (ii) Y. pseudotuberculosis strains expressing an AHL-degrading enzyme or in which the AHL synthase (ypsI and ytbI) or response regulator (ypsR and ytbR) genes have been mutated, are attenuated. Although biofilm formation is also attenuated in Y. pseudotuberculosis strains carrying mutations in the QS-controlled motility regulator genes, flhDC and fliA, and the flagellin export gene, flhA, flagella are not required since fliC mutants form normal biofilms. However, in contrast to the parent and fliC mutant, Yop virulon proteins are up-regulated in flhDC, fliA and flhA mutants in a temperature and calcium independent manner. Similar observations were found for the Y. pseudotuberculosis QS mutants, indicating that the Yop virulon is repressed by QS via the master motility regulator, flhDC. By curing the pYV virulence plasmid from the ypsI/ytbI mutant, by growing YpIII under conditions permissive for type III needle formation but not Yop secretion and by mutating the type III secretion apparatus gene, yscJ, we show that biofilm formation can be restored in flhDC and ypsI/ytbI mutants. These data demonstrate that type III secretion blocks biofilm formation and is reciprocally regulated with motility via QS.
Approaches To Emotion

This sourcebook is intended as a reader in the fullest sense of that word: a work that offers researchers and students alike the opportunity to examine the many different aspects and widely divergent approaches to the study of emotion. The contributors include samples of biological, ontogenetic, ethological, psychological, sociological, and anthropological approaches.
Towards Variation-Aware Test Methods

Nanoelectronic circuits are increasingly affected by massive statistical process variations, leading to a paradigm shift in both design and test area. In circuit and system design, a broad class of methods for robustness like statistical design and self calibration has emerged and is increasingly used by the industry. The test community's answer to the massive-variation challenge is currently adaptive test. The test stimuli are modified on the fly (during test application) based on the circuit responses observed. The collected circuit outputs undergo statistical post-processing to facilitate pass/fail classification. We will present fundamentals of adaptive and robust test techniques and their theoretical background. While adaptive test is effective, the understanding how it covers defects under different process parameter combinations is not fully established yet with respect to algorithmic foundations. For this reason, novel analytic and algorithmic approaches in the field of variation-aware testing will also be presented in the tutorial. Coverage of defects in the process parameter space is modeled and maximized by an interplay between special fault simulation and multi-constrained ATPG algorithms. These systematic approaches can complement adaptive test application schemes to form a closed-loop system that combines analytical data with measurement results for maximal test quality.
Data Edibilization: Representing Data with Food

Data communication is critical in data science. We propose data edibilization, i.e., encoding data with edible materials, as a novel approach to leverage multiple sensory channels to convey data stories. We conduct a preliminary data tasting workshop to explore how users interact with and interpret data edibilization. Based on the participants' feedback, we summarize the advantages of edibilization in terms of attractiveness, richness, memorability, affectiveness, and sociability. We also identify several challenges with data edibilization. We discuss possible pragmatic processes, enabling technologies, and potential research opportunities to provide insights into the design space of data edibilization and its practicality.
Characterization of two distinct populations of detergent resistant membrane complexes isolated from chick brain tissues

We report the isolation of two distinct populations of detergent resistant membrane complexes (DRMCs) from 1‐day‐old chick brain, utilizing a procedure involving Triton X‐100 insolubility and sucrose density gradient centrifugation. The first population is abundant (1.8% of the total homogenate protein), highly enriched for two glycosylphosphatidylinositol (GPI)‐anchored proteins (Thy‐1 and AvGp50), and not enriched for caveolin. The second population is of relatively low abundance (0.2% of the total homogenate), contains relatively low levels of Thy‐1 and AvGp50 enrichment, and is highly enriched in caveolin. Both populations of DRMCs are enriched for cholesterol, ganglioside GM1, total kinase and tyrosine kinase activities, and c‐Src and c‐Fyn. However, there are differences in the Coomassie‐stained protein profiles, phosphoprotein components, tyrosine kinase activity, and electron microscopic morphology when the Thy‐1 and AvGp50‐enriched DRMCs are compared to the caveolin‐rich DRMCs. In addition, the GPI‐enriched DRMCs contain CaM kinase type II immunoreactivity, whereas this molecule was undectable in the caveolin‐rich DRMCs. The isolation of two distinct DRMC fractions may be representative of unique plasma membrane signaling domains involved in GPI‐anchored protein or other receptor‐mediated signal transduction within the avian nervous system. Further, we have demonstrated for the first time that nervous system tissue, in particular the hatch chick cerebellum, contains caveolin immunoreactivity. © 1996 Wiley‐Liss, Inc.
Individual Differences in Fornix Microstructure and Body Mass Index

The prevalence of obesity and associated health conditions is increasing in the developed world. Obesity is related to atrophy and dysfunction of the hippocampus and hippocampal lesions may lead to increased appetite and weight gain. The hippocampus is connected via the fornix tract to the hypothalamus, orbitofrontal cortex, and the nucleus accumbens, all key structures for homeostatic and reward related control of food intake. The present study employed diffusion MRI tractography to investigate the relationship between microstructural properties of the fornix and variation in Body Mass Index (BMI), within normal and overweight ranges, in a group of community-dwelling older adults (53–93 years old). Larger BMI was associated with larger axial and mean diffusivity in the fornix (r = 0.64 and r = 0.55 respectively), relationships that were most pronounced in overweight individuals. Moreover, controlling for age, education, cognitive performance, blood pressure and global brain volume increased these correlations. Similar associations were not found in the parahippocampal cingulum, a comparison temporal association pathway. Thus, microstructural changes in fornix white matter were observed in older adults with increasing BMI levels from within normal to overweight ranges, so are not exclusively related to obesity. We propose that hippocampal-hypothalamic-prefrontal interactions, mediated by the fornix, contribute to the healthy functioning of networks involved in food intake control. The fornix, in turn, may display alterations in microstructure that reflect weight gain.
Estimation of extrinsic parameters of multiple fish-eye cameras using calibration markers

This paper introduces a simultaneous estimation method of the extrinsic parameters of multiple fish-eye cameras using simple calibration markers. Precise extrinsic parameters of cameras mounted on a car are important, for example, to provide a seamless overhead view image to the driver. Calibration markers are set in the area that are observable from adjacent two cameras. Extrinsic parameters of each camera are estimated individually and then combined and refined using a geometric constraint. Cube markers are chosen as the calibration markers. The method is evaluated by simulation and experiments using a real car. It is shown that extrinsic parameters are obtained by the proposed method and suggested that the errors of intrinsic parameters affect the estimation of extrinsic parameters.
VAMPIRE microarray suite: a web-based platform for the interpretation of gene expression data

Microarrays are invaluable high-throughput tools used to snapshot the gene expression profiles of cells and tissues. Among the most basic and fundamental questions asked of microarray data is whether individual genes are significantly activated or repressed by a particular stimulus. We have previously presented two Bayesian statistical methods for this level of analysis, collectively known as variance-modeled posterior inference with regional exponentials (VAMPIRE). These methods each require a sophisticated modeling step followed by integration of a posterior probability density. We present here a publicly available, web-based platform that allows users to easily load data, associate related samples and identify differentially expressed features using the VAMPIRE statistical framework. In addition, this suite of tools seamlessly integrates a novel gene annotation tool, known as GOby, which identifies statistically overrepresented gene groups. Unlike other tools in this genre, GOby can localize enrichment while respecting the hierarchical structure of annotation systems like Gene Ontology (GO). By identifying statistically significant enrichment of GO terms, Kyoto Encyclopedia of Genes and Genomes pathways, and TRANSFAC transcription factor binding sites, users can gain substantial insight into the physiological significance of sets of differentially expressed genes. The VAMPIRE microarray suite can be accessed at .
Apical transverse motion is associated with speckle-tracking radial dyssynchrony in patients with non-ischemic dilated cardiomyopathy

Objective: Apical transverse motion (ATM) is a new parameter for assessing left ventricular (LV) dyssynchrony. Speckle-tracking radial strain analysis seems to be the best method to identify potential responders to cardiac resynchronization therapy. The aim of our study was to investigate the association between ATM and radial dyssynchrony assessed by speckle-tracking echocardiography in patients with non-ischemic dilated cardiomyopathy (NDC). Methods: We examined 35 NDC patients (mean age 49.2±28.1 years; 21 males). Cardiac dimension and ejection fraction (EF) were measured. Speckle-tracking analysis was performed on two-dimensional greyscale images in the mid-LV short axis view and apical views to calculate global radial, circumferential, and longitudinal strain (GRS, GCS, GLS), as well as rotational indexes (LV twist and torsion). Radial dyssynchrony was defined as a difference in time to peak systolic radial strain between the anteroseptal and posterior segments with a cut-off value of 130 ms. ATM was estimated using motion traces of 2 opposite apical segments. Results: Radial dyssynchrony was significantly correlated with ATMloop (r=0.78, p<0.001), ATM4CV (r=0.71, p=0.001), ATM3CV (r=0.67, p=0.003), GRS (r=-0.51, p=0.04), GCS (r=-0.55, p=0.03), LV twist (r=-0.58, p=0.02), and LV torsion (r=-0.56, p=0.03). The receiver operating characteristics analysis for ATMloop to distinguish between patients with and without radial dyssynchrony revealed an area under the curve value of 0.88 (CI: 0.73-1.04, p=0.005). The best cut-off value was 2.5 mm for ATMloop (85% sensitivity and 86% specificity). Conclusion: Apical transverse motion is closely associated with radial dyssynchrony assessed by speckle-tracking echocardiography. Quantitative measure of apical rocking has the potential for clinical applications.
Separating context and trial-by-trial effects in the negative priming paradigm

The finding that responses to target stimuli are slowed down if these were distractors in the foregoing trial is known as negative priming (NP). In three experiments, the size of NP effects was influenced by the proportion of target-to-target and distractor-to-target repetitions of the previous block. A higher number of target-to-target repetitions in a previous practice block increased NP effects in an experimental block, in which the standard distribution of priming conditions usually conducted in NP experiments was used. In contrast, a higher number of distractor-to-target repetitions in the previous practice block decreased NP effects in a consecutive standard experimental block. Given such a design, this modulation of NP could not be explained in terms of local sequence effects on a trial-by-trial basis. Instead, experiment-wide contextual factors contribute to the proportion modulation of NP.