Miracle-dz/UniFAR-FTUs huggingface dataset:
mHDA1/HDAC5 Histone Deacetylase Interacts with and Represses MEF2A Transcriptional Activity*

Recently we identified a new family of histone deacetylases in higher eukaryotes related to yeast HDA1 and showed their differentiation-dependent expression. Data presented here indicate that HDAC5 (previously named mHDA1), one member of this family, might be a potent regulator of cell differentiation by interacting specifically with determinant transcription factors. We found that HDAC5 was able to interact in vivo and in vitro with MEF2A, a MADS box transcription factor, and to strongly inhibit its transcriptional activity. Surprisingly, this repression was independent of HDAC5 deacetylase domain. The N-terminal non-deacetylase domain of HDAC5 was able to ensure an efficient repression of MEF2A-dependent transcription. We then mapped protein domains involved in the HDAC5-MEF2A interaction and showed that MADS box/MEF2-domain region of MEF2A interacts specifically with a limited region in the N-terminal part of HDAC5 which also possesses a distinct repressor domain. These data show that two independent class II histone deacetylases HDAC4 and HDAC5 are able to interact with members of the MEF2 transcription factor family and regulate their transcriptional activity, thus suggesting a critical role for these deacetylases in the control of cell proliferation/differentiation.
Recommender System Using Implicit Social Information

SUMMARY Social recommendation systems that make use of the user’s social information have recently attracted considerable attention. These recommendation approaches partly solve cold-start and data sparsity problems and signiﬁcantly improve the performance of recommendation systems. The essence of social recommendation methods is to utilize the user’s explicit social connections to improve recommendation re-sults. However, this information is not always available in real-world recommender systems. In this paper, a solution to this problem of explicit social information unavailability is proposed. The existing user-item rating matrix is used to compute implicit social information, and then an ISRec (implicit social recommendation algorithm) which integrates this implicit social information and the user-item rating matrix for social recommendation is introduced. Experimental results show that our method performs much better than state-of-the-art approaches; moreover, complexity analysis indicates that our approach can be applied to very large datasets because it scales linearly with respect to the number of observations in the matrices.
Big Social Data Analytics in Football: Predicting Spectators and TV Ratings from Facebook Data

This paper explores the predictive power of big social data in regards to football fans' off-line and on-line behaviours. We address the research question to what extent can big social data from Facebook predict the number of spectators and TV ratings in the case of Danish National Football Association (DBU). The predictive model was built from Facebook, match attendance, and TV ratings data sets from 2014-2016. The best fit was a linear regression model with GLM coding. Ultimately, the model did best when predicting the number of spectators based on the Facebook activity during a match as well as the activity from the last two weeks leading up to the match. Furthermore, the data reveals that photos generates the most activity on the national team's page and with videos running at higher production costs there might be some unexploited potential for DBU to improve its social media marketing strategy. Although data limitations are present, this research concludes that predictive models based on big social data can indeed offer important insights for companies to understand their customer base and how to improve marketing strategies.
Isolation of a Target Component from a Multi‐component Mixture by Coupling Batch and Continuous Countercurrent Chromatography

A typical situation in preparative chromatography is that a certain target component elutes somewhere in the middle of a train of other components present in the feed. In order to isolate efficiently this target component the operating conditions of conventional batch chromatography have to be optimized carefully. Nevertheless, the achievable production rates and recovery yields are frequently low. Recently a possible alternative was suggested [1] based on using batch chromatography just as a first step providing fractions where the target component has the highest or lowest retention time. Subsequently, these fractions could be processed using continuous countercurrent chromatography in order to isolate the target component. Such a coupled process is analyzed theoretically for the case of linear adsorption isotherms. Based on results of simulations using a) the ideal model of chromatography and b) the equilibrium dispersive model it is demonstrated that the coupled process arrangement could possess advantages, compared to the application of batch chromatography alone.
SIMULATION OF MULTI-PHASE FLOW THROUGH POROUS MEDIA USING CVFE (CONTROL VOLUME FINITE ELEMENT)

The paper presents the application of Control-Volume Finite Element (CVFE) method in simulation of multi-phase (water, oil, gas) flow through porous media. The numerical model developed using the CVFE method presents advantage in simulation of faulted reservoirs or simulation of complex geometry reservoir. Also, CVFE method can accurate represents the location of wells inside of reservoir, fact which conventionally cartezian grid can’t do. The numerical model uses both IMPES (Implicit Pressure- Explicit Saturation) and fully- implicit techniques. One test case for validation of models is done by comparison with the simple case of one quasi-linear reservoir with two wells: one for water injection and the other for production. Also, this test case can be solved using the fractional flow theory (Buckley-Leverett). The comparison gives the satisfactory results, even if the water saturation distribution obtained by CVFE method presents a certain level of numerical dispersion. Another test uses a quarter from the classical five point pattern for water injection. This model contain two wells located on opposite corner of one rectangle, one well is for water injection with constant rate, the other well is for fluid (oil, gas and water) production. The results are compared with those provided by other numerical reservoir simulator, giving also the satisfactory results.
Transcranial magnetic stimulation and human muscle fatigue

During exercise, changes occur at many sites in the motor pathway, including the muscle fiber, motoneuron, motor cortex, and “upstream” of the motor cortex. Some of the changes result in fatigue, which can be defined as a decrease in ability to produce maximal muscle force voluntarily. Transcranial magnetic stimulation (TMS) over the human motor cortex reveals changes in both motor evoked potentials (MEPs) and the silent period during and after fatiguing voluntary contractions in normal subjects. The relationship of these changes to loss of force or fatigue is unclear. However, during a sustained maximal contraction TMS evokes extra force from the muscle and thus demonstrates the development of suboptimal output from the motor cortex, that is, fatigue at a supraspinal level. In some patients with symptoms of fatigue, the response to TMS after exercise is altered, but the changed MEP behavior is not yet linked to particular symptoms or pathology. © 2001 John Wiley & Sons, Inc. Muscle Nerve 24: 18–29, 2001
NG-methyl-L-arginine restores arterial pressure in hemorrhaged rats.

NG-methyl-L-arginine (NMA) has been shown to inhibit nitric oxide production in vascular endothelium in vitro, and to cause vascular constriction and pressor responses in vivo. This study evaluated the ability of NMA to restore arterial pressure in hemorrhaged rats in order to determine the role of nitric oxide in modulating vascular tone following hemorrhage. Rats were anesthetized with pentobarbital, and hemorrhaged (0.5 ml/min/100 g body weight for 2 min) to a pressure of 41 +/- 4 mm Hg (control 111 +/- 5 mm Hg). Five minutes after ending the hemorrhage, administration of NMA (30 mg/kg, i.v.) caused rapid and complete restoration of arterial pressure, due primarily to increased systemic vascular resistance. Administration of L-arginine before NMA greatly attenuated the pressor response to NMA. NMA caused similar pressor responses in nonhemorrhaged rats, which were also partially blocked by L-arginine. Cardiac output was transiently increased by NMA in hemorrhaged, but not in nonhemorrhaged, animals. These results support the hypothesis that endothelial nitric oxide production has a significant modulatory effect on vascular tone during hemorrhage, and that inhibition of nitric oxide production permits greater expression of vasoconstrictor influences.
Status of the p53, p16, RB1, and HER-2 genes and chromosomes 3, 7, 9, and 17 in advanced bladder cancer: correlation with adjacent mucosa and pathological parameters

Aims: To evaluate a panel of well known genetic alterations for frequency of changes in bladder cancer that could be considered genomic instability determinants or adjunctive prognostic predictors. Methods: Fluorescence in situ hybridisation analysis was performed to evaluate chromosomes 3, 7, 9, and 17 and the 9p21 (p16), 17p13.1 (p53), 13q14 (RB1), and 17q11.2 (HER-2) chromosomal loci in 48 muscle invasive bladder cancer specimens and the adjacent normal mucosa. Results: There were significant differences between the frequency of chromosome 7 monosomy/polysomy and 17 monosomy in the two groups (tumours and adjacent mucosa) (p = 0.004, p = 0.037, and p = 0.015, respectively). There were no differences in the frequency of gene deletions between tumours and the adjacent mucosa. 17q11.2 amplification was found in 14.5% of tumours examined, but not in the non-malignant epithelium. Chromosome 3, 7, and 17 monosomy and the RB1 heterozygous deletion were significantly associated with stage T3–4 (p = 0.03, p = 0.04, p = 0.04, and p = 0.03, respectively). Conclusions: These results demonstrate the importance of chromosomes 3, 7, and 17 and gene alterations in bladder cancer progression, highlighting their usefulness as prognostic markers. Larger studies with longterm follow up of these patients are needed to determine the validity and clinical relevance of these genetic findings, and molecular prognostic markers should be incorporated into phase II and III trials to define their roles in predicting clinical outcome.
Compensating the Semantic Bias of Spreadsheets

Spreadsheets are heavily employed in administration, financial forecasting, education, and science because of their intuitive, flexible, and direct approach to computation. They represent examples for “active documents” which are considered very worthwhile in the field of Knowledge Management. But these activity traits also lead to usability and maintenance problems, as spreadsheet-based applications grow evermore complex and longlived. We argue that these difficulties come from a fundamental bias of spreadsheets towards computational aspects of the conceptual models underlying the applications, i.e., a semantic bias. Concretely, we present the software architecture of the SACHS project geared towards a semantic enhancement of MS Excel spreadsheets that aims at compensating this semantic bias.
No Evidence for Individual Assortment by Temperament Relative to Patch Area or Patch Openness in the Bobolink

Abstract: Recent research has shown repeatable individual variability in temperament traits. We tested the hypotheses that individual Bobolinks (Dolichonyx oryzivorus) vary consistently in their response to predators, a temperament trait, and that this individual variation is associated with breeding-site selection. Specifically, we tested whether measures of behavioral response to human approaches are associated with either patch area or patch openness and thus to area sensitivity. We made two to seven sequential approaches to Bobolinks in 2009 and 2010, measuring starting distance, flight-initiation distance, and the distance from the observers to where the birds landed. We analyzed the data with repeatability estimates and linear mixed modeling. Flight-initiation distance was repeatable when starting distance was controlled for, but distance to landing was not after starting distance and flight-initiation distance were controlled for. We found no strong effect of area or openness on either flight-initiation distance or distance to landing. We conclude that this measure of response to predators shows individual variation, but this variation does not explain patterns of settlement among habitat patches. Because flight-initiation distance is often used to identify distances at which human behavior disrupts wildlife, we estimate its mean (21.8 m) and the distance at which 75%, 95%, and 99% of the Bobolinks flushed (28, 40, and 59 m, respectively).
HIERARCHICAL BAYESIAN MODELING OF BROWN TROUT POPULATION DYNAMICS

Managing brown trout (Salmo trutta fario) populations is of high concerns for many stakeholders (e.g. angling associations or hydropower companies). However, building trout life cycle models remains challenging. Here, we describe a general hierarchical Bayesian model of brown trout population dynamics that combines global (e.g. an average value of age-class annual survival) and local parameters (e.g. shelter availability influencing local carrying capacity). To fit the model, we used annual fish samplings (i.e., two-pass electrofishing followed by density estimation) conducted at 40 reaches. Reaches were located in natural (n=21) or bypassed (i.e. downstream dam; n=19) stream sections across France, thus offering different habitat characteristics. Habitat characteristics were measured at each reach, including daily flow, daily hydraulics conditions, daily temperature and shelter availability. This study (1) allowed us to understand between-reach differences in survival processes, (2) was consistent with previous studies and explained spatial variations in resident brown trout population dynamics and (3) offers a promising framework for future developments.
Interleukin‐10 does not modulate clopidogrel platelet response in mice

Essentials It is unclear whether interleukin‐10 (IL‐10) could affect clopidogrel metabolism and response. The bioactivation of and response to clopidogrel were determined between mice with or without IL‐10. Maximum clopidogrel active metabolite levels were the major driver of platelet response to clopidogrel. IL‐10 did not modulate maximum levels of clopidogrel active metabolite and its antiplatelet effects.
Half-bridge resonant inverter for domestic induction heating based on silicon carbide technology

This paper presents a half-bridge SiC resonant inverter applied to induction heating for domestic appliances. The main objective of this work is to evaluate a SiC normally-ON VJFET as this device is commercially available. Two different references of this nO-JFET have been tested. This design is focused in the extension of the usable frequency range and efficiency over the parameters typically achieved in traditional Si-IGBT domestic induction heating inverters. The paper describes the design methodology to obtain the optimal switching conditions at higher frequency limits, considering SiC technology. Fundamental aspects to be taken into account are switching losses, the choice and convenience of snubber capacitors and the driver design. Comparative results for output power delivered to an induction heating coil and load are presented, verifying the advantages of SiC technology in improved efficiency at low output power range.
Automatic Learning of Anonymization for Graphs and Dynamic Graphs. (Apprentissage automatique de fonctions d'anonymisation pour les graphes et les graphes dynamiques)

Data privacy is a major problem that has to be considered before releasing datasets to the public or even to a partner company that would compute statistics or make a deep analysis of these data. Privacy is insured by performing data anonymization as required by legislation. In this context, many different anonymization techniques have been proposed in the literature. These techniques are difficult to use in a general context where attacks can be of different types, and where measures are not known to the anonymizer. Generic methods able to adapt to different situations become desirable. We are addressing the problem of privacy related to graph data which needs, for different reasons, to be publicly made available. This corresponds to the anonymized graph data publishing problem. We are placing from the perspective of an anonymizer not having access to the methods used to analyze the data. A generic methodology is proposed based on machine learning to obtain directly an anonymization function from a set of training data so as to optimize a tradeoff between privacy risk and utility loss. The method thus allows one to get a good anonymization procedure for any kind of attacks, and any characteristic in a given set. The methodology is instantiated for simple graphs and complex timestamped graphs. A tool has been developed implementing the method and has been experimented with success on real anonymized datasets coming from Twitter, Enron or Amazon. Results are compared with baseline and it is showed that the proposed method is generic and can automatically adapt itself to different anonymization contexts.
R‐Ras interacts with filamin a to maintain endothelial barrier function

The molecular mechanisms regulating vascular barrier integrity remain incompletely elucidated. We have previously reported an association between the GTPase R‐Ras and repeat 3 of Filamin A (FLNa). Loss of FLNa has been linked to increased vascular permeability. We sought to determine whether FLNa's association with R‐Ras affects endothelial barrier function. We report that in endothelial cells endogenous R‐Ras interacts with endogenous FLNa as determined by co‐immunoprecipitations and pulldowns with the FLNa‐GST fusion protein repeats 1–10. Deletion of FLNa repeat 3 (FLNaΔ3) abrogated this interaction. In these cells FLNa and R‐Ras co‐localize at the plasma membrane. Knockdown of R‐Ras and/or FLNa by siRNA promotes vascular permeability, as determined by TransEndothelial Electrical Resistance and FITC‐dextran transwell assays. Re‐expression of FLNa restored endothelial barrier function in cells lacking FLNa whereas re‐expression of FLNaΔ3 did not. Immunostaining for VE‐Cadherin in cells with knocked down R‐Ras and FLNa demonstrated a disorganization of VE‐Cadherin at adherens junctions. Loss of R‐Ras and FLNa or blocking R‐Ras function via GGTI‐2133, a selective R‐Ras inhibitor, induced vascular permeability and increased phosphorylation of VE‐Cadherin (Y731) and Src (Y416). Expression of dominant negative R‐Ras promoted vascular permeability that was blocked by the Src inhibitor PP2. These findings demonstrate that maintaining endothelial barrier function is dependent upon active R‐Ras and association between R‐Ras and FLNa and that loss of this interaction promotes VE‐Cadherin phosphorylation and changes in downstream effectors that lead to endothelial leakiness. J. Cell. Physiol. 226: 2287–2296, 2011. © 2010 Wiley‐Liss, Inc.
Myxococcus xanthus dif Genes Are Required for Biogenesis of Cell Surface Fibrils Essential for Social Gliding Motility

ABSTRACT Myxococcus xanthus social (S) gliding motility has been previously reported by us to require the chemotaxis homologues encoded by the dif genes. In addition, two cell surface structures, type IV pili and extracellular matrix fibrils, are also critical to M. xanthus S motility. We have demonstrated here that M. xanthus dif genes are required for the biogenesis of fibrils but not for that of type IV pili. Furthermore, the developmental defects of dif mutants can be partially rescued by the addition of isolated fibril materials. Along with the chemotaxis genes of various swarming bacteria and the pilGHIJ genes of the twitching bacteriumPseudomonas aeruginosa, the M. xanthus dif genes belong to a unique class of bacterial chemotaxis genes or homologues implicated in the biogenesis of structures required for bacterial surface locomotion. Genetic studies indicate that the dif genes are linked to theM. xanthus dsp region, a locus known to be crucial forM. xanthus fibril biogenesis and S gliding.
Optical TDM 20 Gb/s-105 km transmission employing newly proposed optical PLL timing extraction

A novel optical phase-locked loop (PLL), which utilizes four wave mixing in a fiber as a phase detector, is proposed to track a data rate clock in an optically time-division-multiplexed (TDM) data stream, and to generate a prescaled electric clock directly. An optical TDM 20 Gb/s-105 km transmission experiment has been successfully performed with the optical PLL. <<ETX>>
Extracting knowledge from gene expression data: A case study of Batten Disease

Batten disease is a group of neurodegenerative disorders characterized by massive neuronal death. The devastating syndrome of Batten disease includes decline in both cognitive and motor skills, seizures, and loss of vision. The mechanism of this disease is not clear. Large-scale gene expression studies provide the possibility of identifying the molecular mechanism of this disease, and thus a first step to finding a cure. We proposed a prototype knowledge discovery and data mining (KDD-g) system to enable scientists to analyze the massive microarray data set creatively, form hypotheses intuitively, and draw insights directly into underlying mechanisms of diseases. The findings from this study establish that at the gene expression level, CLN9 is a unique form of Batten disease. It does not show any similarity with any of the other NCL variants. However, CLN9 share many common disease mechanisms with other types of Batten disease, such as abnormalities in the apoptosis pathway and protein degradation. Based on the results acquired in the preliminary data analysis using KDD, we conclude that this approach could be utilized in the future to study various clinical diseases.
The Alignment API 4.0

Alignments represent correspondences between entities of two ontologies. They are produced from the ontologies by ontology matchers. In order for matchers to exchange alignments and for applications to manipulate matchers and alignments, a minimal agreement is necessary. The Alignment API provides abstractions for the notions of network of ontologies, alignments and correspondences as well as building blocks for manipulating them such as matchers, evaluators, renderers and parsers. We recall the building blocks of this API and present here the version 4 of the Alignment API through some of its new features: ontology proxys, the expressive alignment language EDOAL and evaluation primitives.