Miracle-dz/UniFAR-FTUs huggingface dataset:
Mesenchymal-epithelial transition in sarcomas is controlled by the combinatorial 1 expression of miR-200 s and GRHL 2 2

27 Phenotypic plasticity involves a series of events through which cells transiently acquire 28 phenotypic traits of another lineage. Two of the most commonly studied types of phenotypic 29 plasticity are epithelial-mesenchymal transition (EMT) and mesenchymal-epithelial transition 30 (MET). In carcinomas, EMT drives invasion and metastatic dissemination while MET is 31 proposed to play a role in metastatic colonization. In sarcomas, phenotypic plasticity is not well32 studied; however, there is evidence that sarcomas do exhibit phenotypic plasticity, with a subset 33 of sarcomas undergoing an MET-like phenomenon. While the exact mechanisms by which 34 these transitions occur remain largely unknown, it is likely that some of the same master 35 regulators that drive EMT/MET in carcinomas also act in sarcomas. Here, we combine 36 mathematical models with bench experiments to develop a predictive framework to identify a 37 core regulatory circuit that controls MET in sarcomas. This circuit comprises the miR-200 family, 38 ZEB1, and GRHL2. Interestingly, we find that combined expression of miR-200s and GRHL2 39 further upregulates epithelial genes to induce MET. This effect is phenocopied by 40 downregulation of either ZEB1 or the ZEB1 co-factor, BRG1. In addition, an MET gene 41 expression signature is prognostic for improved overall survival in sarcoma patients. Together, 42 our results suggest that a miR-200, ZEB1, GRHL2 gene regulatory network may drive sarcoma 43 cells to a more epithelial-like state and this likely has prognostic relevance. 44 45 46
Input Feature Selection by Mutual Information Based on Parzen Window

Mutual information is a good indicator of relevance between variables, and have been used as a measure in several feature selection algorithms. However, calculating the mutual information is difficult, and the performance of a feature selection algorithm depends on the accuracy of the mutual information. In this paper, we propose a new method of calculating mutual information between input and class variables based on the Parzen window, and we apply this to a feature selection algorithm for classification problems.
Search Intent Mining by Word Vectors Clustering at NTCIR-IMine

This paper presents a method for intent mining based on semantic vectors and search results clustering. Our algorithm represent words as documents and performs a state-of-the-art approach for query log driven clustering. Similarities be-tween query logs and words are calculated by using semantic vectors. Based on a manual selection of vertical representatives, our method is able to correctly identify intents and to classify them into vertical classes. Results in the Query Understanding of the iMine2@NTCIR subtask show that our unique run submission outperforms other participants in terms of D − nDCG @10 and achieves the second position in the general team raking.
Participation during First Social Encounters in Schizophrenia

Background Patients with a diagnosis of schizophrenia are socially excluded. The aim of this study was to investigate how patients participate in first encounters with unfamiliar healthy participants, who are unaware of their diagnosis. Methods Patterns of participation were investigated during interactions involving three-people. Three conversation roles were analysed: (i) speaker, (ii) primary recipient- focus of the speaker’s attention and (iii) secondary recipient- unaddressed individual. Twenty patient interactions (1 patient, 2 healthy controls) and 20 control interactions (3 healthy participants) were recorded and motion captured in 3D. The participation of patients and their partners, in each conversation role, was compared with controls at the start, middle and end of the interaction. The relationship between patients’ participation, their symptoms and the rapport others experienced with them was also explored. Results At the start of the interaction patients spoke less (ß = −.639, p = .02) and spent more time as secondary recipient (ß = .349, p = .02). Patients’ participation at the middle and end of the interaction did not differ from controls. Patients’ partners experienced poorer rapport with patients who spent more time as a primary recipient at the start of the interaction (Rho(11) = −. 755, p<. 01). Patients’ participation was not associated with symptoms. Conclusion Despite their increased participation over time, patients’ initial participation appears to be associated with others’ experience of rapport with them. Thus, the opening moments of patients’ first encounters appear to be interpersonally significant. Further investigation of patient and others’ behaviour during these critical moments is warranted in order to understand, and possibly develop interventions to address, the difficulties schizophrenia patients experience here.
Partout: a distributed engine for efficient RDF processing

The increasing interest in Semantic Web technologies has led not only to a rapid growth of semantic data on the Web but also to an increasing number of backend applications relying on efficient query processing. Confronted with such a trend, existing centralized state-of-the-art systems for storing RDF and processing SPARQL queries are no longer sufficient. In this paper, we introduce Partout, a distributed engine for fast RDF processing in a cluster of machines. We propose an effective approach for fragmenting RDF data sets based on a query log and allocating the fragments to hosts in a cluster of machines. Furthermore, Partout's query optimizer produces efficient query execution plans for ad-hoc SPARQL queries.
Hydrogen trapping in bearing steels : mechanisms and alloy design

Hydrogen embrittlement is a problem that offers challenges both to technology and to the theory of metallurgy. In the presence of a hydrogen rich environment, applications such as rolling bearings display a significant decrease in alloy strength and accelerated failure due to rolling contact fatigue. In spite of these problems being well recognised, there is little understanding as to which mechanisms are present in hydrogen induced bearing failure. The objective of this thesis are twofold. First, a novel alloy combining the excellent hardness of bearing steels, and resistance to hydrogen embrittlement, is proposed. Second, a new technique to identify the nature of hydrogen embrittlement in bearing steels is suggested. The new alloy was a successful result of computer aided alloy design; thermodynamic and kinetic modelling were employed to design a composition and heat treatment combining (1) fine cementite providing a strong and ductile microstructure, and (2) nano-sized vanadium carbide precipitates acting as hydrogen traps. A novel technique is proposed to visualise the migration of hydrogen to indentation-induced cracks. The observations employing this technique strongly suggest that hydrogen enhanced localised plasticity prevails in bearing steels. While proposing a hydrogen tolerant bearing steel grade, and a new technique to visualize hydrogen damage, this thesis is expected to aid in increasing the reliability of bearings operating in hydrogen rich environments.
Interfacial reactions of rf-sputtered TiNi thin films on (100) silicon with a SiN diffusion barrier

Silicon nitride (SiN) with a 50 nm thickness on Si(100) as a thermal barrier was obtained by plasma-enhanced chemical vapour deposition (PECVD). TiNi thin films were rf sputtered on a SiN/Si substrate and then annealed at 400–700°C for 30 min. Their interfacial reactions were studied using transmission electron microscopy, X-ray diffraction and Auger electron spectroscopy analyses. Experimental results show that the thickness of reaction layer in TiNi/SiN/Si specimens is clearly reduced, compared with that in TiNi/Si specimens under the same annealing conditions. The significant effect of the SiN layer as a diffusion barrier in TiNi/SiN/Si can be recognized. N and Si atoms diffuse from the SiN layer to react with TiNi films at 500°C and 600°C respectively. The TiN1 − x phase is formed in specimens annealed at 500°C, and mixed Ti2Ni3Si and Ti4Ni2O compounds are found at 600°C. In the specimen annealed at 700°C, the reaction layer has sublayers in the sequence TiNi/Ti4Ni2O/Ti2Ni3Si/TiN1 − x /SiN/Si. The SiN thermal barrier obtained by PECVD caused quite different diffusion species to cross the interfaces between TiNi/SiN/Si and TiNi/Si specimens during the annealing.
Predicting spike times from subthreshold dynamics of a neuron

It has been established that a neuron reproduces highly precise spike response to identical fluctuating input currents. We wish to accurately predict the firing times of a given neuron for any input current. For this purpose we adopt a model that mimics the dynamics of the membrane potential, and then take a cue from its dynamics for predicting the spike occurrence for a novel input current. It is found that the prediction is significantly improved by observing the state space of the membrane potential and its time derivative(s) in advance of a possible spike, in comparison to simply thresholding an instantaneous value of the estimated potential.
Comparison between axonal and retinal ganglion cell gene expression in various optic nerve injuries including glaucoma

Purpose The pathogenesis of retinal ganglion cell loss in glaucoma remains incompletely understood. Current evidence suggests that the optic nerve (ON) head and axons are the main site of injury in glaucoma. This study compares changes in prosurvival and proapoptotic gene expression in ONs with those in retinas in three models of ocular injury, specifically ON transection (ONTX), N-methyl-D-aspartate (NMDA) retinal toxicity, and experimental glaucoma. Methods Rats (n=240) were divided into three models (ONTX, NMDA retinal toxicity, and experimental glaucoma). The experimental model was induced unilaterally and the contralateral eye served as control. Rats were sacrificed at 4–5 different time points specific for each model. ONs and retinas were isolated for real-time PCR investigation of expression of selected genes. Immunohistochemistry localized changes in inhibitor of apoptosis (IAP)-1 and X-linked IAP (XIAP) proteins in retinas and ONs. Colocalization was measured using Imaris colocalization software (three-dimensional analysis). Results The earliest changes in gene expression occurred in ONs in the ONTX model and in retinas in the NMDA model, as expected. However, some gene changes occurred first in ONs, while others occurred first in retinas in the glaucoma model. The expression patterns of the prosurvival genes IAP-1 and XIAP differed between retinas and ONs of glaucomatous eyes: Both were upregulated in the retinas, but XIAP was downregulated in the ONs, while IAP-1 stayed unchanged. Colocalization of IAP-1, XIAP, glial fibrillary acidic protein, and Thymus cell antigen-1 (Thy-1) suggested that IAP-1 was colocalized mostly with Thy-1 and XIAP with glial fibrillary acidic protein in the ONs. Members of the B-cell lymphoma 2 (BCL-2) family were similarly involved in the ONs and retinas of glaucomatous, transected, and NMDA-injected eyes. The expression of the prosurvival genes, Bcl-2 and Bcl-xl, decreased significantly in both the ONs and retinas of injured eyes. The proapoptotic genes, BCL2-associated X protein (BAX) and Bcl-2-associated death promoter (BAD), were significantly upregulated in both injured retinas and ONs. Conclusions The overexpression of XIAP and IAP-1 genes in the retinas was not associated with similar changes in the ONs of glaucomatous eyes. The lack of activation of these prosurvival genes in the ONs may explain the increased vulnerability of ONs to elevated intraocular pressure.
Channel-Based Sybil Detection in Industrial Wireless Sensor Networks: A Multi-Kernel Approach

Industrial Wireless Sensor Networks (IWSNs) integrate various types of sensors to measure and control industrial production. However, the unattended open environment makes IWSNs vulnerable to malicious attacks, such as Sybil attacks, which may degrade the network performance. In addition, multipath distortion, impulse noise and interference effects in the harsh industrial environment may influence the accuracy of attack detection. In this paper, we propose a Sybil detection scheme based on power gain and delay spread analysis by exploiting the spatial variability from their channel responses. Specifically, we utilize channel-vectors to represent the sensor features based on the power gain and delay spread extracted from channel response. Furthermore, we develop a kernel-oriented method to distinguish Sybil attackers from benign sensors by clustering the channel-vectors. In addition, to alleviate the impact of industrial noise and interference effects, we design a multi-kernel based fuzzy c-means method to map the extracted channel-vectors into a new feature space such that the dispersive effects on the channel-vectors can be reduced. We also propose a parameter selection method to optimize the employed kernels. The simulation results show that the proposed multi-kernel scheme can achieve high accuracy in detecting the packets from Sybil attackers, and tolerate the dispersive attenuation and interference effects in the industrial environments.
Design of full band IIR digital differentiators

This paper presents an efficient method for designing full band IIR digital differentiators in the complex Chebyshev sense. The proposed method is based on the formulation of a generalized eigenvalue problem by using the Remez multiple exchange algorithm. Therefore, a set of filter coefficients can be easily obtained by solving the eigenvalue problem to find the absolute minimum eigenvalue, and then the complex Chebyshev approximation is attained through a few iterations starting from a given initial guess. The proposed algorithm is computationally efficient because it not only retains the speed inherent in the Remez exchange algorithm, but also simplifies the interpolation step. One design example is presented and compared with the conventional methods. It can be seen that the design results obtained by using the proposed method are better than that in the conventional methods.
A short survey of linked data ranking

Linked data systems are still far from maturity. Hence, the basic principles are still open for discussion. In our study on building a novel linked data search engine, we have surveyed fundamental methods of internet search technologies in the context of linked data crawling, indexing, ranking, and monitoring. The scope of this ranking survey covers linked data related statistical ranking, database ranking, document level ranking, and Web ranking techniques. In order to classify the linked data ranking methods, we identified a number of categories. These categories are ontology ranking, RDF ranking, graph ranking, entity ranking, document/domain ranking. At the end of the survey, we have listed the ranking techniques based on the well-known PageRank algorithm.
Interrupted versus continuous suturing for vesicourethral anastomosis during radical prostatectomy: protocol for a systematic review and meta-analysis

Introduction Radical prostatectomy is the mainstay of treatment for prostate cancer. The vesicourethral anastomosis is a critical step, which most likely impacts urinary continence and urethral stenosis. To date, it still remains unclear whether interrupted and continuous suturing for the anastomosis have different outcomes. Therefore, the aim of this systematic review and meta-analysis is to compare different suture techniques for vesicourethral anastomosis in terms of surgical and functional parameters. Methods and analysis A comprehensive literature search will be conducted covering MEDLINE, Embase, Web of Science, the Cochrane Central Register of Controlled Trials and ClinicalTrials.gov. Studies comparing interrupted versus continuous suturing will be included in the analyses. No language restrictions will be applied. Screening, data extraction, statistical analysis and reporting will be done in line with the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) guidelines. Quality assessment will be performed with the help of the Cochrane Collaboration’s tool for assessing risk of bias and the Newcastle-Ottawa Scale for assessing quality of non-randomised studies. The quality of evidence will be evaluated with the Grading of Recommendations Assessment, Development and Evaluation. The primary outcome will be the time until removal of the urinary catheter. Secondary outcomes include rate of extravasation, length of hospital stay, time needed to perform the anastomosis, continence level at defined postoperative intervals and development of urethral strictures. Quantitative analysis will be calculated if meaningful. Ethics and dissemination In order to meet the highest ethical and methodological standards. we followed the PRISMA Protocol 2015 checklist. Each item was answered appropriately. For systematic reviews the ethical issues are strictly methodological as only data that were published earlier will be used. The full manuscript will be submitted to a peer-reviewed journal. Furthermore, the results will be presented on national and international congresses. Trial registration number International prospective register of systematic reviews PROSPERO CRD42017076126.
A Real Options Analysis of Dual Labor Markets and the Single Labor Contract

We study the optimal hiring and firing decisions of a firm under two different firing costs regulations: 1) Dual labor markets characterized by high firing costs for workers with seniority above a threshold ("permanent workers") and by low costs for "temporary workers". 2) The Single Labor Contract, a policy proposal to make firing costs increasing in seniority at the job. We focus on the option value implied by the regulations and obtain some new results: the optimal firing rule is a constant function of worker's productivity only for permanent workers. For temporary workers it varies with seniority at the job because the firm tries to keep alive the option to fire at low cost. In the Dual regulation the workers more likely to be fired are those close to become permanent. On the contrary, the Single Contract transfers that maximum firing to the new hires. Thus, fired workers are fired sooner under the Single Contract. However, if both regulations have the same average firing cost for workers who become permanent, temporary workers are less likely to be fired in the Single Contract. Moreover, this new regulation increases hiring and average employment duration. It also reduces turnover among temporary workers, but at the expense of higher turnover among permanent workers who are more often replaced by temporary workers.
STRIDE-based threat modeling for cyber-physical systems

Critical infrastructures and industrial control systems are complex Cyber-Physical Systems (CPS). To ensure reliable operations of such systems, comprehensive threat modeling during system design and validation is of paramount significance. Previous works in literature mostly focus on safety, risks and hazards in CPS but lack effective threat modeling necessary to eliminate cyber vulnerabilities. Further, impact of cyber attacks on physical processes is not fully understood. This paper presents a comprehensive threat modeling framework for CPS using STRIDE, a systematic approach for ensuring system security at the component level. This paper first devises a feasible and effective methodology for applying STRIDE and then demonstrates it against a real synchrophasor-based synchronous islanding testbed in the laboratory. It investigates (i) what threat types could emerge in each system component based on the security properties lacking, and (ii) how a vulnerability in a system component risks the entire system security. The paper identifies that STRIDE is a light-weight and effective threat modeling methodology for CPS that simplifies the task for security analysts to identify vulnerabilities and plan appropriate component level security measures at the system design stage.
SIMULATIONS OF HUMAN SWIMMING USING SMOOTHED PARTICLE HYDRODYNAMICS

Human swimming is a challenging problem to simulate using computational fluid dynamics because of the combination of turbulent flow; complex free surface motion including splashing and entrainment of gas; and rapidly deforming swimmer geometry. The mesh-free Smoothed Particle Hydrodynamics (SPH) technique is ideally suited to overcome many of these difficulties. Initial simulations of towing using SPH for both male and female swimmers in a fixed glide pose at different speeds are presented. The surface shapes of the swimmers’ bodies were generated from laser scans of athletes. The motion of a male swimmer in submerged dolphin-kick swimming is also explored. The stroke kinematics was generated using skeletal based deformation of the surface mesh to closely mimic underwater video footage of an elite swimmer. The two cases investigated are of slow kicking at 0.8 Hz with a prescribed speed of 1.0 m/s and of fast kicking at 2.0 Hz with a speed of 1.5 m/s. They demonstrate the capability of SPH to handle the modelling complexities that human swimming represents.
Role-explicit query identification and intent role annotation

Understanding the information need or intent encoded within a query has long been regarded as an essential factor of effective information retrieval. For better query representation and understanding, two intent roles (kernel-object and modifier) are introduced to structurally parse a class of role-explicit queries, which constitute a majority of common user queries. Furthermore, we focus on two research problems: RP-1: Given a role-explicit query, how to identify the kernel-object and modifier, namely intent role annotation; RP-2: How to determine whether an arbitrary query is role-explicit or not. To solve RP-1, we propose a simplified word n-gram role model (SWNR), which quantifies the generating probability of a role-explicit query and performs intent role annotation effectively. Using a set of discriminative features, we build classifiers to address RP-2 in a supervised manner. The experimental results show that: (1) SWNR can achieve a satisfactory performance, more than 73% in terms of different metrics; (2) The classifiers can achieve more than 90% precision in identifying role-explicit queries; (3) Compared with traditional techniques for query representation and understanding, e.g., name entity recognition in query and class-level query intent inference, intent role annotation provides a more flexible framework and a number of applications can benefit from annotating role-explicit queries, such as intent mining and diversified document ranking.
Study on highway geological disasters knowledge base for remote sensing images interpretation

Knowledge can help to find a problem-solution quickly, and knowledge base is a practical tool for managing knowledge systematically. Due to highway geological disasters, cognition from remote sensing images is a complex technology; it's relevant for disaster mitigation to establish a knowledge base. But most of the frameworks of knowledge base are incomplete due to lack of experts' knowledge and insufficient quantitative knowledge from images. The purpose of this paper is to construct a highway geological disasters knowledge base (HGDKB) by making full use of multi-features knowledge of images, the visual recognition knowledge of experts, and the object-oriented approach to enabling knowledge being shared for highway geological disasters cognition. Firstly, the knowledge base framework is built, and the object-oriented method is used to represent knowledge by extensible markup language (XML) programming. Then, with the completion of HGDKB, the knowledge base is used to discern and recognize the debris movements with state highway corridor from Wenchuan to Dujiangyan of Sichuan of China as the pilot study.