Miracle-dz/UniFAR-FTUs huggingface dataset:
A Novel Model of Staphylococcus aureus-Induced Lymphoplasmacytic Rhinosinusitis in Rats

Chronic rhinosinusitis (CRS) is characterized by sinonasal mucosal inflammation. Staphylococcus aureus (S. aureus) is associated with severe CRS phenotypes. Different animal models have been proposed to study the association of CRS and S. aureus. However, current animal models are expensive due to the use of large animals, have high barriers to ethics approval, or require invasive surgical intervention, necessitating a need for a model that can overcome these limitations. This study aimed at establishing a reliable and efficient rat lymphoplasmacytic inflammatory model for rhinosinusitis. Sprague Dawley rats received a daily intranasal application of 20 μL of saline, S. aureus CI-182 exoprotein (250 μg/mL), or exoprotein CI-182 in combination with S. aureus clinical isolate (CI-908 or CI-913) 108 colony-forming unit (CFU)/mL. The rats’ sinuses were harvested at 1 and 2 weeks post-intervention. The CFU and histopathologic examination of inflammation were evaluated. S. aureus clinical isolates CI-908 or CI-913 in combination with the exoprotein (CI-182) had higher CFUs and caused persistently higher inflammation at both the 1 and 2-week post-intervention compared to the exoprotein and saline group. The observed inflammatory cell type was lymphoplasmacytic. This study provided evidence that the combination of a S. aureus exoprotein with S. aureus induces inflammation that persists for a minimum of two weeks post-intervention. This model is the first known animal model to create the lymphoplasmacytic inflammation subtype seen in CRS patients. This offers a cost-effective, accessible, non-invasive, and easy-to-replicate model to study the causes and treatment of such inflammation.
Robust Facial Feature Tracking Using Shape-Constrained Multiresolution-Selected Linear Predictors

This paper proposes a learned data-driven approach for accurate, real-time tracking of facial features using only intensity information. The task of automatic facial feature tracking is nontrivial since the face is a highly deformable object with large textural variations and motion in certain regions. Existing works attempt to address these problems by either limiting themselves to tracking feature points with strong and unique visual cues (e.g., mouth and eye corners) or by incorporating a priori information that needs to be manually designed (e.g., selecting points for a shape model). The framework proposed here largely avoids the need for such restrictions by automatically identifying the optimal visual support required for tracking a single facial feature point. This automatic identification of the visual context required for tracking allows the proposed method to potentially track any point on the face. Tracking is achieved via linear predictors which provide a fast and effective method for mapping pixel intensities into tracked feature position displacements. Building upon the simplicity and strengths of linear predictors, a more robust biased linear predictor is introduced. Multiple linear predictors are then grouped into a rigid flock to further increase robustness. To improve tracking accuracy, a novel probabilistic selection method is used to identify relevant visual areas for tracking a feature point. These selected flocks are then combined into a hierarchical multiresolution LP model. Finally, we also exploit a simple shape constraint for correcting the occasional tracking failure of a minority of feature points. Experimental results show that this method performs more robustly and accurately than AAMs, with minimal training examples on example sequences that range from SD quality to Youtube quality. Additionally, an analysis of the visual support consistency across different subjects is also provided.
IgM receptor‐mediated transactivation of the IgH 3′ enhancer couples a novel Elf‐1‐AP‐1 protein complex to the developmental control of enhancer function.

The function of the temporally regulated B lymphocyte‐specific immunoglobulin heavy chain (IgH) 3′ enhancer has been linked to the IgH class switch machinery, but the physiological mechanism(s) of activation has not been discerned. Following crosslinking of the IgM receptor, we demonstrate that the enhancer is transactivated in the B lymphoma cell line BAL‐17. In both induced primary B lymphocytes and BAL‐17 cells, the enhancer activation is concomitant with the recruitment of a novel DNA binding complex, nuclear factor of activated B cells (NFAB). NFAB contains the tissue‐restricted Ets protein Elf‐1 and the AP‐1 factors Jun‐B and c‐Fos, which bind to a novel 3′ enhancer ETS‐AP‐1 motif. IgM receptor‐mediated activation or stimulation by phorbol‐ester in BAL‐17 cells demonstrates that the ETS‐AP‐1 motif, when linked to a heterologous gene, can confer a ligand/receptor‐dependent response. In NIH 3T3 cells, Elf‐1 expression is required for efficient ETS‐AP‐1 promoter activity in response to stimulation by 12‐O‐tetradecanylphorbol 13‐acetate. Our results suggest a biological role for Elf‐1 in the regulation of IgH gene expression, attribute a functional role for receptor‐induced AP‐1 proteins in B lymphocytes and provide evidence for a direct link between IgM receptor‐mediated signalling and 3′ enhancer activation.
Secreted Cyclic Di-GMP Induces Stalk Cell Differentiation in the Eukaryote Dictyostelium discoideum

ABSTRACT Cyclic di-GMP (c-di-GMP) is currently recognized as the most widely used intracellular signal molecule in prokaryotes, but roles in eukaryotes were only recently discovered. In the social amoeba Dictyostelium discoideum, c-di-GMP, produced by a prokaryote-type diguanylate cyclase, induces the differentiation of stalk cells, thereby enabling the formation of spore-bearing fruiting bodies. In this review, we summarize the currently known mechanisms that control the major life cycle transitions of Dictyostelium and focus particularly on the role of c-di-GMP in stalk formation. Stalk cell differentiation has characteristics of autophagic cell death, a process that also occurs in higher eukaryotes. We discuss the respective roles of c-di-GMP and of another signal molecule, differentiation-inducing factor 1, in autophagic cell death in vitro and in stalk formation in vivo.
Technological Process to Control the Foam Dielectric Constant Application to Microwave Components and Antennas

A technological process to control the foam dielectric constant, an important issue for the design of microwave components and antennas, is described. For that purpose, the use of different commercial foam materials has been considered. This kind of foam substrate is made of original material (Polyvinyl chloride, resin, and.) into which gas is injected. Therefore, the dielectric constant of such foam is close to one. It can be increased by expelling the gas out of the foam material. The authors are presenting the technological process used to expel the gas by pressing a foam slab at relatively low temperature (90 °C). Because of this technological process, the dielectric constant variation can be controlled by the ratio between the initial and final slab thickness. It holds a great interest for the design of microwave antennas and circuits. Indeed, the dielectric constant inside gradient index lenses (Luneburg, Maxwell fish-eye, and Fresnel lenses) must follow a particular law to obtain the desired radiation capabilities. The results of materials characterization are presented to validate the technological process. Foam-based antennas and components are also shown to illustrate the interest of the process.
Scheduling real-time transactions: a performance evaluation

This thesis has six chapters. Chapter 1 motivates the thesis by describing the characteristics of real-time database systems and the problems of scheduling transactions with deadlines. We also present a short survey of related work and discuss how this thesis has contributed to the state of the art. In Chapter 2 we develop a new family of algorithms for scheduling real-time transactions. Our algorithms have four components: a policy to manage overloads, a policy for scheduling the CPU, a policy for scheduling access to data, i.e., concurrency control and a policy for scheduling I/O requests on a disk device. In Chapter 3, our scheduling algorithms are evaluated via simulation. Our chief result is that real-time scheduling algorithms can perform significantly better than a conventional non real-time algorithm. In particular, the Least Slack (static evaluation) policy for scheduling the CPU, combined with the Wait Promote policy for concurrency control, produces the best overall performance. In Chapter 4 we develop a new set of algorithms for scheduling disk I/O requests with deadlines. Our model assumes the existence of a real-time database system which assigns deadlines to individual read and write requests. We also propose new techniques for handling requests without deadlines and requests with deadlines simultaneously. This approach greatly improves the performance of the algorithms and their ability to minimize missed deadlines. In Chapter 5 we evaluate the I/O scheduling algorithms using detailed simulation. Our chief result is that real-time disk scheduling algorithms can perform better than conventional algorithms. In particular, our algorithm FD-SCAN was found to be very effective across a wide range of experiments. Finally, in Chapter 6 we summarize our conclusions and discuss how this work has contributed to the state of the art. Also, we briefly explore some interesting new directions for continuing this research.
Application of the Hidden Markov Model for innovative projects “viability” analysis

This article deals with determining of innovative projects “viability”. “Viability” is the probability of innovative project being implemented. Hidden Markov Models are used for evaluation of this factor. The problem of determining parameters of model, which produce given data sequence with the highest probability, are solving in this research. The Baum-Welch algorithm which is one implementation of Expectation-Maximization algorithm is used at this research for calculating model parameters. At the end part of the article mathematical basics for practical implementation are given (in particular mathematical description of the algorithm and implementation methods for Markov models).
Exercise May Increase Oxidative Stress in the Sciatic Nerve in Streptozotocin-Induced Diabetic Rats

Background and Objectives: Diabetic peripheral neuropathy (DPN) affects approximately half of patients with diabetes mellitus (DM), contributing to falls and fractures. Oxidative stress, which is linked to DM-induced hyperglycemia, has been implicated in the onset of DPN. Although exercise is recommended for patients with DM, its effect on DPN remains unclear. Therefore, this study aimed to investigate the effect of exercise on DPN and the mechanisms involved. Material and Methods: Thirty male Wistar rats were divided into control, streptozotocin (STZ)-induced diabetic (DM), and STZ-induced diabetic/exercise (DM + Ex) groups. Diabetes was induced using STZ injection. Rats in the DM + Ex groups underwent six weeks of treadmill exercise. Sciatic nerve parameters, which included motor nerve conduction velocity (MNCV), antioxidant enzymes (catalase, glutathione peroxidase [GPx], and superoxide dismutase [SOD]), oxidative stress markers (malondialdehyde [MDA] and 4-hydroxy-2-nonenal [4HNE]), and neurotrophic factors (brain-derived neurotrophic factor [BDNF] and nerve growth factor [NGF]), were examined. Results: Exercise alleviated DM-induced decreases in MNCV in rats. Although exercise did not significantly affect antioxidant enzyme activity, 4HNE levels increased significantly, indicating increased oxidative stress. Additionally, exercise did not significantly affect DM-induced increases in NGF and BDNF levels in rats. Conclusions: Exercise may prevent DPN in rats with DM, possibly through nonantioxidant mechanisms.
Automated Cryptanalysis of Substitution Ciphers

We use simulated annealing to provide an automated method for the cryptanalysis of mono-alphabetic substitution ciphers. We prove the convergence of the algorithm and study its performance for a specific cooling schedule. We discuss the merits of this approach and show that it provides a simple, fast and elegant solution to the cryptanalysis problem which is also promising for more complex types of block ciphers.
Inferring User's Preferences using Ontologies

We consider recommender systems that filter information and only show the most preferred items. Good recommendations can be provided only when an accurate model of the user's preferences is available. We propose a novel technique for filling in missing elements of a user's preference model using the knowledge captured in an ontology. Furthermore, we show through experiments on the MovieLens data set that our model achieves a high prediction accuracy and personalization level when little about the user's preferences is known.
A multiframe model for real-time tasks

The well-known periodic task model of Liu and Layland (1973) assumes a worst-case execution time bound for every task and may be too pessimistic if the worst-case execution time of a task is much longer than the average. We give a multiframe real-time task model which allows the execution time of a task to vary from one instance to another by specifying the execution time of a task in terms of a sequence of numbers. We investigate the schedulability problem for this model for the preemptive fixed priority scheduling policy. We show that a significant improvement in the utilization bound can be established in our model.
Hotelling-Downs Model with Limited Attraction

In this paper we study variations of the standard Hotelling-Downs model of spatial competition, where each agent attracts the clients in a restricted neighborhood, and each client randomly picks one attractive agent for service. Two utility functions for agents are considered: support utility and winner utility. We generalize the results in [Feldman et al. 2016] to the case where the clients are distributed arbitrarily. In the support utility setting, we show that a pure Nash equilibrium always exists by formulating the game as a potential game. In the winner utility setting, we show that there exists a Nash equilibrium in two cases: when there are at most 3 agents and when the size of attraction area is at least half of the entire space. We also consider the price of anarchy and the fairness of equilibria under certain conditions.
A Family of Optimal Locally Recoverable Codes

A code over a finite alphabet is called locally recoverable (LRC) if every symbol in the encoding is a function of a small number (at most r ) other symbols. We present a family of LRC codes that attain the maximum possible value of the distance for a given locality parameter and code cardinality. The codewords are obtained as evaluations of specially constructed polynomials over a finite field, and reduce to a Reed-Solomon code if the locality parameter r is set to be equal to the code dimension. The size of the code alphabet for most parameters is only slightly greater than the code length. The recovery procedure is performed by polynomial interpolation over r points. We also construct codes with several disjoint recovering sets for every symbol. This construction enables the system to conduct several independent and simultaneous recovery processes of a specific symbol by accessing different parts of the codeword. This property enables high availability of frequently accessed data (“hot data”).
Comparison of the Batho, ETAR and Monte Carlo dose calculation methods in CT based patient models.

This paper shows the contribution that Monte Carlo methods make in regard to dose distribution calculations in CT based patient models and the role it plays as a gold standard to evaluate other dose calculation algorithms. The EGS4 based BEAM code was used to construct a generic 8 MV accelerator to obtain a series of x-ray field sources. These were used in the EGS4 based DOSXYZ code to generate beam data in a mathematical water phantom to set up a beam model in a commercial treatment planning system (TPS), CADPLAN V.2. 7.9. Dose distributions were calculated with the Batho and ETAR inhomogeneity correction algorithms in head/sinus, lung, and prostate patient models for 2 x 2, 5 x 5, and 10 X 10 cm2 open x-ray beams. Corresponding dose distributions were calculated with DOSXYZ that were used as a benchmark. The dose comparisons are expressed in terms of 2D isodose distributions, percentage depth dose data, and dose difference volume histograms (DDVH's). Results indicated that the Batho and ETAR methods contained inaccuracies of 20%-70% in the maxillary sinus region in the head model. Large lung inhomogeneities irradiated with small fields gave rise to absorbed dose deviations of 10%-20%. It is shown for a 10 x 10 cm2 field that DOSXYZ models lateral scatter in lung that is not present in the Batho and ETAR methods. The ETAR and Batho methods are accurate within 3% in a prostate model. We showed how the performance of these inhomogeneity correction methods can be understood in realistic patient models using validated Monte Carlo codes such as BEAM and DOSXYZ.
Coral Thermal Tolerance: Tuning Gene Expression to Resist Thermal Stress

The acclimatization capacity of corals is a critical consideration in the persistence of coral reefs under stresses imposed by global climate change. The stress history of corals plays a role in subsequent response to heat stress, but the transcriptomic changes associated with these plastic changes have not been previously explored. In order to identify host transcriptomic changes associated with acquired thermal tolerance in the scleractinian coral Acropora millepora, corals preconditioned to a sub-lethal temperature of 3°C below bleaching threshold temperature were compared to both non-preconditioned corals and untreated controls using a cDNA microarray platform. After eight days of hyperthermal challenge, conditions under which non-preconditioned corals bleached and preconditioned corals (thermal-tolerant) maintained Symbiodinium density, a clear differentiation in the transcriptional profiles was revealed among the condition examined. Among these changes, nine differentially expressed genes separated preconditioned corals from non-preconditioned corals, with 42 genes differentially expressed between control and preconditioned treatments, and 70 genes between non-preconditioned corals and controls. Differentially expressed genes included components of an apoptotic signaling cascade, which suggest the inhibition of apoptosis in preconditioned corals. Additionally, lectins and genes involved in response to oxidative stress were also detected. One dominant pattern was the apparent tuning of gene expression observed between preconditioned and non-preconditioned treatments; that is, differences in expression magnitude were more apparent than differences in the identity of genes differentially expressed. Our work revealed a transcriptomic signature underlying the tolerance associated with coral thermal history, and suggests that understanding the molecular mechanisms behind physiological acclimatization would be critical for the modeling of reefs in impending climate change scenarios.
Friction and curvature judgement

Local shape is an important attribute that can be sensed by exploratory movements of the finger. Normally this involves a blend of tactile and proprioceptive cues. A curved surface will deform the pad of a single finger and so tactile cues can indicate whether a surface is convex or concave or whether it slopes one way or another. When more subtle discriminations must be made between different degrees of curvature, scanning motions are made in which the finger sweeps along the surface. In this case the cue to curvature is the change in position of the finger tip over time and here proprioceptive input is important. We have been examining how curvature judgements are affected by the force reflected back from the curved surface during scanning. Normally when you run your finger over a surface, you experience resistance to motion due to friction. This resistance creates a force vector which varies in direction with friction. But the vector also varies in direction with the curvature of the surface traversed by the finger. We used a two-alternative forced-choice (2AFC) task in an adaptive staircase in which subjects made comparisons between various test curvatures and a reference curvature in order to find the point of subject equality (PSE) between the two. Differences in friction between reference and test stimuli were found to alter the PSE in a consistent manner. In particular, we found that the reference curvature was only closely matched when no frictional disparity existed between reference and test surface. Reference surfaces that exerted high frictional forces produced smaller curvatures as PSEs while surfaces with low friction produced high curvature matches. These results suggest that forces experienced in palpating a surface may be utilised in the comparison of curvature.
Inference of Edge Replacement Graph Grammars

We describe an algorithm and experiments for inference of edge replacement graph grammars. This method generates candidate recursive graph grammar productions based on isomorphic subgraphs which overlap by two nodes. If there is no edge between the two overlapping nodes, the method generates a recursive graph grammar production with a virtual edge. We guide the search for the graph grammar based on the size of the grammar and the portion of the graph described by the grammar. We show experiments where we generate graphs from known graph grammars, use our method to infer the grammar from the generated graphs, and then measure the error between the original and inferred grammars. Experiments show that the method performs well on several types of grammars, and specifically that error decreases with increased numbers of unique labels in the graph.
In vivo characterization of a new type of biodegradable starch microsphere for transarterial embolization

Transarterial embolization is an established minimally invasive treatment for solid tumors. Unintended inflammation, foreign body reactions and ischemia-triggered neoangiogenesis are clinical drawbacks of permanent embolic materials. The aim of the current study was to characterize a new type of biodegradable starch microsphere with regard to angiographic and histopathological features such as patterns of acute arterial occlusion as well as induction of tissue necrosis, microsphere biodegradation, and inflammation and foreign body reactions during follow-up. Key characteristics of both biodegradable prototypes (L1 and L2; prototype groups) were as follows: microspheres are biodegradable by serum α-amylase, produced from chemically crosslinked potato starch to different extents, in a diameter range of ∼300–800 µm, differing in size distribution and featuring a microsphere deformation of ∼1%. In vivo transarterial embolization with L1 and L2, while applying clinical standard techniques, was performed and compared with clinically established permanent microspheres (Embosphere®500-700 and Embosphere®700-900; control groups). Twenty-four pig kidneys were embolized with the different embolic materials by following the study protocol, and there were no technical failures or complications. Parenchymal necrosis with interstitial calcification was observed in all kidneys independent of the type of embolic material used. Compared with the permanent embolic materials, biodegradable microspheres showed complete (L1) or partial (L2) biodegradation within one week after transarterial embolization, and induced a comparable (L1) or a lower (L2) degree of arterial wall necrosis and a lower degree of inflammation and foreign body reactions. In conclusion, the presented new type of biodegradable microsphere is promising, and could be further evaluated in terms of clinical translation.