Miracle-dz/UniFAR-FTUs huggingface dataset:
Sonic hedgehog protein promotes bone marrow-derived endothelial progenitor cell proliferation, migration and VEGF production via PI 3-kinase/ Akt signaling pathways

AbstractAim:To investigate the effects of Sonic hedgehog (shh) protein on bone marrow-derived endothelial progenitor cells (BM-EPC) proliferation, migration and vascular endothelial growth factor (VEGF) production, and the potential signaling pathways involved in these effects.Methods:Bone marrow-derived Flk-1+ cells were enriched using the MACS system from adult Kunming mice and then BM-EPC was cultured in gelatin-coated culture dishes. The effects of shh N-terminal peptide on BM-EPC proliferation were evaluated using the MTT colorimetric assay. Cell migration was assayed using a modified Boy den chamber technique. The production of VEGF was determined by ELISA and immunofluorescence analysis. The potential involvement of PKC and PI3K signaling pathways was explored using selective inhibitor or Western blot.Results:The proliferation, migration and VEGF production in BM-EPC could be promoted by endogenous shh N-terminal peptide at concentrations of 0.1 μg/mL to 10 μg/mL, and could be inhibited by anti-shh antibodies. Shh-mediated proliferation and migration in BM-EPC could be partly attenuated by anti-VEGF. Phospho-PI3-kinase expression in newly separated BM-EPC was low, and it increased significantly when exogenous shh N-terminal peptide was added, but could be attenuated by anti-human/mouse shh N-terminal peptide antibody. Moreover, the inhibitor of the PI3-kinase, but not the inhibitor of the PKC, significantly inhibited the shh-mediated proliferation, migration and VEGF production.Conclusion:Shh protein can stimulate bone marrow-derived BM-EPC proliferation, migration and VEGF production, which may promote neovascularization to ischemic tissues. This results also suggests that the PI3-kinase/Akt signaling pathways are involved in the angiogenic effects of shh.
A Biodegradable Microneedle Cuff for Comparison of Drug Effects through Perivascular Delivery to Balloon-Injured Arteries

Restenosis at a vascular anastomosis site is a major cause of graft failure and is difficult to prevent by conventional treatment. Perivascular drug delivery has advantages as drugs can be diffused to tunica media and subintima while minimizing the direct effect on endothelium. This in vivo study investigated the comparative effectiveness of paclitaxel, sirolimus, and sunitinib using a perivascular biodegradable microneedle cuff. A total of 31 New Zealand white rabbits were used. Rhodamine was used to visualize drug distribution (n = 3). Sirolimus- (n = 7), sunitinib- (n = 7), and paclitaxel-loaded (n = 7) microneedle cuffs were placed at balloon-injured abdominal aortae and compared to drug-free cuffs (n = 7). Basic histological structures were not affected by microneedle devices, and vascular wall thickness of the device-only group was similar to that of normal artery. Quantitative analysis revealed significantly decreased neointima formation in all drug-treated groups (p < 0.001). However, the tunica media layer of the paclitaxel-treated group was significantly thinner than that of other groups and also showed the highest apoptotic ratio (p < 0.001). Proliferating cell nuclear antigen (PCNA)-positive cells were significantly reduced in all drug-treated groups. Sirolimus or sunitinib appeared to be more appropriate for microneedle devices capable of slow drug release because vascular wall thickness was minimally affected.
Unbalanced Magnetic Forces in Permanent-Magnet Brushless Machines With Diametrically Asymmetric Phase Windings

A general analytical model, formulated in 2-D polar coordinates, is developed to predict the unbalanced magnetic force, which results in permanent-magnet brushless ac and dc machines having a diametrically asymmetric disposition of slots and phase windings. It is shown that the unbalanced magnetic force can be significant in machines having a fractional ratio of slot number to pole number, particularly when the electric loading is high. The developed model is validated by finite-element calculations on 9-slot/8-pole and 3-slot/2-pole machines. In addition, the unbalanced magnetic force has been measured on a prototype 3-slot/2-pole machine and shown to be in excellent agreement with predicted results.
Formation of Co-continuous Structures in Melt-Mixed Immiscible Polymer Blends

Abstract Co-continuous structures can be regarded as the coexistence of at least two continuous structures within the same volume. Blends with co-continuous structures may combine the properties of both components in a favorable way, for example, mechanical moduli. This review article deals with the identification, characterization, and properties of co-continuous structures as well as with the development of co-continuous structures during the melt blending process. Co-continuous structures usually can be formed within a composition region about the phase inversion composition, which mainly depends on the viscosity ratio. On the other hand, co-continuous structures can be found independent of composition as intermediate stages during the initial state of morphology development and during phase inversion process in blends in which the component finally forming the dispersed phase forms the matrix in early mixing states. In addition, even at low volume fractions of one component, stable co-continuous morphologies can be created using suitable processing conditions, forming long elongated interconnected structures that do not break up because of the flow. The interfacial tension plays an important role for the stability; a lower interfacial tension leads to broader composition ranges of co-continuous structures. Another factor enhancing the formation and stability of co-continuous structure is melt yield stress of one or both components of blends. In addition, this article reviews the stability of co-continuous structures during further processing and the influence of compatibilization on the structure formation and stability. Subsequently, two models describing the co-continuous composition range are discussed.
Human Interaction Recognition Using Hierarchical Invariant Features

Human interaction recognition has been widely studied because it has great scientific importance and many potential practical applications. However, recognizing human interactions is also very challenging especially in realistic environments where the background is dynamic or has varying lighting conditions. Most existing methods rely on either spatio-temporal local features (i.e. SIFT) or human poses, or human joints to model human interactions. As a result, they are not fully unsupervised processes because they require either hand-designed features or human detection results. Motivated by the recent success of deep learning networks, we investigate a three-layer convolutional network which uses the Independent Subspace Analysis (ISA) algorithm to learn hierarchical invariant features from videos. Using the invariant features learned by the ISA, we build a bag-of-features (BOF) model to recognize human interactions. We also evaluate the performance of our approach and the effectiveness of hierarchical invariant features on video sequences of the UT-Interaction dataset which contain both interacting persons and irrelevant pedestrians in the scenes. The dataset imposes several challenging factors including moving backgrounds, clutter scenes, scales and camera jitters. Experimental results show that our three-layer convolutional ISA network is able to learn features which are effective to represent complex activities such as human interactions in realistic environments.
Analysis of the Stem-Sleeve Interface in a Modular Titanium Alloy Femoral Component for Total Hip Replacement

Modular femoral components for total hip arthroplasty have been clinically available since the 1980s. Despite the widespread use of interlocking tapers in hip prostheses, researchers have raised concerns about fretting, which has been clinically observed at the tapered modular interface of retrieved femoral heads and the trunions, as well as at the stem-sleeve junctions of retrieved femoral stems. Fretting can lead to degradation of the modular interfaces by the mechanisms of fretting wear, fretting corrosion, and fretting fatigue, all of which have potentially negative consequences for a total hip arthroplasty.
The FAD-dependent glycerol-3-phosphate dehydrogenase of Giardia duodenalis: an unconventional enzyme that interacts with the g14-3-3 and it is a target of the antitumoral compound NBDHEX

The flagellated protozoan Giardia duodenalis is a worldwide parasite causing giardiasis, an acute and chronic diarrheal disease. Metabolism in G. duodenalis has a limited complexity thus making metabolic enzymes ideal targets for drug development. However, only few metabolic pathways (i.e., carbohydrates) have been described so far. Recently, the parasite homolog of the mitochondrial-like glycerol-3-phosphate dehydrogenase (gG3PD) has been identified among the interactors of the g14-3-3 protein. G3PD is involved in glycolysis, electron transport, glycerophospholipids metabolism, and hyperosmotic stress response, and is emerging as promising target in tumor treatment. In this work, we demonstrate that gG3PD is a functional flavoenzyme able to convert glycerol-3-phosphate into dihydroxyacetone phosphate and that its activity and the intracellular glycerol level increase during encystation. Taking advantage of co-immunoprecipitation assays and deletion mutants, we provide evidence that gG3PD and g14-3-3 interact at the trophozoite stage, the intracellular localization of gG3PD is stage dependent and it partially co-localizes with mitosomes during cyst development. Finally, we demonstrate that the gG3PD activity is affected by the antitumoral compound 6-(7-nitro-2,1,3-benzoxadiazol-4-ylthio)hexanol, that results more effective in vitro at killing G. duodenalis trophozoites than the reference drug metronidazole. Overall, our results highlight the involvement of gG3PD in processes crucial for the parasite survival thus proposing this enzyme as target for novel antigiardial interventions.
Analysis of Fracture Toughness and Crack Propagation of Ti6Al4V Produced by Selective Laser Melting

This paper describes and analyzes fracture toughness and crack propagation of selective laser molten (SLM) components made from Ti6Al4V powder particles. The main goal of this research is to gain more insight in the fracture mechanisms of this relatively new material and to improve the static and dynamic behavior of cracked SLM‐Ti components. At first, the SLM process parameters are optimized until the relative material density equals 99.7%. This is close to the relative density of vacuum arc remelted mill annealed standard oxygen titanium which is used as a reference for all experiments. A distinctive difference in phase morphology and texture of the microstructure is noticed between the SLM and the reference titanium. The fine acicular martensite phase of the SLM‐Ti results in more brittle behavior and inferior fracture toughness. On the other hand, the fine grained microstructure leads to a large number of grain boundaries acting as obstacle points for crack propagation. Consequently, crack growth properties do not significantly differ between both. Microstructural analysis of the crack growth and final failure areas on the fractured surfaces is performed to study the failure mechanisms in more detail.
Which graphical models are difficult to learn?

We consider the problem of learning the structure of Ising models (pairwise binary Markov random fields) from i.i. d. samples. While several methods have been proposed to accomplish this task, their relative merits and limitations remain somewhat obscure. By analyzing a number of concrete examples, we show that low-complexity algorithms systematically fail when the Markov random field develops long-range correlations. More precisely, this phenomenon appears to be related to the Ising model phase transition (although it does not coincide with it).
Annotating Business Processes with Usage Controls

Complex Supply Chain interactions provide an ideal example of interconnected physical and logical assets that require protection. More specifically, we observe an increasing demand for specifying and enforcing usage control policies within supply chains, relating to both physical + as well as logical assets. In this paper we will highlight some possible usage control scenarios. We will present our existing control visualization framework to position the identified usage controls in the more general context of safety and security controls. We provide an indepth discussion of the key constructs of our model and how they can be used to specify and visualize usage controls.
Transcriptional interference networks coordinate the expression of functionally related genes clustered in the same genomic loci

The regulation of gene expression is essential for normal functioning of biological systems in every form of life. Gene expression is primarily controlled at the level of transcription, especially at the phase of initiation. Non-coding RNAs are one of the major players at every level of genetic regulation, including the control of chromatin organization, transcription, various post-transcriptional processes, and translation. In this study, the Transcriptional Interference Network (TIN) hypothesis was put forward in an attempt to explain the global expression of antisense RNAs and the overall occurrence of tandem gene clusters in the genomes of various biological systems ranging from viruses to mammalian cells. The TIN hypothesis suggests the existence of a novel layer of genetic regulation, based on the interactions between the transcriptional machineries of neighboring genes at their overlapping regions, which are assumed to play a fundamental role in coordinating gene expression within a cluster of functionally linked genes. It is claimed that the transcriptional overlaps between adjacent genes are much more widespread in genomes than is thought today. The Waterfall model of the TIN hypothesis postulates a unidirectional effect of upstream genes on the transcription of downstream genes within a cluster of tandemly arrayed genes, while the Seesaw model proposes a mutual interdependence of gene expression between the oppositely oriented genes. The TIN represents an auto-regulatory system with an exquisitely timed and highly synchronized cascade of gene expression in functionally linked genes located in close physical proximity to each other. In this study, we focused on herpesviruses. The reason for this lies in the compressed nature of viral genes, which allows a tight regulation and an easier investigation of the transcriptional interactions between genes. However, I believe that the same or similar principles can be applied to cellular organisms too.
Liquid crystal microfluidics: surface, elastic and viscous interactions at microscales

The hydrodynamic properties of nematic liquid crystals are characterized by a complex mutual coupling between flow, viscosity, and nematic order. While the flow behaviour of nematic bulk samples is well known, corresponding studies in microfluidic settings are still at an early stage. The presence of the four confining channel walls – and in particular the nature of the surface anchoring of the nematic order on the walls – adds new phenomena to the already rich and multifaceted flow behaviour. We present an overview of recent studies focusing on the microfluidics of nematic liquid crystals. Particular topics are the functionalization of the channel walls for defined surface anchoring conditions and the resulting structures of the nematic director field, the controlling and tuning of the flow velocity profile and director field configuration and resulting opto-fluidic applications, and the behaviour of topological defects in the flowing nematic and their application for a guided colloidal transport.
In vitro cytotoxicity studies of hydrogel pullulan nanoparticles prepared by AOT/N-hexane micellar system.

PURPOSE The purpose of this study was to prepare crosslinked pullulan nanoparticles encapsulating bioactive molecules inside the aqueous core of Aerosol-OT/n-hexane reverse micellar droplets with narrow size distribution for drug and gene delivery applications. METHODS The nanoparticles have been characterised by various physico-chemical methods such as dynamic light scattering (DLS), transmission electron microscopy (TEM), scanning electron microscopy (SEM), loading capacity and in vitro release behaviour in aqueous buffer. The influence of these nanoparticles on human dermal fibroblasts in vitro has been assessed in terms of cell adhesion, cytotoxicity and light microscopy. RESULTS Size distribution studies using DLS and TEM show that the particles are spherical in shape with size of 42.0+/-2.5 nm diameter. Release of FITC-Dex from nanoparticles increased with time with 75% of dye released in 6 hours, while only 40% of the dye was released in the initial 2 hours. Results from cell adhesion/viability assay suggest that the pullulan nanoparticles are non-toxic to cells and do not cause any distinct harm to cells. Fibroblasts were healthy and maintained their morphology and adhesion capacity. CONCLUSIONS These studies indicated that these nanoparticles have further merit as possible carriers for genes and nucleotide drugs for intracellular delivery.
Robust model predictive control with imperfect information

This paper presents two extensions to robust model predictive control (MPC) involving imperfect information. Previous work developed a form of MPC guaranteeing feasibility and constraint satisfaction given an unknown but bounded disturbance and perfect state information. In the first extension, this controller is modified to account for an unknown but bounded state estimation error. As an example, a simple estimator is proposed and analyzed to provide the necessary error bounds. Furthermore, it is shown that delayed state information can be handled using the same method. These analyses depend on knowledge of bounds on the measurement and disturbance uncertainties. The second extension provides a method of estimating these bounds using available data, providing an adaptive form of the controller for cases where the error levels are poorly known a priori.
Retrospective think-aloud method: using eye movements as an extra cue for participants' verbalizations

The retrospective think-aloud method, in which participants work in silence and verbalize their thoughts afterwards while watching a recording of their performance, is often used for the evaluation of websites. However, participants may not always be able to recall what they thought, when they only see few visual cues that help them remembering their task execution process. In our study we complemented the recording of the performance with a gaze trail of the participant" eye movements, in order to elicit more verbalizations. A comparison was made between the traditional retrospective think-aloud protocols and the variant with eye movements. Contrary to our expectations, no differences were found between the two conditions on numbers of problems, the ways these problems were detected, and types of problems. Two possible explanations for this result are that eye movements might be rather confronting and distracting for participants, and the rather generic way of probing we used. The added value might be stronger when specific questions are asked, based on the observed eye movements. Implications for usability practitioners are discussed in the conclusions of this paper.
Fast and accurate incremental entity resolution relative to an entity knowledge base

User facing topical web applications such as events or shopping sites rely on large collections of data records about real world entities that are updated at varying latencies ranging from days to seconds. For example, event venue details are changed relatively infrequently whereas ticket pricing and availability for an event is often updated in near-realtime. Users regard these sites as high quality if they seldom show duplicates, the URLs are stable, and their content is fresh, so it is important to resolve duplicate entity records with high quality and low latencies. High quality entity resolution typically evaluates the entire record corpus for similar record clusters at the cost of latency, while low latency resolution examines the least possible entities to keep time to a minimum, even at the cost of quality. In this paper we show how to keep low latency while achieving high quality, combining the best of both approaches: given an entity to be resolved, our incremental Fastpath system, in a matter of milliseconds, makes approximately the same decisions that the underlying batch system would have made. Our experiments show that the Fastpath system makes matching decisions for previously unseen entities with 90% precision and 98% recall relative to batch decisions, with latencies under 20ms on commodity hardware.
A hierarchical combinatorial reliability model for smart home systems

As an application of the Internet of Things, smart home systems have received significant attentions in recent years due to their precedent advantages, eg, in ensuring efficient electricity transmission and integration with renewable energy. This paper proposes a hierarchical and combinatorial methodology for modeling and evaluating reliability of a smart home system. Particularly, the proposed methodology encompasses a multi‐valued decision diagram‐based method for addressing phased‐mission, standby sparing, and functional dependence behaviors in the physical layer; and a combinatorial procedure based on the total probability theorem for addressing probabilistic competing failure behavior with random propagation time in the communication layer. The methods are applicable to arbitrary types of time‐to‐failure and time‐to‐propagation distributions for system components. A detailed case study of an example smart home system is performed to demonstrate applications of the proposed method and effects of different component parameters on the system reliability.
Adaptor Function of PapF Depends on Donor Strand Exchange in P-Pilus Biogenesis of Escherichia coli

ABSTRACT P-pilus biogenesis occurs via the highly conserved chaperone-usher pathway and involves the strict coordination of multiple subunit proteins. All nonadhesin structural P-pilus subunits possess the same topology, consisting of two domains: an incomplete immunoglobulin-like fold (pilin body) and an N-terminal extension. Pilus subunits form interactions with one another through donor strand exchange, occurring at the usher, in which the N-terminal extension of an incoming subunit completes the pilin body of the preceding subunit, allowing the incorporation of the subunit into the pilus fiber. In this study, pilus subunits in which the N-terminal extension was either deleted or swapped with that of another subunit were used to examine the role of each domain of PapF in functions involving donor strand exchange and hierarchical assembly. We found that the N-terminal extension of PapF is required to adapt the PapG adhesin to the tip of the fiber. The pilin body of PapF is required to efficiently initiate assembly of the remainder of the pilus, with the assistance of the N-terminal extension. Thus, distinct functions were assigned to each region of the PapF subunit. In conclusion, all pilin subunits possess the same overall architectural topology; however, each N-terminal extension and pilin body has specific functions in pilus biogenesis.