Miracle-dz/UniFAR-FTUs huggingface dataset:
Replication of Phenotypically Mixed Human Immunodeficiency Virus Type 1 Virions Containing Catalytically Active and Catalytically Inactive Reverse Transcriptase

ABSTRACT The amount of excess polymerase and RNase H activity in human immunodeficiency virus type 1 virions was measured by using vectors that undergo a single round of replication. Vectors containing wild-type reverse transcriptase (RT), vectors encoding the D110E mutation to inactivate polymerase, and vectors encoding mutations D443A and E478Q to inactivate RNase H were constructed. 293 cells were cotransfected with different proportions of plasmids encoding these vectors to generate phenotypically mixed virions. The resulting viruses were used to infect human osteosarcoma cells, and the relative infectivity of the viruses was determined by measuring transduction of the murine cell surface marker CD24, which is encoded by the vectors. The results indicated that there is an excess of both polymerase and RNase H activities in virions. Viral replication was reduced to 42% of wild-type levels in virions with where half of the RT molecules were predicted to be catalytically active but dropped to 3% of wild-type levels when 25% of the RT molecules were active. However, reducing RNase H activity had a lesser effect on viral replication. As expected, based on previous work with murine leukemia virus, there was relatively inefficient virus replication when the RNase H and polymerase activities were encoded on separate vectors (D110E plus E478Q and D110E plus D443A). To determine how virus replication failed when polymerase and RNase H activities were reduced, reverse transcription intermediates were measured in vector-infected cells by using quantitative real-time PCR. The results indicated that using the D11OE mutation to reduce the amount of active polymerase reduced the number of reverse transcripts that were initiated and also reduced the amounts of products from the late stages of reverse transcription. If the E478Q mutation was used to reduce RNase H activity, the number of reverse transcripts that were initiated was reduced; there was also a strong effect on minus-strand transfer.
Memory-Aware and Efficient Ray-Casting Algorithm

Ray-casting implementations require that the connectivity between the cells of the dataset to be explicitly computed and kept in memory. This constitutes a huge obstacle for obtaining real-time rendering for very large models. In this paper, we address this problem by introducing a new implementation of the ray-casting algorithm for irregular datasets. Our implementation optimizes the memory usage of past implementations by exploring ray coherence. The idea is to keep in main memory the information of the faces traversed by the ray cast through every pixel under the projection of a visible face. Our results show that exploring pixel coherence reduces considerably the memory usage, while keeping the performance of our algorithm competitive with the fastest previous ones.
Synthesis using path-based scheduling: algorithms and exercises

Path-based scheduling algorithms consider all possible sequences of operations (called paths) in a control-flow graph. Unlike most scheduling techniques used in high-level synthesis they stress optimization across conditional branches. Several path-based algorithms are presented. An exact algorithm finds the minimum number of control steps required for each possible path being executed. Heuristic solutions are also implemented. Extensive application of these algorithms to the benchmarks of the high-level synthesis workshop shows the practical feasibility of such methods. <<ETX>>
Reducing oxidative/nitrosative stress: a newly-discovered genre for melatonin

The discovery of melatonin and its derivatives as antioxidants has stimulated a very large number of studies which have, virtually uniformly, documented the ability of these molecules to detoxify harmful reactants and reduce molecular damage. These observations have clear clinical implications given that numerous age-related diseases in humans have an important free radical component. Moreover, a major theory to explain the processes of aging invokes radicals and their derivatives as causative agents. These conditions, coupled with the loss of melatonin as organisms age, suggest that some diseases and some aspects of aging may be aggravated by the diminished melatonin levels in advanced age. Another corollary of this is that the administration of melatonin, which has an uncommonly low toxicity profile, could theoretically defer the progression of some diseases and possibly forestall signs of aging. Certainly, research in the next decade will help to define the role of melatonin in age-related diseases and in determining successful aging. While increasing life span will not necessarily be a goal of these investigative efforts, improving health and the quality of life in the aged should be an aim of this research.
Modification of Carbon Nanotubes and Its Effect on Properties of Carbon Nanotube/Epoxy Nanocomposites

We have studied an effect of three types of modifications of carbon nanotubes (CNTs) on dispersion and mechanical properties of final epoxy-amine based nanocomposites. First approach includes end-walled covalent chemical modification at the ends of nanotubes. The second one is side-walled covalent chemical modification along the whole length of nanotubes. The third procedure is noncovalent, physical modification done by the CNT surface coating with polyaniline. The modification of nanotubes was determined by X-ray photoelectron spectroscopy. The prepared epoxy-amine nanocomposites were characterized by dynamic-mechanical analysis, tensile testing, light microscopy, transmission electron microscopy, and thermogravimetry. We observed an improvement of the mechanical properties and the thermal stability by addition of the carbon nanotubes to the epoxy matrix. The strong interactions between the nanotube and the polymer matrix were discovered in the nanocomposites with physically modified nanotubes. POLYM. COMPOS. , 2009. © 2008 Society of Plastics Engineers
Binocular impulse blockade prevents the formation of ocular dominance columns in cat visual cortex

Ocular dominance columns in the cat's visual cortex appear to develop out of an initially overlapping projection by a progressive segregation of the geniculocortical afferents serving the 2 eyes (reviewed in LeVay and Stryker, 1979). To determine whether electrical activity in the visual afferent pathway is involved in this normal, developmental rearrangement of synaptic connections, we blocked the discharge of retinal ganglion cells in both eyes by making repeated intravitreal injections of tetrodotoxin (TTX) during the period in which geniculocortical afferent segregation would normally be taking place. Control experiments for the side effects of the injection procedure, the systemic effects of TTX, and the effects of visual deprivation were carried out, and a series of normal animals of appropriate ages was also studied. We then examined the effects of retinal blockade and the various control procedures on the formation of ocular dominance columns using an anatomical assay, the autoradiographic labeling of geniculocortical afferent terminals in layer IV of the visual cortex by the transneuronal transport of tritiated proline injected into 1 eye, and a physiological assay, the ocular dominance of single cortical cells recorded extracellularly. After retinal TTX blockade, layer IV was labeled uniformly without periodic fluctuation in grain density, and nearly all cortical cells were driven well through both eyes. These assays thus indicated that retinal blockade completely blocked the formation of ocular dominance columns, unlike any of the control procedures, suggesting that the spontaneous maintained discharge of retinal ganglion cells may have an important role in the normal development of binocular connections in the visual cortex.
Bmc Medical Informatics and Decision Making Wireless Local Area Network in a Prehospital Environment

Background: Wireless local area networks (WLANs) are considered the next generation of clinical data network. They open the possibility for capturing clinical data in a prehospital setting (e.g., a patient's home) using various devices, such as personal digital assistants, laptops, digital electrocardiogram (EKG) machines, and even cellular phones, and transmitting the captured data to a physician or hospital. The transmission rate is crucial to the applicability of the technology in the prehospital setting.
Endogenous molecular network reveals two mechanisms of heterogeneity within gastric cancer

Intratumor heterogeneity is a common phenomenon and impedes cancer therapy and research. Gastric cancer (GC) cells have generally been classified into two heterogeneous cellular phenotypes, the gastric and intestinal types, yet the mechanisms of maintaining two phenotypes and controlling phenotypic transition are largely unknown. A qualitative systematic framework, the endogenous molecular network hypothesis, has recently been proposed to understand cancer genesis and progression. Here, a minimal network corresponding to such framework was found for GC and was quantified via a stochastic nonlinear dynamical system. We then further extended the framework to address the important question of intratumor heterogeneity quantitatively. The working network characterized main known features of normal gastric epithelial and GC cell phenotypes. Our results demonstrated that four positive feedback loops in the network are critical for GC cell phenotypes. Moreover, two mechanisms that contribute to GC cell heterogeneity were identified: particular positive feedback loops are responsible for the maintenance of intestinal and gastric phenotypes; GC cell progression routes that were revealed by the dynamical behaviors of individual key components are heterogeneous. In this work, we constructed an endogenous molecular network of GC that can be expanded in the future and would broaden the known mechanisms of intratumor heterogeneity.
Medium-Voltage Drives: Challenges and existing technology

This article presents an overview of state-of-art solutions, advances, and design and research trends in medium-voltage (MV) drive technologies-and also discusses the challenges and requirements associated with the use of such drives. The choice and deployment of MV drives in industries are associated with numerous requirements related to the front-end converter (grid side) and inverter (machine side). The focus is on solutions that present high efficiency; low price, size, and weight; minimum harmonic distortion; reduction in dv/dt; mitigation of common-mode (CM) voltage; avoiding torsional vibration; transformerless solutions; fault detection capability; and condition monitoring.
Signal transduction of bombesin-induced circular smooth muscle cell contraction in cat esophagus.

AIM To investigate the mechanism of bombesin-induced circular smooth muscle cell contraction in cat esophagus. METHODS Specific G protein or phospholipase C involved in cat esophagus contraction was identified, muscle cells were permeabilized with saponin. After permeabilization of muscle cells, the Gi3 antibody inhibited bombesin-induced smooth muscle cell contraction. RESULTS Incubation of permeabilized circular muscle cells with PLC-beta3 antibody could inhibit bombesin-induced contraction. H-7, chelerythrine (PKC inhibitor) and genistein (protein tyrosine kinase inhibitor) inhibited bombesin-induced contraction, but DAG kinase inhibitor, R59949, could not inhibit it. To examine which mitogen-activated protein kinase (MAPK) was involved in bombesin-induced contraction, the specific MAPK inhibitors (MEK inhibitor, PD98059 and p38 MAPK inhibitor, SB202190) were used. Preincubation of PD98059 blocked the contraction induced by bombesin in a concentration-dependent manner. However, SB202190 had no effects on contraction. CONCLUSION Bombesin-induced circular muscle cell contraction in cat esophagus is madiated via a PKC or a PTK-dependent pathway or p44/p42 MAPK pathway.
Spinocerebellar ataxia type 2 with glial cell cytoplasmic inclusions

Glial cell cytoplasmic inclusions were identified in a case of spinocerebellar ataxia type 2. These have not been reported before. The inclusions were found in low frequency in the dentate nucleus, cerebellar white matter, pontine transverse fibres, and the inferior olivary nucleus. They were of variable size and shape and expressed ubiquitin, thus resembling glial cytoplasmic inclusions in multiple system atrophy. However, their immunohistochemical profile was different as they did not show immunoreactivity for either tau protein or α-synuclein. There was no evidence of expanded polyglutamine tracts in these inclusions, which also failed to label with silver stains. As in many other neurodegenerative diseases, in spinocerebellar ataxia type 2 there may be pathogenic contributions of glial cells other than the common astrogliotic response to neuronal damage.
The web application research of image texture mapping

This paper researches image drawing technology and the realistic of texture mapping based on the existing mesh-based texture mapping algorithm. Through improving the brightness integration model, operation efficiency of the algorithm proposed in this paper is improved under the condition of ensuring the realistic of texture mapping. Furthermore, based on the proposed algorithm, we research a kind of Web services system frame. The main thought is that client downloads the ActiveX control which integrates the functions of scene display and texture map, and auto-completes the installation and set-up in the client for supporting the real-time interactive virtual display. In last section in this paper, an experimental system is built to confirm the effectiveness of the proposed algorithm.
WRKY8 transcription factor functions in the TMV-cg defense response by mediating both abscisic acid and ethylene signaling in Arabidopsis

Significance Previous studies have shown that abscisic acid (ABA) has a positive effect on virus infection, and ethylene has a negative effect. However, the possible crosstalk between ABA and ethylene signaling during plants–virus interaction remains unclear. Our current results demonstrate that WRKY8 is involved in the defense response against crucifer-infecting tobacco mosaic virus (TMV-cg) through the direct regulation of the expression of ABI4, ACS6, and ERF104 and thus may mediate the crosstalk between ABA and ethylene signaling during the TMV-cg–Arabidopsis interaction. WRKY transcription factors are key players in the plant immune response, but less is known about their involvement in antiviral defense than about their roles in defense against bacterial or fungi pathogens. Here, we report that Arabidopsis thaliana WRKY DNA-binding protein 8 (WRKY8) has a role in mediating the long-distance movement of crucifer-infecting tobacco mosaic virus (TMV-cg). The expression of WRKY8 was inhibited by TMV-cg infection, and mutation of WRKY8 accelerated the accumulation of TMV-cg in systemically infected leaves. Quantitative RT-PCR analysis showed that the expression of ABA insensitive 4 (ABI4) was reduced and the expression of 1-aminocyclopropane-1-carboxylic acid synthase 6 (ACS6) and ethylene response factor 104 (ERF104) was enhanced in the systemically infected leaves of wrky8. Immunoprecipitation assays demonstrated that WRKY8 could bind selectively to putative W-boxes of the ABI4, ACS6, and ERF104 promoters. Furthermore, TMV-cg infection enhanced WRKY8 binding to the ABI4 promoter but reduced the binding of WRKY8 to the ACS6 and ERF104 promoters, indicating that regulation of ABI4, ACS6, and ERF104 by WRKY8 is at least partially dependent on TMV-cg. Exogenous applications of abscisic acid (ABA) reduced the systemic accumulation of TMV-cg. Mutations in ABA deficient 1, ABA deficient 2, ABA deficient 3, or abi4 accelerated systemic TMV-cg accumulation. In contrast, exogenous application of aminocyclopropane-1-carboxylic acid enhanced the systemic accumulation of TMV-cg, but mutations in acs6, erf104, or an octuple acs mutant inhibited systemic TMV-cg accumulation. Our results demonstrate that WRKY8 is involved in the defense response against TMV-cg through the direct regulation of the expression of ABI4, ACS6, and ERF104 and may mediate the crosstalk between ABA and ethylene signaling during the TMV-cg–Arabidopsis interaction.
On the selective counting of third-order products

A practical and efficient method is presented for the counting of third-order products generated by an arbitrary number of carriers with arbitrary power spectral shapes. In particular, three selective counting procedures (i.e. sorting by position, sorting by position and group, and sorting by position, group, and kind) are introduced in a systemic way, based upon a discrete third-order Volterra model. The advantage of the counting algorithm is that (1) the algorithm provides the exact counting of third-order products of all eleven possible groups; (2) the counting process requires only two multiplications for the selective counting of third-order products at each position, and the algorithm, which is thus efficient, can be easily implemented. >
Breaking the ‘redshift deadlock’– II. The redshift distribution for the submillimetre population of galaxies

Ground-based submillimetre and millimetre wavelength blank-field surveys have identified more than 100 sources, the majority of which are believed to be dusty optically obscured starburst galaxies. Colours derived from various combinations of far-infrared, submillimetre, millimetre and radio fluxes provide the only currently available means to determine the redshift distribution of this new galaxy population. In this paper we apply our Monte Carlo photometric redshift technique, introduced recently by Hughes et al. in Paper I, to the multiwavelength data available for 77 galaxies selected at 850 μm and 1.25 mm. We calculate a probability distribution for the redshift of each galaxy, which includes a detailed treatment of the observational errors and uncertainties in the evolutionary model. The cumulative redshift distribution of the submillimetre galaxy population that we present in this paper, based on 50 galaxies found in wide-area SCUBA surveys, is asymmetric, and broader than those published elsewhere, with a significant high-z tail for some of the evolutionary models considered. Approximately 40 to 90 per cent of the submillimetre population is expected to have redshifts in the interval 2 ≤z≤ 4. Whilst this result is completely consistent with earlier estimates for the submillimetre galaxy population, we also show that the colours of many (≲50 per cent) individual submillimetre sources, detected only at 850 μm with non-detections at other wavelengths, are consistent with those of starburst galaxies that lie at extreme redshifts, z > 4. Spectroscopic confirmation of the redshifts, through the detection of rest-frame far-infrared–millimetre wavelength molecular transition lines, will ultimately calibrate the accuracy of this technique. We use the redshift probability distribution of HDF850.1 to illustrate the ability of the method to guide the choice of possible frequency tunings on the broad-band spectroscopic receivers that equip the large-aperture single-dish millimetre and centimetre wavelength telescopes.
Between minds and bodies: Some insights about creativity from dance improvisation

Observing dance improvisation provides a unique opportunity to understand how people collaborate together while creating. It is an opportunity to consider how new ideas appear, not simply from the internal processes of a single creator but rather from the interactions between the minds, bodies and the environment acting on and between a group of improvising dancers. Improvisational scores served in this study as a laboratory into group creativity. Using a video-stimulated recall method, which asks dancers to reflect upon their own processes just after completing the score, I explored the interdependency between meta-cognitive strategies such as imagery and sense awareness, group processes, the role of others in one’s own creative processes, and interactions between bodies and with the environment. As a result I describe how dancers build together a common improvisational space, which allows them to co-create and share their ideas mostly in non-verbal, non-propositional ways. I discuss the co-agency of such a process, showing that intentionality is distributed between dancers at each moment of improvisation and that they are mainly focused on supporting the ideas of others. I also discuss the medium of the body and the embodied response as central to dance improvisation practice.
Improved K-Mean Clustering with Steepest Ascent (Gradient) Method for Image Retrieval

In this study we present a new frame work for clustering that uses an Improved K-Mean with Steepest ascent (Gradient) Technique. The basic idea of this paper is to use a Color Descriptors which work on RGB and HSV color space after that this result is used by Improved K Mean with Steepest ascent (Gradient) algorithm. In which it used a heuristic local search algorithm that provide additional information about the solution. In this direction it gives the effective result of clustering that provide stability and performs better in global searching.
Screening ancient tuberculosis with qPCR: challenges and opportunities

The field of ancient DNA (aDNA) has rapidly accelerated in recent years as a result of new methods in next-generation sequencing, library preparation and targeted enrichment. Such research is restricted, however, by the highly variable DNA preservation within different tissues, especially when isolating ancient pathogens from human remains. Identifying positive candidate samples via quantitative PCR (qPCR) for downstream procedures can reduce reagent costs, increase capture efficiency and maximize the number of sequencing reads of the target. This study uses four qPCR assays designed to target regions within the Mycobacterium tuberculosis complex (MTBC) to examine 133 human skeletal samples from a wide geographical and temporal range, identified by the presence of skeletal lesions typical of chronic disseminated tuberculosis. Given the inherent challenges working with ancient mycobacteria, strict criteria must be used and primer/probe design continually re-evaluated as new data from bacteria become available. Seven samples tested positive for multiple MTBC loci, supporting them as strong candidates for downstream analyses. Using strict and conservative criteria, qPCR remains a fast and effective screening tool when compared with screening by more expensive sequencing and enrichment technologies.
Studying SiC/SiC Composites by X-Ray Tomography

Continuous SiC fiber reinforced SiC matrix composites (SiC/SiC) have been studied and developed for high temperature applications and nuclear applications. In this study, SiC/SiC composites were fabricated via polymer impregnation and pyrolysis (PIP) process and studied by X-ray tomography. The SiC/SiC composites were first scanned using a Metris X-tek 320 kV source at the Henry Moseley X-ray Imaging Facility at the University of Manchester, the closed porosities were investigated after three dimensional (3D) imaging of the samples. Furthermore, high-resolution synchrotron X-ray tomography was applied to the SiC/SiC composite at Diamond Light Source. Digital volume correlation was employed for Hertzian indentation testing of the SiC/SiC composite, quantifying damage by measurement of the displacement fields within the material. A Cellular Automata integrated with Finite Elements (CAFE) method was developed to account for the effect of microstructure on the fracture behavior of the SiC/SiC composite. Graded microstructures, textures and multiple phases were simulated and a mesh-free framework was developed to compute the damage development through the microstructure. The results indicated that we could study the development of discontinuous cracking and damage coalescence, and its sensitivity to microstructure with this method.