Miracle-dz/UniFAR-FTUs huggingface dataset:
Analysis of origin of DNA replication of human papovavirus BK

We have analyzed the cis-acting sequence elements and properties of the origin of DNA replication of human papovavirus BK (BKV). The precise boundaries of the origin varied, depending on the cell type and the viral T antigen used for assay. The BKV minimal origin of replication consisted of an inverted repeat, T-antigen-binding site II, and a 20-base-pair AT block when assayed in monkey kidney CV1 and HeLa cells by using the BKV T antigen. This 76-base-pair minimal origin did not replicate in COS cells in the presence of the simian virus 40 (SV40) T antigen. Unlike that from the SV40 minimal origin, replication from the BKV minimal origin was not enhanced by BKV ori-flanking sequences in CV1 or HeLa cells, using the BKV T antigen. BKV ori-flanking sequences did activate the SV40 minimal origin of replication in COS cells and relieved the orientation-dependent property of this origin. Finally, the BKV T antigen was found to autoregulate activity of the BKV early transcriptional regulatory region. The BKV origin of replication shows similarities to and differences from those of the related viruses SV40 and polyomavirus, suggesting that the proteins involved in the initiation of replication interact with origin sequences differently in these viruses.
Kinetic modelling of passive transport and active efflux of a fluoroquinolone across Caco-2 cells using a compartmental approach in NONMEM

The purpose was to develop a general mathematical model for estimating passive permeability and efflux transport parameters from in vitro cell culture experiments. The procedure is applicable for linear and non-linear transport of drug with time, <10 or >10% of drug transport, negligible or relevant back flow, and would allow the adequate correction in the case of relevant mass balance problems. A compartmental kinetic approach was used and the transport barriers were described quantitatively in terms of apical and basolateral clearances. The method can be applied when sink conditions are not achieved and it allows the evaluation of the location of the transporter and its binding site. In this work it was possible to demonstrate, from a functional point of view, the higher efflux capacity of the TC7 clone and to identify the apical membrane as the main resistance for the xenobiotic transport. This methodology can be extremely useful as a complementary tool for molecular biology approaches in order to establish meaningful hypotheses about transport mechanisms.
A 0.13 µm 8 Mb Logic-Based Cu $_{\rm x}$Si $_{\rm y}$O ReRAM With Self-Adaptive Operation for Yield Enhancement and Power Reduction

A 0.13 µm 8 Mb <formula formulatype="inline"><tex Notation="TeX">${\rm Cu}_{\rm x}{\rm Si}_{\rm y}{\rm O}$</tex></formula> resistive random access memory (ReRAM) test macro with <formula formulatype="inline"><tex Notation="TeX">$20{\rm F}^{2}$</tex></formula> cell size is developed based on logic process for embedded applications. Smart and adaptive write and read assist circuits are proposed to fix yield and power consumption issues arising from large variations in set/reset time and high-temperature cell resistance. Self-adaptive write mode (SAWM) helps increase the <formula formulatype="inline"><tex Notation="TeX">${\rm R}_{\rm off}/{\rm R}_{\rm on}$</tex></formula> window from 8X to 24X at room temperature. The reset bit yield is improved from 61.5% to 100% and the high power consumption is eliminated after the cell switches to <formula formulatype="inline"> <tex Notation="TeX">${\rm R}_{\rm on}$</tex></formula> during set. Self-adaptive read mode (SARM) increases read bit yield from 98% to 100% at 125<formula formulatype="inline"><tex Notation="TeX">$^{\circ}{\rm C}$</tex></formula>. The typical access time of the on-pitch voltage sense amplifier (SA) is 21 ns. High bandwidth throughput is supported.
Response and non-response to postal questionnaire follow-up in a clinical trial--a qualitative study of the patient's perspective.

RATIONALE, AIMS AND OBJECTIVES Many studies have investigated response issues to postal questionnaires in educational and market research surveys. Behavioural theories have been applied to survey research to understand response decisions. Little attention has focussed specifically on response issues to postal questionnaires used to collect data in clinical trials. This qualitative study, nested within an acute injury RCT, examines factors affecting response and non-response from the clinical trial participant's perspective. METHODS Qualitative study comprising of 22 semi-structured interviews with a purposeful sample of clinical trial participants. The sample consisted of 14 'responders' and 8 'non-responders' to postal questionnaire follow-up. Data were analysed using the Framework Method. RESULTS Prevalent reasons for responding to the questionnaires were the perceived personal benefit, commitment to the trial and perceived obligation to respond. Altruism was also a strong motivator. There was an association between the participant's understanding of the trial and their likelihood of responding. Most non-responders were happy with the trial and gave reasons for non-response such as being 'lazy' and 'forgetful'. Participants who considered themselves to be fully recovered were less likely to respond. There also emerged a relationship between response and treatment preference. CONCLUSIONS Saliency of the questionnaire topic is one of the most prevalent influences on response in clinical trials. This is not evident in the survey literature. Improvements in response rates may be gained by ensuring participants fully understand the trial procedures and stressing the importance of responding even if a full recovery has been made.
CALDose _ X online : Web-based , real time Monte Carlo calculations for patient dosimetry in X-ray diagnosis

CALDose_X 5.0 is a software package for the calculations of organ and tissue absorbed doses, as well as cancer risks for patients submitted to examinations of conventional radiography which can be downloaded from www.caldose. org. The program is based on conversion coefficients (CCs) between organ and tissue absorbed dose and measurable quantities, calculated with the MASH and FASH adult reference phantoms in standing and supine posture. In order to cover a greater variety of patient anatomies, 36 adult human phantoms, 18 per gender, 9 in standing and 9 in supine posture, for 3 different body masses and 3 different standing heights have been developed at the Department of Nuclear Energy in Recife/Brazil. However, the calculations of CCs for 36 phantoms would increase the data files to be downloaded by users dramatically. Therefore, it was decided to develop a software program, called CALDose_X online, which allows for the calculation of CCs or absolute organ and tissue absorbed doses, as well as cancer risks using real time MC executed from the website www.caldose. org. This software covers 24 X-ray examinations for standing and supine posture for adult patients with body masses between 59.3 kg and 108.5 kg for males and between 48.6 kg and 94 kg for females. Standing heights cover the range from 167.3 cm to 185.6 cm for males and from 155.5 cm to 172.2 cm for females. Typical run time for the simulation of a radiograph is 60-90 seconds.
A Multiprotein Complex That Mediates Translational Enhancement in Drosophila*

Modulating the efficiency of translation plays an important role in a wide variety of cellular processes and is often mediated by trans-acting factors that interact with cis-acting sequences within the mRNA. Here we show that a cis-acting element, the Hsp83 degradation element (HDE), within the 3′-untranslated region of the Drosophila Hsp83 mRNA functions as a translational enhancer. We show that this element is bound by a multiprotein complex, and we identify components using a novel affinity-based method called tandem RNA affinity purification tagging. Three proteins (DDP1, Hrp48, and poly(A)-binding protein) are components of the HDE-binding complex and function in translational enhancement. Our data support a model whereby the HDE is composed of several cis-acting subelements that represent binding sites for trans-acting factors, and the combined action of these trans-acting factors underlies the ability of the HDE to stimulate translation.
Characterization of NAVSTAR GPS and GLONASS on-board clocks

Investigation into navigation satellite on board clock frequency references and performance are reported. The focus is on the stability of the clocks aboard the NAVSTAR GPS (Global Positioning System) and GLONASS satellites as well as those used by their respective maser control stations and associated time scales. Allan-variance techniques have been applied to determine the long-term time-domain behavior of satellite clocks in an attempt to identify different regions of power spectral density. Coupled with analysis of relative-frequency drift over a period of many weeks, this behavior allows the type of satellite onboard standard to be tentatively identified. The known nature of the GPS clocks has shown that the different types of clocks aboard the satellites (crystal, rubidium, and cesium) are distinguishable given a sufficient sample time. The same approach has been applied to the GLONASS satellites, and a comparison of the results obtained from GPS has allowed conjecture on the type of clock used by the GLONASS satellites. It appears that GLONASS has used clocks of the quality of rubidium atomic oscillators since at least 1986, and that the quality and performance of onboard standards have increased steadily with time. Some current satellites perform well enough in terms of frequency drift, flicker FM noise floor, and long-term stability to compare favorably with the cesium beam standards carried on NAVSTAR GPS satellites launched in 1983-84. <<ETX>>
Low power oriented Hardware dependent Software implementation in MPSoC architectures

This paper presents a flexible and efficient generation of low power oriented hardware dependent software (HdS) for multiprocessor system-on-chip (MPSoC). The flexibility is ensured by defining a hierarchical multilevel power management application programmer interface (API) that spans across multiple HdS layers. The efficiency is guaranteed by an application specific, service based HdS generation flow that automatically adapt high level application needs to low level platform capabilities.
Dendritic Cells Amplify T Cell-Mediated Immune Responses in the Central Nervous System1

Neuroinflammation often starts with the invasion of T lymphocytes into the CNS leading to recruitment of macrophages and amplification of inflammation. In this study, we show that dendritic cells (DCs) facilitate T-T cell help in the CNS and contribute to the amplification of local neuroinflammation. We adoptively transferred defined amounts of naive TCR-transgenic (TCR) recombination-activating gene-1-deficient T cells into another TCR-transgenic mouse strain expressing different Ag specificity. Following adoptive transfers, we coinjected DCs that presented one or multiple Ags into the brain and followed the activation of T cells with defined specificities simultaneously. Injection of DCs presenting both Ags simultaneously led to significantly higher infiltration of T cells into the brain compared with injection of a mixture of DCs pulsed with two Ags separately. DCs mediated either cooperative or competitive interactions between T cell populations with different specificities depending upon their MHC-restricting element usage. These results suggest that DC-mediated cooperation between brain-infiltrating T cells of different Ag specificities in the CNS plays an important role in regulation of neuroinflammation. This work also implies that blocking Ag-specific responses may block not only the targeted specificities, but may also effectively block their cooperative assistance to other T cells. Therefore, these data justify more attention to Ag-specific therapeutic approaches for neuroinflammation.
Phase-modulated waveform design for target detection in clutter

This paper considers a radar system capable of adaptively adjusting its transmitted waveform, by which the system is able to dynamically mitigate the interference of the clutter, thus improve the detection performance. The key feature of the adaptive mechanism is the optimum waveform design, which is a complex multi-dimension optimizing problem and such a problem in this particular application has not yet been fully studied. Based on the structure of the general likelihood ration test (GLRT) detector and the compound-Gaussian (CG) clutter model, we derive the design objective function for the optimal phase modulated (PM) waveform. Then we simplify the objective function and propose an efficient iterative approach to solve this problem based on the pattern search algorithm. Numerical simulations confirm that the proposed algorithm is efficient to produce optimized waveforms for clutter mitigation in various conditions.
Cardiac Sirt 1 mediates the cardioprotective effect of caloric restriction by suppressing local complement system activation after ischemia-reperfusion

Tsunehisa Yamamoto, Kayoko Tamaki, Kohsuke Shirakawa, Kentaro Ito, Xiaoxiang Yan, Yoshinori Katsumata, Atsushi Anzai, Tomohiro Matsuhashi, Jin Endo, Takaaki Inaba, Kazuo Tsubota, Motoaki Sano, Keiichi Fukuda, and Ken Shinmura Department of Cardiology, Keio University School of Medicine, Tokyo, Japan; Department of Ophthalmology, Keio University School of Medicine, Tokyo, Japan; and Department of General Medicine, Hyogo College of Medicine, Nishinomiya, Japan
A Pilot Study of Rituximab in Immune-Mediated Inner Ear Disease

Immune-mediated inner ear disease (IMED) is a cause of rapidly progressive auditory dysfunction. Patients are often responsive to high-dose corticosteroids and the disease is believed to be mediated by an antibody to inner ear proteins. To date, no therapies have proven effective as corticosteroid-sparing agents. Rituximab is a monoclonal antibody that depletes B cells, resulting in a reduction in autoantibody production. For that reason, rituximab was evaluated in a small pilot study in patients with IMED to see if there was a signal suggesting benefit. In all, 5/7 patients met the primary endpoint of an improvement in pure tone average (500–3000 Hz) by 10 dB in at least one ear, or an improvement in word identification score by at least 12% at 24 weeks, both relative to screening precorticosteroid values after 1 course of treatment. No significant adverse events were reported. The results of this study suggest further evaluation of rituximab as a treatment for IMED is indicated.
Outage performance of a network coding aided multi‐user cooperative secondary network

We evaluate the performance of a network‐coded cooperative secondary network in a cognitive radio system under spectrum sharing constraints. The secondary network is composed of multiple sources that cooperate to transmit their own information to a common secondary destination. The outage probability is analysed under a given maximum interference constraint set by the primary network as well as to the maximum transmit power limit of the secondary sources. Moreover, we also obtain a closed‐form equation for the ϵ‐outage capacity, that is, the maximum information rate achieved by the secondary sources given a target outage probability. Also, we resort to the Dinkelbach algorithm in order to find the optimum number of parity packets that maximises the ϵ‐outage capacity. The influence of the number of source nodes and another system parameters in the secondary's performance is also evaluated, and we show through theoretical and numerical results that cooperative communication with network coding can provide significant gains in terms of outage probability and diversity order when compared with non‐cooperative or traditional cooperative. Copyright © 2015 John Wiley & Sons, Ltd.
Use of motion capture for path gain modelling of millimetre-wave on-body communication links

In this paper a motion capture system is employed in order to record the position and orientation of body-worn antennas as the body moves. This geometrical data then is used to calculate free space path gain between the antennas. The results are compared to the measured path gain and then the usefulness of this approach to channel characterisation is discussed.
A new bidirectional ARC consistency algorithm

Arc consistency techniques have played an important role in constraint solving area. The paper presents a new bidirectional singleton arc consistency algorithm based on constraint networks, called BiSAC-2, and gives its correctness and completeness proof. BiSAC-2 shares the same simplification ability with BiSAC-1, furthermore, it decreases the times of keeping arc consistency. Namely, it avoids the redundant constraint propagation, and steadies more quickly than BiSAC-1.Finally the experiments on random constraint satisfaction problems show that BiSAC-2 has remarkable advantage over BiSAC-1 in performance.
Cyanophage Diversity, Inferred from g20 Gene Analyses, in the Largest Natural Lake in France, Lake Bourget

ABSTRACT The genetic diversity of the natural freshwater community of cyanophages and its variations over time have been investigated for the first time in the surface waters of the largest natural lake in France. This was done by random screening of clone libraries for the g20 gene and by denaturing gradient gel electrophoresis (DGGE). Nucleotide sequence analysis revealed 35 distinct cyanomyovirus g20 genotypes among the 47 sequences analyzed. Phylogenetic analyses showed that these sequences fell into seven genetically distinct operational taxonomic units (OTUs). The distances between these OTUs were comparable to those reported between marine clusters. Moreover, some of these freshwater cyanophage sequences were genetically more closely related to marine cyanophage sequences than to other freshwater sequences. Both approaches for the g20 gene (sequencing and DGGE analysis) showed that there was a clear seasonal pattern of variation in the composition of the cyanophage community that could reflect changes in its biological, chemical, and/or physical environment.
Energy-reserve markets with non-convexities: An empirical analysis

In this paper, we address the design of a joint energy — reserve electricity market with non-convexities which are due to the fixed costs and capacity constraints of the generation units. Motivated by the relevant literature [1]-[5], we state a bid recovery mechanism that applies to the day-ahead scheduling problem, which is modeled as a mixed-integer linear programming problem. However, the particularly complex nature of the problem, especially if we consider it in its full scale, makes it extremely difficult if not impossible to analytically assess the market operation, under various market designs. Therefore, we proceed to an empirical analysis that aims to provide useful insight in evaluating the incentive compatibility of pricing and compensation schemes based on marginal pricing theory. In order to understand the bidding behavior of the participants and exhibit the proposed methodology, we present an illustrative example, based on Greece's day-ahead energy — reserve market.
The Inadequate Information Model of Spanish Universities: The Relevance of Intellectual Capital Disclosure

The main aim of this study is to demonstrate how important it is for Spanish public universities to provide information on their intellectual capital in order to satisfy their users' information needs. To this end, we analysed the opinion held by the members of the Social Councils regarding the need for Spanish public universities to publish information on their intellectual capital when presenting economic, financial and budgetary information. The results of this research show extensive criticism of the current accounting information model used by public universities in Spain. They also demonstrate a widespread interest in universities including information on their intellectual capital with a view to increasing the relevance of the current university financial statements.
Combining unitary space-time codes and blind interference alignment for two-user heterogeneous X channel

In this paper, we present a combining transmission scheme of unitary space-time codes(USTC) and blind interference alignment(BIA) over two-user heterogeneous X Channel where one of two transmitters undergoes time-selective fading channel and another one undergoes frequency-selective fading channel. Even if neither the transmitters nor the receivers know the channel state information, the receivers can effectively implement the interference alignment and decoding. Using the constellation design based on Discrete Fourier Transformation(DFT), when the number of signal constellations is larger than or equals to 16, the data rate of our proposed scheme is comparable under the action of interference alignment. Our simulation result shows that, compared with USTC without BIA, the proposed scheme has higher diversity gain and lower error rate in high SNR region.
Problems in Silverman's Work Indicate the Need for a New Approach to Research on Subliminal Psychodynamic Activation

The basic assumption in subliminal psychodynamic activation research is that participants can unconsciously perceive the psychodynamic meaning of a complete message as it is intended by the experimenter. In attempts to account for negative findings Silverman contended that this assumption holds only under certain luminance conditions and visual field positions of a message. Paradoxically, almost all of his findings, his major evidence in support of the basic assumption, came from experiments in violation of those strictures. Further, Silverman never presented MOMMY AND I ABE ONE under a critical condition required for it to be effective. These and other considerations identify the need for an account of empirical findings other than his and for changes in his experimental method. Such research must take into account the encoding of subliminal stimuli, an area neglected almost completely by Silverman. Shevrin and his colleagues' 1996 work is outlined as a model for the use of subliminal stimuli to investigate psychoanalytically generated hypotheses.
Development of single quantum Hall devices for the resistance standard in NIM

In this paper we report the progress on single quantum Hall devices for the resistance standards in NIM. We use the NIM-made device and the LEP-made device distributed to NIM by BIPM to calibrate a Tinsley 100 Ω transfer resistor using a cryogenic current comparator (CCC) at the filling factor k=2. The deviations of resistance values from the nominal value were -4.4808×10<sup>-6</sup>±3.5×10<sup>-9</sup> by NIM-1 and -4.4987×10<sup>-6</sup>±3.5×10<sup>-9</sup> by BIPM-2 separately. We assume the relative difference 1.8×10<sup>-8</sup> is due to the drift of the 100 Ω transfer resistor. More stable resistor will be used in future experiments.
Up to Date In-vitro Artefacts in the Detection of Nanoparticles Toxicity: Short Review

Nanoparticle toxicology is an emergent field that focuses on establishing the hazards of human exposure to nanoparticles and their potential risk. Accurate assessments of nanoparticles risk involve the investigation of multiple factors such as the nanoparticles parameters, the test system and the cell type. Some nanoparticles may interfere with the toxicity detection assays or the enzymatic activity of the cell type. Thus, this lead to inaccurate obtained data which could mislead researches. In this short review, we provided up to date assessment on the cause of nanoparticles toxicity artefacts. Coating nanoparticle recently has been shown to hinder the interference with cell viability assays; however, this was found to be cell type and concentration dependent. Therefore, researchers suggest adding more washing steps to minimize the bound of nanoparticle with proteins or membranes. We suggest that conducting an interference test for each nanoparticle prior toxicity assessment to avoid any flaws.