Miracle-dz/UniFAR-FTUs huggingface dataset:
Scalable Session Key Construction Protocol for Wireless Sensor Networks

The security of sensor network s is ever more important nowadays. In this paper we propose a new protocol BROSK to construct link dependent keys by broadcasting key negotiation messages. The link-dependent key will be negotiated in an ad-hoc scheme. Most of the proposed security protocols in sensor networks are based on point-to-point handshaking procedures to negotiate link -dependent keys, but this will influence the scalability of the network. The simulation shows that the scalability of BROSK is better than two other security protocols of sensor network, SPINS and SNAKE, and is reasonably secure. This new protocol consumes less energy by reducing the number of transmissions used for key negotiation among sensor nodes.
β‐ionone modulates the expression of miRNAs and genes involved in the metastatic phenotype of microdissected persistent preneoplastic lesions in rats submitted to hepatocarcinogenesis

MicroRNAs (miRNAs) are post‐transcriptional gene expression regulators which expression is frequently altered in hepatocellular carcinoma (HCC). β‐ionone (βI) is noted for its ability to inhibit persistent preneoplastic lesions (pPNLs) in liver rats. We evaluated the expression of miRNAs involved in carcinogenesis and possible targets modulated by βI, in pPNLs and surrounding of microdissected tissues. Rats subjected to resistant hepatocyte model were treated during promotion stage with βI (16 mg/100 g body weight) or corn oil (CO; 0.25 mL/100 g body weight; controls). Five animals receive no treatment (NT). In CO group, 38 and 29 miRNAs showed reduced expression relative to NT (P < 0.05) in pPNLs and surrounding, respectively. No miRNAs showed increased expression in surrounding of the CO compared to NT group; however, 30 miRNAs showed increased expression (P ≤ 0.05) in pPNLs of the CO group. There was no difference between βI and CO groups (P > 0.05) in the expression of miRNAs in surrounding. In pPNLs βI increased expression of miR‐122 and miR‐34a (P ≤ 0.05) and reduced of Igf2 (P ≤ 0.05), target of the latter, compared to CO. Additionally, βI decreased the expression of miR‐181c and its target Gdf2 (P ≤ 0.05). βI reduced the expression of miR‐181b and miR‐708 (P ≤ 0.05) and increased the expression of their respective target mRNAs Timp3 and Mtss1 (P ≤ 0.05), relative to CO group. Modulation of miRNAs target genes by βI was confirmed in vitro. βI is a promising chemopreventive agent in the initial stages of hepatocarcinogenesis, as it modulates the expression of the miRNAs and target genes that can alter the metastatic phenotype of HCC. © 2016 Wiley Periodicals, Inc.
Sonic Hedgehog Gene Delivery to the Rodent Heart Promotes Angiogenesis via iNOS/Netrin-1/PKC Pathway

Background We hypothesized that genetic modification of mesenchymal stem cells (MSCs) with Sonic Hedgehog (Shh) transgene, a morphogen during embryonic development and embryonic and adult stem cell growth, improved their survival and angiogenic potential in the ischemic heart via iNOS/netrin/PKC pathway. Methods/Principal Findings MSCs from young Fisher-344 rat bone marrow were purified and transfected with pCMV Shh plasmid (ShhMSCs). Immunofluorescence, RT-PCR and Western blotting showed higher expression of Shh in ShhMSCs which also led to increased expression of angiogenic and pro-survival growth factors in ShhMSCs. Significantly improved migration and tube formation was seen in ShhMSCs as compared to empty vector transfected MSCs (EmpMSCs). Significant upregulation of netrin-1 and iNOS was observed in ShhMSCs in PI3K independent but PKC dependent manner. For in vivo studies, acute myocardial infarction model was developed in Fisher-344 rats. The animals were grouped to receive 70 µl basal DMEM without cells (group-1) or containing 1×106 EmpMSCs (group-2) and ShhMSCs (group-3). Group-4 received recombinant netrin-1 protein injection into the infarcted heart. FISH and sry-quantification revealed improved survival of ShhMSCs post engraftment. Histological studies combined with fluorescent microspheres showed increased density of functionally competent blood vessels in group-3 and group-4. Echocardiography showed significantly preserved heart function indices post engraftment with ShhMSCs in group-3 animals. Conclusions/Significance Reprogramming of stem cells with Shh maximizes their survival and angiogenic potential in the heart via iNOS/netrin-1/PKC signaling.
Alterations in Genes of the EGFR Signaling Pathway and Their Relationship to EGFR Tyrosine Kinase Inhibitor Sensitivity in Lung Cancer Cell Lines

Background Deregulation of EGFR signaling is common in non-small cell lung cancers (NSCLC) and this finding led to the development of tyrosine kinase inhibitors (TKIs) that are highly effective in a subset of NSCLC. Mutations of EGFR (mEGFR) and copy number gains (CNGs) of EGFR (gEGFR) and HER2 (gHER2) have been reported to predict for TKI response. Mutations in KRAS (mKRAS) are associated with primary resistance to TKIs. Methodology/Principal Findings We investigated the relationship between mutations, CNGs and response to TKIs in a large panel of NSCLC cell lines. Genes studied were EGFR, HER2, HER3 HER4, KRAS, BRAF and PIK3CA. Mutations were detected by sequencing, while CNGs were determined by quantitative PCR (qPCR), fluorescence in situ hybridization (FISH) and array comparative genomic hybridization (aCGH). IC50 values for the TKIs gefitinib (Iressa) and erlotinib (Tarceva) were determined by MTS assay. For any of the seven genes tested, mutations (39/77, 50.6%), copy number gains (50/77, 64.9%) or either (65/77, 84.4%) were frequent in NSCLC lines. Mutations of EGFR (13%) and KRAS (24.7%) were frequent, while they were less frequent for the other genes. The three techniques for determining CNG were well correlated, and qPCR data were used for further analyses. CNGs were relatively frequent for EGFR and KRAS in adenocarcinomas. While mutations were largely mutually exclusive, CNGs were not. EGFR and KRAS mutant lines frequently demonstrated mutant allele specific imbalance i.e. the mutant form was usually in great excess compared to the wild type form. On a molar basis, sensitivity to gefitinib and erlotinib were highly correlated. Multivariate analyses led to the following results: 1. mEGFR and gEGFR and gHER2 were independent factors related to gefitinib sensitivity, in descending order of importance. 2. mKRAS was associated with increased in vitro resistance to gefitinib. Conclusions/Significance Our in vitro studies confirm and extend clinical observations and demonstrate the relative importance of both EGFR mutations and CNGs and HER2 CNGs in the sensitivity to TKIs.
UTH-CCB: The Participation of the SemEval 2015 Challenge – Task 14

This paper describes the system developed by the University of Texas Health Science Center at Houston (UTHealth), for the 2015 SemEval shared task on “Analysis of Clinical Text” (Task 14). We participated in both sub-tasks: Task 1 for “Disorder Identification”, which aims to detect disorder entities and encode them to UMLS (Unified Medial Language System) CUI (Concept Unique Identifier) and Task 2 for Disorder Slot Filling, where the task is to identify normalized value for modifiers of disorders. For Task 1, we developed an ensemble approach that combined machine learning based named entity recognition classifiers with MetaMap, an existing symbolic biomedical NLP system, to recognize disorder entities, and we used a general Vector Space Model-based approach for disorder encoding to UMLS CUIs. To identify modifiers of disorders (Task 2), we developed Support Vector Machines-based classifiers for each type of modifier, by exploring various types of features. Our system was ranked 3 for Task 1 and 1 for the Task 2 (both 2A and 2B), demonstrating the effectiveness of machine learning-based approaches for extracting clinical entities and their modifiers from clinical narratives.
Numerical Modeling of Electrical Discharges in Long Air Gaps Tested With Positive Switching Impulses

The numerical modeling of electrical discharges occurring in atmospheric air has been in continuous development during the past decades in different fields, such as high-voltage techniques and lightning protection. Different methodologies have been proposed to represent the physical phenomena taking place at a single full discharge event, departing both from experimental and theoretical approaches. The implementation of these methodologies in numerical routines combined with the use of numerical methods to determine the electric potential distribution permits the creation of models whose predictions closely agree with the real case situations, where electrode arrangements might have nonsymmetric geometries. In this paper, we present an improved version of a simulation methodology for representing electrical discharges in long air gaps. This simulation methodology includes new elements like: 1) the 3-D leader channel tortuosity based on laboratory experimental measurements and 2) two new methods for the estimation of the electric charge contained in the so-called leader-corona region based on the electrostatic potential of fictitious potential rings representing the active region in front of the leader tip. Results from the simulation were compared with experimental records and a reasonably good agreement is found between them.
Dielectric properties of paper-based composites at microwave frequency

A kind of paper-based composite was prepared with short carbon fibers (CFs) and para-aramid fibrids through the process of papermaking. The dielectric properties of the paper-based composites at microwave frequency were investigated. Based on the Lichtenecker Rule, the dielectric constants of CFs in composites at different CF concentrations were calculated. The absorbing performances of paper-based composites were calculated from the test results of electromagnetic parameters. It was shown that for the composites loaded with 1 mm CFs, the real part of complex permittivity rises at first then tends to be stable with the increase of the CF content, and the imaginary part rises at first then falls slightly, while for composites loaded with 3 or 6 mm CFs, both the real and imaginary part of complex permittivity grows at first and then falls rapidly with the CF content increasing. When the CF content is below 10 wt%, the composites containing longer CFs have larger permittivity at the same concentration. The Lichtenecker Rule is found to be not suitable for the system studied in this paper, especially when the content of CFs is high. The variations of reflectance and absorbance with the content of CFs generally have analogous trends . It is also found that to achieve better absorbing performance, the length and content of CFs together with the thickness of composites should be considered. In this study, the lowest reflection loss at 10 GHz reaches –27.59 dB when the paper-based composite is loaded with 1 mm CFs at the concentration of 10 wt% and the optimum thickness of 1.84 mm.
Study And Construction On Memoryless Nonlinear Model Of Doherty Amplifier

abstract OFDM technology has become the core technology of DTMB system. The high Doherty power amplifier can effectively improve the peak-average power ratio of OFDM system, but with poor linear performance. This paper starts with improving linear performance of Doherty power amplifier, analyzes the nonlinear model of power amplifier, presents a construction method of nonlinear performance model of Doherty power amplifier, gets the corresponding nonlinear performance curve, and then presents a design of pre-distorter which can improve system linear performance. The nonlinear performance curve is used to do the simulation. The result shows that the system linear performance is improved greatly.
A CMOS voltage regulator for passive RFID tag ICs

A low‐power voltage regulator for passive RFID tag ICs is proposed in this paper. It consists of a self‐biased mutually compensated voltage reference, a low dropout (LDO) voltage regulation circuit and a power‐on‐reset (POR) circuit. It is fabricated in a commercial 0.18−µm CMOS technology and applied to a passive UHF RFID tag IC. The total quiescent current is 700 nA under a 1.8‐V supply. The output voltage of the regulator is 1.45 V with load capability of 50 µA. The temperature coefficients of the voltage reference and the output voltage are only 9 and 43 ppm/∘C, respectively. A POR signal with width pulse of 150 ns is generated for the digital part in the tag IC. Copyright © 2010 John Wiley & Sons, Ltd.
The interplay between citrullination and HLA-DRB1 polymorphism in shaping peptide binding hierarchies in rheumatoid arthritis

The HLA-DRB1 locus is strongly associated with rheumatoid arthritis (RA) susceptibility, whereupon citrullinated self-peptides bind to HLA-DR molecules bearing the shared epitope (SE) amino acid motif. However, the differing propensity for citrullinated/non-citrullinated self-peptides to bind given HLA-DR allomorphs remains unclear. Here, we used a fluorescence polarization assay to determine a hierarchy of binding affinities of 34 self-peptides implicated in RA against three HLA-DRB1 allomorphs (HLA-DRB1*04:01/*04:04/*04:05) each possessing the SE motif. For all three HLA-DRB1 allomorphs, we observed a strong correlation between binding affinity and citrullination at P4 of the bound peptide ligand. A differing hierarchy of peptide-binding affinities across the three HLA-DRB1 allomorphs was attributable to the β-chain polymorphisms that resided outside the SE motif and were consistent with sequences of naturally presented peptide ligands. Structural determination of eight HLA–DR4–self-epitope complexes revealed strict conformational convergence of the P4-Cit and surrounding HLA β-chain residues. Polymorphic residues that form part of the P1 and P9 pockets of the HLA-DR molecules provided a structural basis for the preferential binding of the citrullinated self-peptides to the HLA-DR4 allomorphs. Collectively, we provide a molecular basis for the interplay between citrullination of self-antigens and HLA polymorphisms that shape peptide–HLA-DR4 binding affinities in RA.
A Limited Role for PI(3,4,5)P3 Regulation in Controlling Skeletal Muscle Mass in Response to Resistance Exercise

Background Since activation of the PI3K/(protein kinase B; PKB/akt) pathway has been shown to alter muscle mass and growth, the aim of this study was to determine whether resistance exercise increased insulin like growth factor (IGF) I/phosphoinositide 3-kinase (PI3K) signalling and whether altering PI(3,4,5)P3 metabolism genetically would increase load induced muscle growth. Methodology/Principal Findings Acute and chronic resistance exercise in wild type and muscle specific PTEN knockout mice were used to address the role of PI(3,4,5)P3 regulation in the development of skeletal muscle hypertrophy. Acute resistance exercise did not increase either IGF-1 receptor phosphorylation or IRS1/2 associated p85. Since insulin/IGF signalling to PI3K was unchanged, we next sought to determine whether inactivation of PTEN played a role in load-induced muscle growth. Muscle specific knockout of PTEN resulted in small but significant increases in heart (PTEN+/+ = 5.00±0.02 mg/g, PTEN−/− = 5.50±0.09 mg/g), and TA (PTEN+/+ = 1.74±0.04 mg/g, PTEN−/− = 1.89 ±0.03) muscle mass, while the GTN, SOL, EDL and PLN remain unchanged. Following ablation, hypertrophy of the PLN, SOL or EDL muscles was similar between PTEN−/− and PTEN+/+ animals. Even though there were some changes in overload-induced PKB and S6K1 phosphorylation, 1 hr following acute resistance exercise there was no difference in the phosphorylation state of S6K1 Thr389 between genotypes. Conclusions/Significance These data suggest that physiological loading does not lead to the enhanced activation of the PI3K/PKB/mTORC1 axis and that neither PI3K activation nor PTEN, and by extension PI(3,4,5)P3 levels, play a significant role in adult skeletal muscle growth.
Strength optimisation of mortar with CNTs and nanoclays

This study explores the use of carbon nanotubes (CNTs) and nanoclays in cement mortars. The paper presents modelling and optimisation of the compressive and flexural strengths of cement mortars containing CNTs and the compressive, tensile and flexural strengths of cement mortars including nanoclays. The CNT ratio, CNT aspect ratio and functionalisation effects are optimised, as are the montmorillonite nanoclay ratio and temperature effect. Mechanical strengths are modelled using two cascade feed-forward neural networks (NNs), designated CSNN-CNTs and CSNN-CLY for CNTs and nanoclays, respectively. The trained NN CNT and nanoclay models both successfully replicated experiments with significant accuracy. Inputs to the NN models were different mix combinations, optimised using a genetic algorithm to achieve optimal strength results. The optimisation process for mortars with CNTs revealed increases of 20·96% and 54·27% for compressive and flexural strengths, respectively. Similarly, optimisation of the mortar .
Robotic-enhanced coronary surgery in octogenarians.

Objectives Robotic-enhanced minimally invasive direct coronary artery bypass grafting surgery (RE-MIDCAB) is based on the use of a robotic console and instrumentation for the dissection of the left internal thoracic artery (LITA). The LITA to left anterior descending (LAD) artery anastomosis is subsequently constructed through a mini thoracotomy. The purpose of this study is to present our experience of RE-MIDCAB outcomes in elderly patients. Methods From 2002 until 2015, 44 octogenarians (the mean age of 82.9 years) underwent RE-MIDCAB. The mean logistic EuroSCORE was 9.2. The majority of the patients were male with a medical history of hypertension, dyslipidaemia and previous coronary interventions. Of these patients 25% underwent RE-MIDCAB combined with percutaneous coronary intervention (PCI) for the treatment of multi-vessel disease (hybrid revascularization). Results All RE-MIDCABs and combined 'hybrid' PCI procedures were successfully completed. The mean intensive care unit (ICU) and hospital stay were 1.6 days and 10.9 days, respectively. There was 1 in-hospital mortality (2.3%). After an average follow-up period of 29.2 months, 5 patients required repeat revascularization procedures (9.1%). Mortality on follow-up was estimated at 25.6%. Conclusions Our report suggests that considering the age and frailty of the octogenarian population, RE-MIDCAB is a feasible and safe procedure which is associated with acceptable mid-term results.
Application of adaptive laboratory evolution to overcome a flux limitation in an Escherichia coli production strain

Gene deletion strategies using flux balance analysis (FBA) have improved the growth‐coupled production of various compounds. However, the productivities were often below the expectation because the cells failed to adapt to these genetic perturbations. Here, we demonstrate the productivity of the succinate of the designed gene deletion strain was improved by adaptive laboratory evolution (ALE). Although FBA predicted deletions of adhE‐pykAF‐gldA‐pflB lead to produce succinate from glycerol with a yield of 0.45 C‐mol/C‐mol, the knockout mutant did not produce only 0.08 C‐mol/Cmol, experimentally. After the ALE experiments, the highest succinate yield of an evolved strain reached to the expected value. Genome sequencing analysis revealed all evolved strains possessed novel mutations in ppc of I829S or R849S. In vitro enzymatic assay and metabolic profiling analysis revealed that these mutations desensitizing an allosteric inhibition by L‐aspartate and improved the flux through Ppc, while the activity of Ppc in the unevolved strain was tightly regulated by L‐aspartate. These result demonstrated that the evolved strains achieved the improvement of succinate production by expanding the flux space of Ppc, realizing the predicted metabolic state by FBA.
Do perceived barriers to clinical presentation affect anticipated time to presenting with cancer symptoms: an ICBP study

Background Cancer survival in the UK and Denmark are lower when compared with similar countries with late diagnosis a possible cause. We aimed to study the relationship between barriers to attending a primary care physician (GP) and anticipated time to help seeking (ATHS) with four cancer symptoms in six countries. Methods A population-based survey measuring cancer awareness and beliefs conducted within the International Cancer Benchmarking Partnership in Australia, Canada, Denmark, Norway, Sweden and UK. Data were collected on perceived barriers to GP consultation (including embarrassment, worry about wasting the doctors' time, fear about what the doctor might find and being too busy) and ATHS for persistent cough, abdominal swelling, rectal bleeding and breast changes. Relationships between perceived barriers and ATHS were investigated using multivariable analysis. Results Among 19 079 respondents, higher perceived barrier scores were associated with longer ATHS intervals for all symptoms studied (P < 0.01) responders with the highest barrier scores (>10.84) had between two and three times the odds of longer ATHS. ATHS was low in Australia for all symptoms and highest in Denmark for abdominal bloating. Conclusions Perceived barriers to help-seeking have a role in delaying GP presentation. Early diagnosis campaigns should address emotional and practical barriers that reduce early presentation with potential cancer symptoms.
Performance study of an efficient reduced-complexity time synchronization approach for DMT systems

This paper studies the performance of a recently proposed efficient reduced-complexity time synchronization approach, initially applied to OFDM systems, in the DMT systems. This approach uses a preamble of two identical parts and proceeds in two stages. In the first stage, a Cox and Schmidl-like metric is calculated to provide the coarse estimate. In the second stage, a differential correlation based metric is carried, over a short-length time window centered on the preamble start position coarse estimate. Assuming a successful coarse estimation, the performance of the fine estimation processing is here studied and evaluated in terms of probability of preamble start correct detection, for the DMT systems. Indeed, the closed form analytical expression of the correct detection probability is derived and compared to the experimental rate of correct detection. The simulation results provide a good match with the theoretical results. We also evaluate the performance degradation occasioned by a further complexity reduction obtained through replacing the differential correlation operations by sign changes. Both additive white Gaussian noise and multipath channels are here considered.
Effect of Ta Additions on the Microstructure, Damping, and Shape Memory Behaviour of Prealloyed Cu-Al-Ni Shape Memory Alloys

The influence of Ta additions on the microstructure and properties of Cu-Al-Ni shape memory alloys was investigated in this paper. The addition of Ta significantly affects the green and porosity densities; the minimum percentage of porosity was observed with the modified prealloyed Cu-Al-Ni-2.0 wt. % Ta. The phase transformation temperatures were shifted towards the highest values after Ta was added. Based on the damping capacity results, the alloy of Cu-Al-Ni-3.0 wt. % Ta has very high internal friction with the maximum equivalent internal friction value twice as high as that of the prealloyed Cu-Al-Ni SMA. Moreover, the prealloyed Cu-Al-Ni SMAs with the addition of 2.0 wt. % Ta exhibited the highest shape recovery ratio in the first cycle (i.e., 100% recovery), and when the number of cycles is increased, this ratio tends to decrease. On the other hand, the modified alloys with 1.0 and 3.0 wt. % Ta implied a linear increment in the shape recovery ratio with increasing number of cycles. Polarization tests in NaCl solution showed that the corrosion resistance of Cu-Al-Ni-Ta SMA improved with escalating Ta concentration as shown by lower corrosion current densities, higher corrosion potential, and formation of stable passive film.