Miracle-dz/UniFAR-FTUs huggingface dataset:
Breast Cancer in Young Hispanic Women : The Subset with the Greatest Disparities in Outcomes

The Hispanic population in the United States has been steadily increasing over the last decades, and it currently represents over 54 million people or approximately 19% of the US population (U.S. Census Bureau data, 2014). Breast cancer is the most common cancer in Hispanics and also has the highest mortality; therefore, addressing disparities in breast cancer outcomes is a critical healthcare issue. Data from national databases clearly show that non-Hispanic whites (NHW) have a higher population-based incidence and mortality from breast cancer than Hispanic women (incidence NHW 128.1/100,000 vs. 91.9 in Hispanics; mortality NHW 21.9 vs. 14.5 in Hispanics, ACS 2015 data) [1]. On the other hand, Hispanic women with breast cancer are more likely to be younger, to present with advanced stage disease, and are more likely to have aggressive subtypes (triple negative and HER2 positive) than NHW. As a result of this, Hispanic women with breast cancer have higher mortality rates than NHW [2].
Herbicide Tolerance and Weed Control in Sethoxydim-Tolerant Corn (Zea mays)

Homozygous, sethoxydim-tolerant corn was field tested at two locations in 1989 and 1990. Sethoxydim at 0.22, 0.44, and 0.88 kg ha−1 was applied to sethoxydimtolerant corn in the 3- and 7-leaf stages. None of the sethoxydim treatments caused visible injury to the sethoxydim-tolerant corn, but all treatments were lethal to a parental corn line used as a control. Sethoxydim applied at either stage of corn development had no effect on number of days to 50% silk emergence, plant height, or grain yield, compared to nontreated plants. Sethoxydim-tolerant corn was also tolerant to mixtures of sethoxydim plus other postemergence herbicides that control dicotyledonous weeds. Sethoxydim mixed with atrazine or sethoxydim applied in sequential applications with dicamba or 2,4-D gave annual grass control similar to sethoxydim applied alone. However, the sethoxydim plus bentazon treatment resulted in reduced grass control in comparison to sethoxydim alone. When the broadleaf herbicides were mixed with sethoxydim or applied as sequential treatments, broadleaf weed control was the same as when the broadleaf herbicides were applied alone. The high level of corn tolerance to sethoxydim and the broad spectrum of weed control resulting from combinations of sethoxydim plus other postemergence herbicides indicates that sethoxydim-tolerant corn hybrids could increase the options available for weed control in corn.
A Protein Factor Which Reduces the Negative Supercoiling Requirement in the Mu DNA Strand Transfer Reaction Is Escherichia coli Integration Host Factor *

We have examined the supercoiling requirement for the in vitro Mu DNA strand transfer reaction and found that optimal efficiency requires a high level (G = -0.06) of donor plasmid superhelicity. At in vivo levels of supercoiling (G = -0.025) the reaction does not occur. Using an unreactive donor plasmid with a near physiological level of supercoiling, we identified an Escherichia coli protein factor which has the novel property of reducing the donor plasmid supercoiling requirement for the in vitro Mu DNA strand transfer reaction by 40%. This protein, which we named supercoiling relief factor was purified to near homogeneity and found to be identical to integration host factor (IHF), a protein known to induce site specific bends in DNA. The dramatic reduction in the supercoiling requirement was promoted by about 1.5 IHF dimers/ donor substrate molecule. At these low levels of IHF, the HU requirement for the reaction was also reduced; a synergistic effect of the two proteins resulted in a greater than 10-fold stimulation of the reaction under appropriate conditions. Furthermore, at high concentrations of IHF, HU could be completely eliminated from the reaction.
Current psychology letters, 10, Vol. 1, 2003 | 2003

Methods used in subtyping developmental dyslexics and based on reading-level matched children statistics (mean and standard deviation) define two main categories : phonological dyslexics whose performance in pseudowords reading accuracy is specifically impaired and delay-type dyslexics (D-DYS) whose performance in both pseudowords and irregular words accuracy scores falls into the normal range for their reading level. Thus, the delay profile is usually considered as similar to that of younger normal readers. The aim of the present study was to examine more in detail the reading process of the D-DYS group. Effects of regularity, lexicality, and length for both words and pseudowords were examined -on both accuracy and processing times scoresin reading aloud tasks. The results indicated that the reading process of the D-DYS are slightly different to that of the RL group and suggested a mild phonological deficiency, as evidenced by an impairment with long pseudowords processing. Les méthodes utilisées pour catégoriser les dyslexiques, basées sur la comparaison avec les contrôles de même niveau en lecture (utilisant les statistiques de moyenne et d’écart-type), définissent deux catégories principales : les dyslexiques phonologiques, dont les performances en précision de lecture de pseudomots sont spécifiquement faibles et les dyslexiques de type “retard” dont les performances en précision de lecture de pseudomots et mots irréguliers correspondent aux valeurs attendues pour leur niveau en lecture. Ainsi, le profil de type retard est considéré comme similaire à celui de jeunes normolecteurs. Le but de l’étude présente est d’examiner plus en détail les procédures de lecture du groupe de type retard. Les effets de régularité, de lexicalité et de longueur pour les mots et les pseudomots ont été étudiés, sur les scores de précision et de rapidité, dans des tâches de lecture à voix haute. Les résultats indiquent que les procédures de lecture des enfants du groupe “retard” sont sensiblement différents de ceux des jeunes lecteurs de même niveau, et suggèrent un léger déficit phonologique, mis en évidence par une difficulté dans le traitement des pseudomots longs.
Submission to the low dose CT grand challenge 2016 : investigating structure noise of tissue in CT imaging

Despite the many advantages of X-ray computed tomography (CT), there have been some concerns on the very small potential health risk associated with the ionizing radiation from its examination process. The Low Dose CT Grand Challenge was held to assess diagnostic performance of denoising and iterative reconstruction techniques for common low-dose patient CT datasets, focusing on detectability of liver lesions. The focus of this thesis was participating in the challenge by submitting denoised datasets. First, the noise caused by tissue structure of the liver was investigated and results clearly supported its existence along with its approximate size. Then a combination of Gaussian and unsharp masking filtering was used to filter the data provided by the challenge according to these findings. Visual assessment of the low-dose images after applying the filtering revealed some improvements in terms of visibility of lesions. This data was then submitted to the challenge.
Evaluation of driver fatigue with multi-indicators based on artificial neural network

Three kinds of signals include head nodding movement, eyelid closure and driving time are demonstrated to be the factors to indicate driver fatigue. On the basis of these factors, five fatigue-based indicators are proposed in this study, which are integrated to establish the evaluation model of driver fatigue with artificial neural network. A total of 50 drivers are recruited to take part in the fatigue-oriented experiments on a driving simulator. The electroencephalogram (EEG), head nodding angle, eye-tracking signal, driving time-of-day and time-on-task are sampled during experiments. The EEG-based indicator is determined and used to group the sample data into alert and drowsy. The head nodding-based indicator includes mean value and dominant frequency of head nodding angle is proposed. The results show that the performance of the proposed evaluation model is better than that with sole head nodding-based or eyelid closure-based indicator.
CALL FOR PAPERS Metabolic Control by Inflammation and Immunity CFTR silencing in pancreatic -cells reveals a functional impact on glucose-stimulated insulin secretion and oxidative stress response

Thierry Ntimbane, Geneviève Mailhot, Schohraya Spahis, Remi Rabasa-Lhoret, Marie-Laure Kleme, Danielle Melloul, Emmanuelle Brochiero, Yves Berthiaume, and Emile Levy Research Centre, Centre Hospitalier Universitaire Sainte-Justine, Université de Montréal, Montreal, Quebec, Canada; Department of Nutrition, Université de Montréal, Montreal, Quebec, Canada; Institut de Recherches Cliniques de Montréal, Université de Montréal, Montréal, Quebec, Canada; Department of Endocrinology, Hadassah University Hospital, Jerusalem, Israel; and Department of Medicine, Université de Montréal, Montreal, Quebec, Canada
Borys Kravchenko, Vladimir Klymenko, Sergii Kravchenko, Alexandr Zakharchuk,

The objective: To conduct a comparative analysis of the results of single-port and four-port laparoscopic cholecystectomies in patients with chronic calculous cholecystitis. Materials and methods. During 2015 – 2017 years 214 patients underwent surgery for chronic calculous cholecystitis. All patients were divided into 2 groups. The first group consisted of 102 (47.6%) patients, who underwent single-port laparoscopic cholecystectomy (SILC). The second included 112 (52.3%), for whom standard laparoscopic cholecystectomy was performed. The results in both groups were compared on the following criteria: 1) patient characteristics: age, sex and body mass index (BMI); 2) the duration of surgical intervention;
Lysosomal Neuraminidase CATALYTIC ACTIVATION IN INSECT CELLS IS CONTROLLED BY THE PROTECTIVE PROTEIN/CATHEPSIN A*

Lysosomal N-Acetyl-a-neuraminidase is active in complex with the protective protein/cathepsin A (PPCA) and b-galactosidase. The interaction with PPCA is essential for the correct intracellular routing and lysosomal localization of neuraminidase, but the mechanism of its catalytic activation is unclear. To investigate this process, we have used the baculovirus expression system to co-express neuraminidase and PPCA precursors in insect cells, which resulted in high enzymatic activity of neuraminidase. Both the 34and 20-kDa PPCA subunits were required for the activation. We further demonstrated that when expressed alone, the neuraminidase precursor remained dimeric (114 kDa) and had low enzymatic activity, but when co-expressed with PPCA and b-galactosidase, it multimerized in a complex of ;1350 kDa, together with the other two proteins. The fully active neuraminidase co-precipitated with full-length PPCA and b-galactosidase precursors. However, when co-expressed with the individual PPCA subunits, neuraminidase co-precipitated only with the small 20-kDa polypeptide, which therefore must contain a neuraminidase-binding site. Our finding suggests a model of activation of neuraminidase dependent on its oligomerization at acidic pH that is mediated by interaction with PPCA.
EFFICACY OF THE SPIDER WEB METABOLITES ACTIVITY AGAINST MULTI DRUG RESISTANCE (MDR) BACTERIA

Antibiotic resistance, which is emerging among pathogenic bacteria, is a leading cause of treatment failure worldwide with particular reference to developing countries. Thus, there is a need to explore and discover novel antimicrobial agents. The objective of this study was to investigate antibacterial activity of spider web metabolites and characterize certain antibacterial compounds. Web solvent extract (methanol, ethanol and acetone) was biologically screened for antibacterial activity against seven multiple drug resistant bacteria including three Gram negative bacteria (E. coli, A. baumannii, and S. typhi) and four gram positive bacteria (S. aureus, Bacillus, E. faecalis and S. pneumonae) using well diffusion test. Solvent extracts with the concentrations of (3.3 mg/ml 4.95 mg/ml 6.6 mg/ml 8.25 mg/ml 9.9 mg/ml and 11.55 mg/ml) were used to check the efficiency against MDR bacteria. Solvent extract of web metabolites exhibited significant activity against all seven MDR bacteria, by producing clear growth inhibition zones ranging in diameter from 04 to 22 mm. Considerable activities was exhibited against E. faecalis (22 mm), E. coli (14 mm) and S. typhi (15 mm). Acetone solvent extracts showed high antibacterial activity against most MDR bacteria. Solvent extracts with concentrations less than 5 mg/ml did not exhibit sufficient activity. Higher activities were related to concentrations higher than 6 mg/ml. Findings of the current study indicated that spider web metabolites may show promising antimicrobial activity against MDR bacteria. Additionally, the results suggest that spider web may be a broad spectrum antimicrobial agent, wherein its individual constituents contribute to its antimicrobial activity.
ERK/MAP kinases block internalization of δ-opioid receptors

Translocation of G protein-coupled receptors (GPCR) from the cell membrane to cytosol depends on the kind of ligand activating the receptor. This principle is clearly demonstrated for opioid receptors, as diverse opiate agonists rapidly induce receptor internalization, whereas morphine almost fails. We report here the impact of MAP kinase isoforms ERK1/2 on the internalization of δ-opioid receptors (DOR) expressed in HEK293 cells. Receptor activation by etorphine turned out to transiently phosphorylate ERK/MAP kinases and brings about DOR internalization within 20 min. In contrast, prolonged exposure of HEK293 cells to morphine excited persistent phosphorylation of ERK/MAP kinases, and those cells failed to internalize the opioid receptor. When ERK/MAP kinase phosphorylation was blocked by PD98059, morphine gained the ability to strongly induce DOR endocytosis. The importance of activated MAP kinases for DOR internalization is further demonstrated by glutamate and paclitaxel as these substances induce phosphorylation of ERK1/2 and concomitantly prevent DOR sequestration by etorphine. In addition, receptor internalization by morphine was also facilitated by inhibition of protein kinase C and opioid-mediated transactivation of epidermal growth factor receptor (EGFR), both activating ERK/MAP kinases by opioids The mechanism affording DOR internalization by PD98059 may relate to arrestin, which uncouples GPCRs and thus triggers receptor internalization. Arrestin considerably translocate towards the cell membrane upon DOR activation by morphine in presence of the MAP kinase blocker, but fails in the absence of PD98059. We conclude that ERK/MAP kinase activity prevents opioid receptor desensitization and sequestration by blocking arrestin 2 interaction with activated DORs. This article has not been copyedited and formatted. The final version may differ from this version. JPET Fast Forward. Published on January 23, 2004 as DOI: 10.1124/jpet.103. 061788 at A PE T Jornals on A uust 3, 2021 jpet.asjournals. org D ow nladed from
Tooth and root size as determined from 0.25- and 0.30-mm voxel size cone-beam CT imaging when contrasted to micro-CT scans (0.06 mm): An ex vivo study

Objective: To quantify tooth volume differences from extracted teeth when using three different three-dimensional (3D) computed tomography (CT)-based imaging modalities. Design: Ex vivo study. Setting: Laboratory and clinics of the University of Alberta. Methods: Cone-beam CT (CBCT) of 12 extracted teeth were scanned using 0.25- and 0.30-mm voxel size from CBCT and a 0.06-mm voxel size from micro-CT (reference standard). 3D reconstructions for each tooth from each imaging modality were made through the software ITK-SNAP®. The mean volume differences between each pair of scanning modalities were calculated and then compared and analysed through a repeated measures ANOVA. Results: The average overestimations of the teeth volume were 15.2% for the high-resolution CBCT and 28.1% for the low-resolution CBCT compared to micro-CT measurements. The differences in absolute volume were 81.6 mm3 and 152.8 mm3, respectively. All differences were statistically significant (P < 0.05). Conclusions: Orthodontists and researchers who assess root resorption through CBCT imaging should be aware that the depicted volumes may likely be overestimating tooth volume and camouflaging real root volumetric treatment changes.
FIRST JUMP TIME IN SIMULATION OF SAMPLING TRAJECTORIES OF AFFINE JUMP-DIFFUSIONS DRIVEN BY α-STABLE WHITE NOISE

The aim of this paper is twofold. Firstly, we derive an explicit expression of the (theoretical) solutions of stochastic differential equations with affine coefficients driven by α-stable white noise. This is done by means of Itô formula. Secondly, we develop a detection algorithm for the first jump time in simulation of sampling trajectories which are described by the solutions. The algorithm is carried out through a multivariate Lagrange interpolation approach. To this end, we utilise a computer simulation algorithm in MATLAB to visualise the sampling trajectories of the jump-diffusions for two combinations of parameters arising in the modelling structure of stochastic differential equations with affine coefficients.
Formally verified lifting of C-compiled x86-64 binaries

Lifting binaries to a higher-level representation is an essential step for decompilation, binary verification, patching and security analysis. In this paper, we present the first approach to provably overapproximative x86-64 binary lifting. A stripped binary is verified for certain sanity properties such as return address integrity and calling convention adherence. Establishing these properties allows the binary to be lifted to a representation that contains an overapproximation of all possible execution paths of the binary. The lifted representation contains disassembled instructions, reconstructed control flow, invariants and proof obligations that are sufficient to prove the sanity properties as well as correctness of the lifted representation. We apply this approach to Linux Foundation and Intel’s Xen Hypervisor covering about 400K instructions. This demonstrates our approach is the first approach to provably overapproximative binary lifting scalable to commercial off-the-shelf systems. The lifted representation is exportable to the Isabelle/HOL theorem prover, allowing formal verification of its correctness. If our technique succeeds and the proofs obligations are proven true, then – under the generated assumptions – the lifted representation is correct.
Design and Evaluation of In-Exact Compressor based Approximate Multipliers

VLSI implementation of arithmetic functions are of high demand considering the rise in hardware realization of image and digital signal processing modules for various autonomous applications. The hardware implementation offers faster results and desirable outcome, but expecting the same design metrics in the form of power, footprint and delay on a tiny decision-making edge devices with limited resources needs design improvisation. Approximate computing promises to support the required hardware metrics in error resilient applications where the inexact output is not deviated much from the expected one, and decision made remains unchanged. Multiplier design blocks are heavily used in the multimedia functional chip, and introducing approximation in these blocks effectively benefits design metrics and chip cost of the developed system-on-chip(SoC). The proposed work attempts to design and use various sizes of approximate AND-OR re-coded compressors in the multiple reduction stages, along with various fast adders in the final addition stage of multiplier design. Further, design metrics and resources utilized for different multiplier designs were characterized in ASIC and FPGA synthesis flows respectively, along with their error statistics. Designed approximate multipliers were employed in Gaussian smoothing application to evaluate the quality-hardware resource trade-off of approximation
Odin: on-demand instrumentation with on-the-fly recompilation

Instrumentation is vital to fuzzing. It provides fuzzing directions and helps detect covert bugs, yet its overhead greatly reduces the fuzzing throughput. To reduce the overhead, compilers compromise instrumentation correctness for better optimization, or seek convoluted runtime support to remove unused probes during fuzzing. In this paper, we propose Odin, an on-demand instrumentation framework to instrument C/C++ programs correctly and flexibly. When instrumentation requirement changes during fuzzing, Odin first locates the changed code fragment, then re-instruments, re-optimizes, and re-compiles the small fragment on-the-fly. Consequently, with a minuscule compilation overhead, the runtime overhead of unused probes is reduced. Its architecture ensures correctness in instrumentation, optimized code generation, and low latency in recompilation. Experiments show that Odin delivers the performance of compiler-based static instrumentation while retaining the flexibility of binary-based dynamic instrumentation. When applied to coverage instrumentation, Odin reduces the coverage collection overhead by 3× and 17× compared to LLVM SanitizerCoverage and DynamoRIO, respectively.
Advanced Environment Modeling and Interaction in an Open Source RISC-V Virtual Prototype

RISC-V is a modern Instruction Set Architecture (ISA) that by its open nature in combination with a clean and modular design has enormous potential to become a game changer in the Internet of Things (IoT) era. Recently, SystemC-based Virtual Prototypes (VPs) have been introduced into the RISC-V ecosystem to lay the foundation for advanced industry-proven system-level use-cases. However, a VP-driven environment modeling and interaction has been mostly neglected in the RISC-V context. In this paper we propose such an extension to broaden the application domain for virtual prototyping in the RISC-V context. As foundation, we build upon the open source RISC-V VP available at GitHub. For visualization purposes of the environment we designed a Graphical User Interface (GUI) and designed appropriate libraries to offer hardware communication interfaces such as GPIO and SPI from the VP to an interactive environment model. Our approach is designed to be integrated with SystemC-based VPs that leverage a Transaction Level Modeling (TLM) communication system to prefer a speed optimized simulation. To show the practicability of an environment model, we provide a set of building blocks such as buttons, LEDs and an OLED display and configure them in two demonstration environments. Our evaluation with three different case-studies demonstrates the applicability of our approach in building virtual environments effectively and correctly in matching the real physical systems. To advance the RISC-V community and stimulate further research we provide our extended VP platform with the environment configuration and visualization toolbox as well as both case-studies as open source on GitHub as well.