gebhart/patrepeval huggingface dataset:
Discovery and Molecular Basis of a Diverse Set of Polycomb Repressive Complex 2 Inhibitors Recognition by EED (2017)

Polycomb repressive complex 2 (PRC2), a histone H3 lysine 27 methyltransferase, plays a key role in gene regulation and is a known epigenetics drug target for cancer therapy. The WD40 domain-containing protein EED is the regulatory subunit of PRC2. It binds to the tri-methylated lysine 27 of the histone H3 (H3K27me3), and through which stimulates the activity of PRC2 allosterically. Recently, we disclosed a novel PRC2 inhibitor EED226 which binds to the K27me3-pocket on EED and showed strong antitumor activity in xenograft mice model. Here, we further report the identification and validation of four other EED binders along with EED162, the parental compound of EED226. The crystal structures for all these five compounds in complex with EED revealed a common deep pocket induced by the binding of this diverse set of compounds. This pocket was created after significant conformational rearrangement of the aromatic cage residues (Y365, Y148 and F97) in the H3K27me3 binding pocket of EED, the width of which was delineated by the side chains of these rearranged residues. In addition, all five compounds interact with the Arg367 at the bottom of the pocket. Each compound also displays unique features in its interaction with EED, suggesting the dynamics of the H3K27me3 pocket in accommodating the binding of different compounds. Our results provide structural insights for rational design of novel EED binder for the inhibition of PRC2 complex activity.
Random Filters for Compressive Sampling (2006)

This paper discusses random filtering, a recently proposed method for directly acquiring a compressed version of a digital signal. The technique is based on convolution of the signal with a fixed FIR filter having random taps, followed by downsampling. Experiments show that random filtering is effective at acquiring sparse and compressible signals. This process has the potential for implementation in analog hardware, and so it may have a role to play in new types of analog/digital converters.
Design and Implementation of a Metadata-rich File System (2010)

Despite continual improvements in the performance and reliability of large scale file systems, the management of user-defined file system metadata has changed little in the past decade. The mismatch between the size and complexity of large scale data stores and their ability to organize and query their metadata has led to a de facto standard in which raw data is stored in traditional file systems, while related, application-specific metadata is stored in relational databases. This separation of data and semantic metadata requires considerable effort to maintain consistency and can result in complex, slow, and inflexible system operation. To address these problems, we have developed the Quasar File System (QFS), a metadata-rich file system in which files, user-defined attributes, and file relationships are all first class objects. In contrast to hierarchical file systems and relational databases, QFS defines a graph data model composed of files and their relationships. QFS incorporates Quasar, an XPATH-extended query language for searching the file system. Results from our QFS prototype show the effectiveness of this approach. Compared to the de facto standard, the QFS prototype shows superior ingest performance and comparable query performance on user metadata-intensive operations and superior performance on normal file metadata operations.
A Review Paper on &ldquo;Graphene Field Emission for Electron Microscopy&rdquo; (2018)

Although good field emission from graphene has been demonstrated from a wide variety of different microfabricated structures, very few of them can be used to improve the design of cold field emitters for electron microscopy applications. Most of them consist of densely packed nano-emitters, which produce a large array of defocused overlapping electron beams, and therefore cannot be subsequently focused down to a single nanometer electron probe. This paper reviews the kind of single-tip cathode structures suitable in cold field emission guns for instruments such as scanning electron microscopy, transmission electron microscope or scanning transmission electron microscopy, and reviews progress in fabricating them from graphene-based materials.
The design of a 32 bit floating-point RISC microprocessor (2002)

This paper introduces the design of a 32 bits floating-point RISC Microprocessor. The architecture, basic functional units and their implementation are mainly discussed. When it is fabricated in a 1.2-/spl mu/m two-metal CMOS process, the area is 8.3 mm* 8.3 mm, and the operation frequency can reach 20 Mhz.
Offset of coherent envelope position due to phase change on reflection (2001)

Different materials with different phase changes on reflection affect the surface-height measurement when interferometric techniques are employed for testing objects constructed of different materials that are adjacent to one another. We test the influence of this phase change on reflection when vertical scanning interferometry with a broadband source is used. We show theoretically and experimentally that the strong linear dependence of the dispersion of the phase change on reflection preserves the shape of the coherence envelope of the fringes but shifts it along the optical axis by approximately 10-40 nm for metallic surfaces.
Prediction of Moisture Content for Papaya Fruit During The Drying Process Using Artificial Neural Networks Technique (2012)

Non-destructive method for characterization of various crops during the harvesting process, significant progress had recently. The purpose of this study was using artificial neural networks to predict the moisture content of papaya in the laboratory dryer with a drying of the Cabinet. Temperature effect in three levels (40,50 and 60 degrees Celsius) and the thickness of the cut pieces (3,5 and 7 mm) on the moisture content changes were studied. MLP with three layers back propagation neural network to model the drying process was designed with different learning algorithms. Different topologies with different threshold functions were used to predict product moisture content. Results showed that the MLP network with 1-9-3 structure and learning algorithm Levenberg-Marquardt with logarithmic sigmoid threshold function with different topologies and learning algorithms provide better results. Coefficients R2 and RMSE for these networks were optimized, respectively, 0.9994 and 0.00708 Indicating the ability of artificial neural networks to model the drying of the product
Magnetic-Map-Matching-Aided Pedestrian Navigation Using Outlier Mitigation Based on Multiple Sensors and Roughness Weighting (2019)

This research proposes an algorithm that improves the position accuracy of indoor pedestrian dead reckoning, by compensating the position error with a magnetic field map-matching technique, using multiple magnetic sensors and an outlier mitigation technique based on roughness weighting factors. Since pedestrian dead reckoning using a zero velocity update (ZUPT) does not use position measurements but zero velocity measurements in a stance phase, the position error cannot be compensated, which results in the divergence of the position error. Therefore, more accurate pedestrian dead reckoning is achievable when the position measurements are used for position error compensation. Unfortunately, the position information cannot be easily obtained for indoor navigation, unlike in outdoor navigation cases. In this paper, we propose a method to determine the position based on the magnetic field map matching by using the importance sampling method and multiple magnetic sensors. The proposed method does not simply integrate multiple sensors but uses the normalization and roughness weighting method for outlier mitigation. To implement the indoor pedestrian navigation algorithm more accurately than in existing indoor pedestrian navigation, a 15th-order error model and an importance-sampling extended Kalman filter was utilized to correct the error of the map-matching-aided pedestrian dead reckoning (MAPDR). To verify the performance of the proposed indoor MAPDR algorithm, many experiments were conducted and compared with conventional pedestrian dead reckoning. The experimental results show that the proposed magnetic field MAPDR algorithm provides clear performance improvement in all indoor environments.
Synthesis and tautomeric studies of enamines from 1-(n-Hexyl)-3-methyl-2-pyrazolin-5-one (2005)

1-(n-Hexyl)-3-methyl-2-pyrazolin-5-one was acylated with acid chlorides. Condensation of acyl derivatives with primary amines afforded enamines. According to the ¹H and 13C NMR data, the acyl derivatives have mainly a 4-acylpyrazol-5-ol structure with intramolecular hydrogen bond, and the 4-aminomethylene derivatives exist predominantly in the enamine form stabilized by the same type of interaction.
LOCATION COVERAGE AND SENSITIVITY WITH A-GPS (2004)

Assisted GPS (A-GPS) is a standardized feature in most cellular standards of today, like GSM, WCDMA and IS95. The use of assistance data improves the sensitivity and time to first fix compared to a conventional GPS receiver. This paper compares the coverage and sensitivity of conventional GPS receivers and A-GPS receivers. It is shown that the best sensitivity is achieved by using accurate timing assistance to enable coherent integration over navigation data bit edges. k k tr tr k tr k k t n t j t d t c P t y + + − + + = φ ω τ τ . (1) Here P is the received SV signal power, c(t) is the C/A code of the SV, a known sequence of -1 and +1 values that switch with a rate of 1/Tc =1.023⋅10 6 Hz. The C/A code repeats itself every 1 ms. The quantity τtr is called the code phase. d(t ) is a sequence of -1 and +1 values containing navigation data. This sequence switches at a rate of 20 ms. ωtr is the unknown Doppler shift, and φ is an unknown phase offset. The noise n(t) is assumed to be white with spectral density NF kT0 , where NF is the receiver noise figure, k=1.38⋅10 -23 J/K, and T0 the receiver noise temperature. Interference from other satellites is not modelled here. At the SV signal levels of interest, the multiple access interference only adds about 0.1 dB to the noise power. The task of the GPS receiver is to find the correct code phase and doppler, detect the data bit edges, perform navigation data demodulation. The A-GPS receiver attempts to improve or eliminate some of the steps above. In order to do so, assistance data is collected from a network of GPS reference receivers. These reference receivers are located at sites with favorable signal conditions. The receivers continuously tracks visible SVs, demodulate their messages and transfers the information to the cellular network for further distribution to the GPS receiver in the cellular phone. In this way the demodulation may be avoided and the GPS receiver in the cellular phone gets access to compete navigation models and correction parameters. The search in the Doppler domain can also be reduced. It is also possible to provide the GPS receiver with GPS time information, accurate to a few microseconds, by exploiting e.g. GPS receiver in the base stations of the cellular network. With such information, only coherent code and doppler search would remain.
Real-time video surveillance for traffic monitoring using virtual line analysis (2003)

A real-time video surveillance is presented for traffic monitoring of vehicle volume on major highways. Determining traffic volume automatically and in real-time assists drivers to dynamically plan their trips more efficiently. Our traffic monitoring system uses the virtual line graph to facilitate the detection of vehicles, classification of vehicle types, tracking of individual vehicles, and subsequently an accurate count of the number of vehicles. The virtual line analyzer detects vehicles as they cross a virtual boundary. The goal of this traffic monitoring system is to provide a real-time and accurate vehicle counter while taking advantage of stationary Web-cams, fixed highways and lanes, and deterministic vehicle characteristics.
[Ampicillin and infectious mononucleosis. Skin manifestations]. (1983)

Cutaneous reaction by ampicillin, do present themselves with a greater frequency than other penicillin derivates and in general rule they are of the urticaria or exanthematous type. The administration to patients with infective mononucleosis or when it is applied together with allopurinol, the risk of cutaneous reactions is greater. There appears a twenty year old, female patient, who by reason of a febrile reaction with odinofagia, is medicated with ampicillin of 1500 milligrams daily, and this unchains generalized morbilliform exantheme, lightly desquamative-a-sole of the feet, hear skin, and being very showy the edema on face. Besides she presented a diffuse enantema. The clinic examination revealed macropolyadenopathy, hepatomegaly, splenomealy and mesosystolic blast. The laboratory showed 55% lymphocytosis, Turk cells and Downey cells. Erythrocyte sedimenation rate 16-36 mm/hs. Total hemolytic complement 105 U (V. N. 160-260). Hipergammaglobulinemia 2,11 mg/dl. Hypergammaglobulinemia total 2 mg/dl. Fosgefose selceline 204 mU/ml. TGO 120 mU/ml. Cholesterol 115 mg/dl. Hyperuricemic 115 mg/dl. Serology for Epstein-Barr virus: 1:40. The rest of proofs did not reveal data of importance. In the infective mononucleosis are described varied cutaneous manifestations which are fugacious and not very frequent. On the contrary the clinic aspect as the observed one in this case, has more intensive and generalized characteristics. It is considered a toxic phenomena because of the proved absence of sensibility to penicillin derivates. Authors advert on the administration of this drug in indefinite pharyngeal cases.
A functional family of fluorescent nucleotide analogues to investigate actin dynamics and energetics (2021)

Actin polymerization provides force for vital processes of the eukaryotic cell, but our understanding of actin dynamics and energetics remains limited due to the lack of high-quality probes. Most current probes affect dynamics of actin or its interactions with actin-binding proteins (ABPs), and cannot track the bound nucleotide. Here, we identify a family of highly sensitive fluorescent nucleotide analogues structurally compatible with actin. We demonstrate that these fluorescent nucleotides bind to actin, maintain functional interactions with a number of essential ABPs, are hydrolyzed within actin filaments, and provide energy to power actin-based processes. These probes also enable monitoring actin assembly and nucleotide exchange with single-molecule microscopy and fluorescence anisotropy kinetics, therefore providing robust and highly versatile tools to study actin dynamics and functions of ABPs.
Can Achilles tendon be used as a new distal landmark for coronal tibial component alignment in total knee replacement surgery? An observational MRI study (2017)

In this study, the mechanical axis line, which is the center of talus, passes through the AT. Our MRI investigations showed that the AT, EHLT, DPA, and malleolar center (3-5 mm medial) may help in correct alignment.
Response of interferometer based probe systems to photodisplacement in layered media (1994)

This paper presents a detailed theory which describes the response of a focused interferometer when a modulated laser source is incident upon a layered sample. In order to solve this problem it is necessary to solve the thermoelastic equations for a layered sample. The paper presents an analytical solution obtained using a symbolic manipulation program (reduce). In particular, we point out that the analytical form of the solution is necessary to achieve numerically stable results. In addition to calculating the actual displacement of the sample surface, the response of the instrument is considered in detail, in terms of the refractive index changes of the air above the sample and the optical transfer function of the probe optics.
The influence of recombinant human interleukin-6 on blood and immune parameters in middle-aged and old rhesus monkeys. (1993)

IL-6 is a 26-kDa protein cytokine with pleiotropic activities in both hematopoietic and immune systems. It is one of the major mediators of the acute phase inflammatory response. Recently it has been demonstrated that pharmacological doses of human recombinant IL-6 (rhIL-6) inhibit certain murine tumors as well as stimulate thrombopoiesis in mice, dogs, nonhuman primates, and humans. The purpose of our study was to evaluate the effects and toxicity of rhIL-6 administration in nonhuman primates with particular reference to subject age. We treated 10 female monkeys of two age groups (midle-aged and old) with rhIL-6 (15 micrograms/kg/day) for 28 days. The monkeys were observed to be somewhat lethargic and lost an average of 10% of their body weights. The white blood cell count rose transiently whereas the levels of hemoglobin and hematocrit fell significantly and remained depressed for the same period. Importantly, platelet count rose and remained elevated for the duration of treatments. Serum alkaline phosphatase levels increase significantly and certain parameters of clinical immune competence were altered by IL-6 treatment. Treatment effects were similar in both age groups, but the changes in immune functions were different between the midle-aged and old monkeys. We observed a pattern in which the middle-aged group had a significant decrease in immune functions as a result of IL-6 administration and recovered to pretreatment level despite continuous treatment, whereas the old monkeys had a more protracted but less significant decline in these same immune functions during the trial.(ABSTRACT TRUNCATED AT 250 WORDS)
Selective off-loading to Memory (2017)

Processing-in-Memory (PIM) is returning as a promising solution to address the issue of memory wall as computing systems gradually step into the big data era. Researchers continually proposed various PIM architecture combined with novel memory device or 3D integration technology, but it is still a lack of universal task scheduling method in terms of the new heterogeneous platform. In this paper, we propose a formalized model to quantify the performance and energy of the PIM+CPU heterogeneous parallel system. In addition, we are the first to build a task partitioning and mapping framework to exploit different PIM engines. In this framework, an application is divided into subtasks and mapped onto appropriate execution units based on the proposed PIM-oriented Earliest-Finish-Time (PEFT) algorithm to maximize the performance gains brought by PIM. Experimental evaluations show our PIM-aware framework significantly improves the system performance compared to conventional processor architectures.
Classification of Microscopic Images of Bacteria Using Deep Convolutional Neural Network (2018)

Classification of bacteria is essential in medical science for diagnosis of numerous diseases, treatment of infection, and trace-back of disease outbreaks. But it takes long time and huge human-effort to manually identify and classify a bacteria. With the advancement of technology, now the task of recognizing images from digital electron microscopes is being performed by computers based on machine-learning and computer-vision technologies. Besides, the latest generation of convolutional neural networks (CNN) have achieved impressive results in the field of image classification recently. Thus in this paper, we have investigated an approach to automate the process of bacteria recognition and classification with the use of deep convolutional neural network (DCNN). We have used the `transfer learning' method to retrain the `Inception DCNN model' with of a dataset of more than 500 microscopic images of 5 different bacteria species that are harmful to human-health. 20% images of the dataset were randomly chosen and separated, which were used to test the classification accuracy of the network. The retrained model was able to recognize and classify all 5 different species of bacteria, while the experimental results of prediction achieved accuracy of around 95%.
Designing a large prevention trial: statistical issues (2004)

Abstract Recent research in Alzheimer's disease (AD) is centred about the early detection and prevention of this disease. Several recent moderate size clinical trials targeted at high risk cohorts have been designed along this theme. There have been few attempts to design a large trial to prevent this disease in elderly individuals at low risk for the disease. The purpose of this paper is to suggest a framework for designing a simple, large AD prevention trial. This framework uses a discrete time hazard model for decreasing the incidence of AD when participants are randomly assigned to one or more active prevention agents or placebo. This design allows for differential incidence among participants due to age, family history, genetic disposition, and ethnicity. It takes into account the length of the follow‐up period, participant mortality, drop‐outs, drop‐ins, and loss to follow‐up. This framework is illustrated by PREADVISE, a recently initiated large add‐on prevention trial investigating the use of anti‐oxidants for preventing AD among men enrolled in a even larger prostate cancer prevention study, SELECT. Copyright © 2004 John Wiley & Sons, Ltd.