gebhart/patrepeval huggingface dataset:
Prediction of solvent accessibility and sites of deleterious mutations from protein sequence (2005)

Residues that form the hydrophobic core of a protein are critical for its stability. A number of approaches have been developed to classify residues as buried or exposed. In order to optimize the classification, we have refined a suite of five methods over a large dataset and proposed a metamethod based on an ensemble average of the individual methods, leading to a two-state classification accuracy of 80%. Many studies have suggested that hydrophobic core residues are likely sites of deleterious mutations, so we wanted to see to what extent these sites can be predicted from the putative buried residues. Residues that were most confidently classified as buried were proposed as sites of deleterious mutations. This proposition was tested on six proteins for which sites of deleterious mutations have previously been identified by stability measurement or functional assay. Of the total of 130 residues predicted as sites of deleterious mutations, 104 (or 80%) were correct.
Fast ConvNets Using Group-Wise Brain Damage (2016)

We revisit the idea of brain damage, i.e. the pruning of the coefficients of a neural network, and suggest how brain damage can be modified and used to speedup convolutional layers in ConvNets. The approach uses the fact that many efficient implementations reduce generalized convolutions to matrix multiplications. The suggested brain damage process prunes the convolutional kernel tensor in a group-wise fashion. After such pruning, convolutions can be reduced to multiplications of thinned dense matrices, which leads to speedup. We investigate different ways to add group-wise prunning to the learning process, and show that severalfold speedups of convolutional layers can be attained using group-sparsity regularizers. Our approach can adjust the shapes of the receptive fields in the convolutional layers, and even prune excessive feature maps from ConvNets, all in data-driven way.
Accuracy of CT in detecting intraabdominal and pelvic lymph node metastases from pelvic cancers (1978)

In 40 patients with pelvic cancers evaluated by computed tomography (CT), CT was less accurate in demonstrating lymph node metastasis compared to its high accuracy in detecting nodal involvement in lymphoma patients. This largely reflects the inability of CT to detect alterations in internal architecture in a normal-sized lymph node. While less sensitive, CT is a more specific method than lymphangiography in detecting nodal involvement by pelvic cancers. The role of CT in the staging of pelvic cancers is discussed.
A new column redundancy scheme for fast access time of 64-Mb DRAM (2002)

A 3.3-V 64-Mbit DRAM is fabricated using 0.4-/spl mu/m CMOS triple poly and double metal process technology. The DRAM implements a new column redundancy scheme called the data line suppression (DLS) to achieve fast access time. The widely used redundancy method for DRAMs (the address suppression scheme) has the disadvantage that access time for the redundancy column is longer than the normal column. The new DLS scheme overcomes this problem. A full chip 64-Mb DRAM which incorporates the new redundancy scheme is designed and successfully fabricated. Measurements confirm that column access time (t/sub AA/) for both the normal and redundant column are identical. It is 27 ns for typical operating conditions.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
A Distributed and Flexible Architecture for Internet of Things (2015)

The great breakthrough in technological devices has lead to the migration of actual Internet to the Internet of Things. There are merely trillions of smart dynamic objects that will be connected to the Internet and that interact and collaborate together independently from any physical location. This progress necessitates the proposal of an adequate architecture and routing process. In this paper, we propose a novel design and overlay architecture that fulfills the Internet of Things requirements. This approach is mainly based on Distributed Hash Table protocols to afford the required flexiblity and to handle efficiently mobility and churn cases. We present also a formal study that proves the efficiency of our proposed architecture.
Adaptive Instructional Planning in Intelligent Learning Systems (2006)

Traditional hypermedia techniques add a new dimension to reading, but do not enable precise pedagogical strategies to be followed during the composition of an adaptive course. This paper investigates the use of computational intelligence for adaptive lesson generation in a distance learning environment. The predetermination of a set of selection rules based on the assessment results of the learner can increase the system adaptation and affects even more the relevance of the approach. Nevertheless, only the expert tutor is entitled to formulate with certainty a correspondence between learner's profile and the characteristics of learning objects. A methodology is introduced then for producing a decision model that imitated the way decided by the designer. An intelligent mechanism based on a non-symbolic approach system is used for an adaptation of the teaching contents to the learners' performances
Auction-based congestion management for target tracking in wireless sensor networks (2009)

This paper addresses the problem of providing congestion-management for a shared wireless sensor network- based target tracking system. In many large-scale wireless sensor network target tracking scenarios (e.g., a surveillance system for tracking vehicles in urban environments), multiple targets may converge within close proximity of each other. Such scenarios may cause network congestion as nearby sensors attempt to concurrently send updates to a data aggregation point (e.g., base station). We consider the case in which this problem is further complicated by two factors. First, such a large-scale sensor network may very well be deployed to serve multiple target tracking applications with different and dynamic priorities and interests in different (types of) targets. Second, each application will most likely place a different premium on the timeliness of the target information (principally defined by some quality metric) they receive. All the above challenges introduce formidable challenges in providing the expeditious delivery of target information to all prioritized applications. In this paper, we advocate the use of a distributed auction-based approach to locally manage network bandwidth allocation in the described context. We use the Second Price Auction mechanism (to ensure incentive compatibility) in which the congested node acts as the auctioneer and the packets carrying target updates act as bidders. Their bid values are defined by the loss of information utility to the applications associated with the packets. The winning packet receives the current transmission slot of the auctioneer node. We demonstrate through simulation that the resulting auction allocates bandwidth efficiently, maximizing the collective applications' goals, even when the application priorities change dynamically.
Cholecystokinin‐8 enhances nerve growth factor synthesis and promotes recovery of capsaicin‐induced sensory deficit (2000)

Alterations of nerve growth factor (NGF) expression have been demonstrated during peripheral nerve disease and the impaired expression or synthesis and transportation of NGF has been correlated with the pathogenesis of several peripheral neuropathies. Since exogenous NGF administration seems to cause undesired side-effects, therapeutical strategies based on the regulation of endogenous synthesis of NGF could prove useful in the clinical treatment of these disorders. The aim of the present study was to analyse the effects of exogenous peripheral administration of the neuropeptide cholecystokinin-8 (CCK-8) on endogenous NGF synthesis, NGF mRNA and distribution of peripheral neuropeptides which are known to be regulated by this neurotrophin. To address these questions we studied the effects of capsaicin (CAPS) before and after the administration of CCK-8 on NGF levels, NGF mRNA expression and localization, and the concentration of substance P (SP) and calcitonin gene-related peptide (CGRP) in peripheral tissue These studies demonstrate that administration of the CCK-8 induces an increase of NGF protein and mRNA in peripheral tissue. NGF level in paw skin of CAPS/CCK-8-treated mice is 3 fold higher than in controls (1241+/-110 pg gr(-1) of tissue wet weight versus 414+/-110 pg gr(-1) of controls) and nearly 6 fold higher than in CAPS-treated mice (1241+/-110 pg gr(-1) versus 248+/-27 pg gr(-1)). The increase of NGF is correlated with the recovery of impaired nocifensive behaviour and with an overexpression of SP and CGRP. The evidence that CCK-8 promotes the recovery of sensory deficits suggests a potential clinical use for this neuropeptide in peripheral neuropathies.
The Effects of Epidural Anesthesia on Ventilatory Response to Hypercapnia and Hypoxia in Elderly Patients (1996)

Epidural anesthesia may impair pulmonary ventilation in elderly people.We examined the effects of lumbar or thoracic epidural anesthesia on resting ventilation, arterial blood gas tensions, the ventilatory response to hypercapnia, and progressive isocapnic hypoxia in elderly patients. Two groups of eight unpremedicated elderly patients, aged 65 yr or older, undergoing lower or upper abdominal surgery, respectively, were studied twice before and 20 min after the lumbar or thoracic administration of 10 mL of 2% lidocaine. Lumbar epidural anesthesia had no significant effect on resting ventilation, whereas thoracic epidural caused a significant 13% decrease in minute ventilation and a 14% decrease in tidal volume (P < 0.05). The ventilatory response to hypercapnia was significantly increased after lumbar epidural anesthesia, but no change was observed after thoracic epidural anesthesia. The slope of the hypoxic response curve did not show any change in either group, but minute ventilation at a SpO2 of 90% significantly increased after lumbar epidural anesthesia (P < 0.05). We conclude that neither lumbar nor thoracic epidural anesthesia per se impairs the ventilatory response to hypercapnia and hypoxia, despite slight impairment in resting ventilation by thoracic epidural anesthesia, in elderly patients. (Anesth Analg 1996;82:306-11)
Pushing people around (2005)

We present an algorithm for animating characters being pushed by an external source such as a user or a game environment. We start with a collection of motions of a real person responding to being pushed. When a character is pushed, we synthesize new motions by picking a motion from the recorded collection and modifying it so that the character responds to the push from the desired direction and location on its body. Determining the deformation parameters that realistically modify a recorded response motion is difficult. Choosing the response motion that will look best when modified is also non-trivial, especially in real-time. To estimate the envelope of deformation parameters that yield visually plausible modifications of a given motion, and to find the best motion to modify, we introduce an oracle. The oracle is trained using a set of synthesized response motions that are identified by a user as good and bad. Once trained, the oracle can, in real-time, estimate the visual quality of all motions in the collection and required deformation parameters to serve a desired push.Our method performs better than a baseline algorithm of picking the closest response motion in configuration space, because our method can find visually plausible transitions that do not necessarily correspond to similar motions in terms of configuration. Our method can also start with a limited set of recorded motions and modify them so that they can be used to serve different pushes on the upper body.
The effect of white matter hyperintensity volume on brain structure, cognitive performance, and cerebral metabolism of glucose in 51 healthy adults (1995)

WMHI volume is associated with structural and functional brain changes even within a group of very healthy individuals. WMHI is associated with poorer frontal lobe cognitive function and, when severe, is accompanied by significantly reduced frontal lobe metabolism. Subjects with large WMHI volumes have significantly higher systolic blood pressure, brain atrophy, reduced cerebral metabolism, and lower scores on tests of frontal lobe function than age-matched controls. Large amounts of WMHI are, therefore, pathologic and may be related to elevated systolic blood pressure even when it is within the normal age-related range.
Calculation of the Scattering Coefficient of Large Scale Periodic Structure (2014)

The periodic structure is common used in engineering to improve the sound diffusion in room acoustics. It usually has large dimensions and it is difficult to calculate the scattering coefficient based on its original scale. In order to represent the scattering coefficients of a large scale periodic structure by those of a smaller one, the relations of the scattering coefficients of the periodic structures with different dimensions are analyzed in this paper. At first, a BMM (Boundary Meshless Method) for calculating the scattering coefficient is derived. The scattering coefficients of the periodic structures which have different numbers of sub-structures are calculated and compared. The computation results of different sub-structure numbers show that the periodic structure with 15 sub-structures can represent the samples which have more sub-structures. In addition, it can be proved that the square samples can be represented by those of the small and rectangular ones which have the same numbers of sub-periods. These conclusions not only greatly enhance the computational efficiency, but also show good prospect for fast evaluation of the periodic structures in engineering applications.
Synthesis and Properties of a Bio‐Based Epoxy Resin with High Epoxy Value and Low Viscosity (2013)

A bio-based epoxy resin (denoted TEIA) with high epoxy value (1.16) and low viscosity (0.92 Pa s, 258C) was synthesized from itaconic acid and its chemical structure was confirmed by 1H NMR and 13C NMR spectroscopy. Its curing reaction with poly(propylene glycol) bis(2-aminopropyl ether) (D230) and methyl hexahydrophthalic anhydride (MHHPA) was investigated. For comparison, the commonly used diglycidyl ether of bisphenol A (DGEBA) was also cured with the same curing agents. The results demonstrated that TEIA showed higher curing reactivity towards D230/MHHPA and lower viscosity compared with DGEBA, resulting in the better processability. Owing to its high epoxy value and unique structure, comparable or better glass transition temperature as well as mechanical properties could be obtained for the TEIA-based network relative to the DGEBA-based network. The results indicated that itaconic acid is a promising renewable feedstock for the synthesis of bio-based epoxy resin with high performance.
U‐100, pH‐Neutral formulation of VIAject <sup>®</sup> : faster onset of action than insulin lispro in patients with type 1 diabetes (2011)

This formulation of VIAject is bioequivalent to the previously used formulation and has a faster absorption/onset of action than LIS.
Observation of Lattice Defects in GaAs and Heat-treated Si Crystals by Infrared Light Scattering Tomography (1983)

Most semiconductor crystals are transparent for infrared rays but some of them are difficult to study by X-ray methods if they are composed of heavy elements. An infrared light scattering tomography, which is developed in this paper to characterize semiconductor crystals, successfully gives clear images of micro-defects in a heat-treated Si crystal and dislocation networks in a GaAs crystal grown by a horizontal Bridgman method.
Bilayer PbS Quantum Dots for High‐Performance Photodetectors (2017)

Due to their wide tunable bandgaps, high absorption coefficients, easy solution processabilities, and high stabilities in air, lead sulfide (PbS) quantum dots (QDs) are increasingly regarded as promising material candidates for next-generation light, low-cost, and flexible photodetectors. Current single-layer PbS-QD photodetectors suffer from shortcomings of large dark currents, low on-off ratios, and slow light responses. Integration with metal nanoparticles, organics, and high-conducting graphene/nanotube to form hybrid PbS-QD devices are proved capable of enhancing photoresponsivity; but these approaches always bring in other problems that can severely hamper the improvement of the overall device performance. To overcome the hurdles current single-layer and hybrid PbS-QD photodetectors face, here a bilayer QD-only device is designed, which can be integrated on flexible polyimide substrate and significantly outperforms the conventional single-layer devices in response speed, detectivity, linear dynamic range, and signal-to-noise ratio, along with comparable responsivity. The results which are obtained here should be of great values in studying and designing advanced QD-based photodetectors for applications in future flexible optoelectronics.
Nonoverlapping dual-gate bucket-brigade devices (1980)

A novel bucket-brigade charge-transfer device concept is presented and experimentally verified. The dual-gate BBD exhibits operational performances comparable to surface-channel charge-coupled devices, while still enjoying fabrication simplicity and high yield. The concept is implemented using conventional p-channel aluminum-gate technology with only an additional shadowed-gap lift-off process which produces self-aligned bias-gate electrodes separated from the adjacent clock buses by submicron (typically 0.5 μm) spacings. Transfer inefficiencies below 10−4 at 100 kHz and around 5×10−4 at 1 MHz have been currently observed, despite the low carrier mobility (140 cm2/V s).
Isolation of a metK mutant with a temperature-sensitive S-adenosylmethionine synthetase (1977)

An Escherichia coli metK mutant, designated metK110, was isolated among spontaneous ethionine-resistant organisms selected at 42 degrees C. The S-adenosylmethionine synthetase activity of this mutant was present at lower levels than in the corresponding wild-type strain and was more labile than the wild-type enzyme when heated or dialyzed. A mixture of mutant and wild-type enzyme preparations had an activity equal to the sum of the component activities. These facts strongly suggest that the mutated gene in this strain is the structural gene for this enzyme. Genetic mapping experiments placed the metK110 mutation near or at the site of other known metK mutants (i.e., 63 min), confirming its designation as a metK mutant. A revised gene order has been established for this region, i.e., metC glc speC metK speB serA.
Functional role for senataxin, defective in ataxia oculomotor apraxia type 2, in transcriptional regulation (2009)

Ataxia oculomotor apraxia type 2 (AOA2) is an autosomal recessive neurodegenerative disorder characterized by cerebellar ataxia and oculomotor apraxia. The gene mutated in AOA2, SETX, encodes senataxin, a putative DNA/RNA helicase which shares high homology to the yeast Sen1p protein and has been shown to play a role in the response to oxidative stress. To investigate further the function of senataxin, we identified novel senataxin-interacting proteins, the majority of which are involved in transcription and RNA processing, including RNA polymerase II. Binding of RNA polymerase II to candidate genes was significantly reduced in senataxin deficient cells and this was accompanied by decreased transcription of these genes, suggesting a role for senataxin in the regulation/modulation of transcription. RNA polymerase II-dependent transcription termination was defective in cells depleted of senataxin in keeping with the observed interaction of senataxin with poly(A) binding proteins 1 and 2. Splicing efficiency of specific mRNAs and alternate splice-site selection of both endogenous genes and artificial minigenes were altered in senataxin depleted cells. These data suggest that senataxin, similar to its yeast homolog Sen1p, plays a role in coordinating transcriptional events, in addition to its role in DNA repair.
Thirty-Six Years of “National Emergency” Strikes (1951)

This study of national emergency strikes suggests that the incidence and dangers of such strikes are over-exaggerated in the minds of legislators and the public; except in time of war, machinery to deal with emergency strikes is needed only in public utilities and transportation. Edgar L. Warren is director of the Institute of Industrial Relations, University of California at Los Angeles, and formerly was director of the U.S. Conciliation Service. (Author's abstract courtesy EBSCO.)
GM2-Gangliosidosis (Sandhoff and Tay Sachs disease): Diagnosis and Neuroimaging Findings (An Iranian Pediatric Case Series). (2014)

According to the results of this study, we suggest that cherry-red spots, hyperacusis, refractory seizures, and relative parents in children with developmental delay and/or regression should be considered for assessment of GM2-Gangliosidosis disease.
Low delay, high quality wireless digital speech communications by shared time division duplexing (2002)

We examine various strategies to provide low delay, high quality digital speech communications in a high capacity wireless network. Multiple access schemes based an time-division and packet reservation are compared in terms of their statistical multiplexing capabilities, sensitivity to speech packet dropping, delay, robustness to lossy packet environments, and overhead efficiency. In particular, we propose a low-delay multiple access scheme, called Shared Time-Division Duplexing (STDD), which allows both the uplink and downlink traffic to share a common channel, thereby achieving high statistical multiplexing gain even with a low population of simultaneous conversations. Typically, with a total capacity of 1 MBaud, 2 ms frame and 8 kBaud speech rate, low delay STDD is able to support 48 pairs of users compared to 38, 35 and 16 for TDMA with speech activity detection, basic TDMA and PRMA respectively.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
The UCT IMS client (2009)

The UCT IMS Client is a free open source implementation of a 3GPP IMS Client. The project was started with the goal of creating a flexible and extensible code base for researchers and industry specialists to use the many communication services offered by the IMS. Since its inception in 2006 the client has grown, both in terms of its stability and its feature set, and is used worldwide by IMS enthusiasts as a means to experiment with IMS without any associated risks or costs. This paper describes the history of the project, the software architecture, the supported services and provides results of the various interoperability tests that have been performed between the UCT IMS Client and other freely available IMS Clients.
Ultra-thin-channelled GaAs MESFET with double-δ-doped layers (1988)

GaAs MESFETs with double-δ-doped layers have been fabricated with electron-beam-induced resist. The FET is made with the δ-doped channel embedded as shallow as 70 ̇ from the surface, and shows an intrinsic transconductance of 400 mS/mm for a gate length of about 1500 ̇.