gebhart/patrepeval huggingface dataset:
Vehicle size and orientation estimation using geometric fitting (2001)

Over the years imaging laser radar systems have been developed for military and civilian applications. Among the applications we note collection of 3D data for terrain modeling and object recognition. One part of the object recognition process is to estimate the size and orientation of the object. This paper concerns a vehicle size and orientation estimation process based on scanning laser radar data. Methods for estimation of length and width of vehicles are proposed. The work is based on the assumption that from a top view most vehicles' edges are approximately of rectangular shape. Thus, we have a rectangle fitting problem. The first step in the process is sorting of data into lists containing object data and data from the ground closest to the object. Then a rectangle with minimal area is estimated based on object data only. We propose an algorithm for estimation of the minimum rectangle area containing the convex hull of the object data. From the rectangle estimate, estimates of the length and width of the object can be retrieved. The first rectangle estimate is then improved using least squares methods based on both object and ground data. Both linear and nonlinear least squares methods are described. These improved estimates of the length and width are less biased compared to the initial estimates. The methods are applied to both simulated and real laser radar data. The use of the minimum rectangle estimator to retrieve initial parameters for fitting of more complex shapes is discussed.
Nuchal translucency thickness and crown-rump length in twin pregnancies with chromosomally abnormal fetuses. (1995)

We retrospectively examined the crown-rump length and nuchal translucency thickness of each fetus in eight twin pregnancies in which karyotyping at 10 to 14 weeks' gestation demonstrated that at least one of the fetuses was chromosomally abnormal. Eight fetuses had trisomy 21 and two had trisomy 18. The nuchal translucency thickness was more than 2.5 mm in nine (90%) of the trisomic fetuses and in one of the chromosomally normal ones. In contrast, the crown-rump length was below the fifth percentile in only one of the fetuses with trisomy 18; all other measurements were within the normal range.
Advanced Porous Electrode Modelling Framework Based on More Consistent Virtual Representation of the Electrode Topology (2020)

The paper proposes an advanced continuum level modelling framework characterized by a more consistent virtual representation of electrode topology to enhance prediction capability and generality of porous electrode theory based models. The proposed modelling framework, therefore, establishes the missing link between the mesoscopic scale with a detailed 3D representation of electrode topology and the continuum single cell scale, where interrelation to the real electrode topology was missing. This link is established by elaborating a unified approach for modelling materials with significantly different topologies of active material by virtually creating agglomerates, representing secondary particles, from primary particles. Proposed approach relies on multiparticle size distribution of primary particles and particle-to-particle connectivity. Generality of the proposed modelling framework is demonstrated by simulating LFP and NMC materials featuring significantly different electrode topologies by the same modelling framework while adapting only virtual representation of electrode topologies and intrinsic material properties. Credibility of the proposed modelling framework is confirmed through good agreement with experimental results for various discharge tests. Insightful simulation results also reveal background of the topologically driven low Li utilization at high current densities of the LFP material and topologically driven voltage response difference during the memory effect of different LFP materials.
Motion-capture-based avatar control framework in third-person view virtual environments (2006)

This paper presents a motion-capture-based control framework for third-person view virtual reality applications. Using motion capture devices, a user can directly control the full body motion of an avatar in virtual environments. In addition, using a third-person view, in which the user watches himself as an avatar on the screen, the user can sense his own movements and interactions with other characters and objects visually. However, there are still a few fundamental problems. First, it is difficult to realize physical interactions from the environment to the avatar. Second, it is also difficult for the user to walk around virtual environments because the motion capture area is very small compared to the virtual environments. This paper proposes a novel framework to solve these problems. We propose a tracking control framework in which the avatar is controlled so as to track input motion from a motion capture device as well as system generated motion. When an impact is applied to the avatar, the system finds an appropriate reactive motion and controls the weights of two tracking controllers in order to realize realistic and also controllable reactions. In addition, when the user walks in position, the system generates a walking motion for the controller to track. The walking speed and turn angle are also controlled through the user's walking gestures. Using our framework, the system generates seamless transitions between user controlled motions and system generated motions. In this paper, we also introduce a prototype application including a simplified optical motion capture system.
Mechanisms of cerebral edema in traumatic brain injury: therapeutic developments (2010)

Attenuating blood-brain barrier permeability has become a promising approach to managing brain edema and associated swelling given that increases in cranial water content can only be derived from the vasculature. Inflammation, both classical and neurogenic, offers a number of attractive targets.
A Low-Profile Dual-Polarized Dipole Antenna Using Wideband AMC Reflector (2018)

A low-profile dual-polarized dipole antenna using wideband artificial magnetic conductor (AMC) reflector with stable radiation pattern for use in 2G/3G/4G base stations operating from 1.7 to 2.7 GHz is presented. The antenna consists of a pair of crossed-dipoles and a wideband AMC reflector which consists of an AMC surface, a metallic ground plane, and the air substrate between them. The AMC is designed to operate with 90° reflection-phase bandwidth of 1.64-2.88 GHz (54.8%). Compared with using perfect electric conductor reflector, the profile height of the dual-polarized dipole antenna using AMC reflector is reduced by half from 36 to 18 mm, resulting in the lowest-profile 2G/3G/4G base station antenna. Six metallic ground walls are used to stabilize the radiation pattern, and the resulted half-power beamwidths are around 68±3° and 81±3° in the H- and V-planes, respectively, across the operating band. More measured results show that wide impedance bandwidths of 1.67-2.98 and 1.64-3.05 GHz for the two input ports, isolation of more than 25 dB, and cross-polarization of less than -20 dB are achieved.
Three-Dimensional Imaging of Macular Inner Structures in Glaucoma by Using Spectral-Domain Optical Coherence Tomography (2010)

Macular IRL thickness measured by using 3D-SD-OCT is useful for profiling macular atrophy in SGPPG.
Protein arginine methyltransferase 5 is a potential oncoprotein that upregulates<scp>G</scp>1 cyclins/cyclin‐dependent kinases and the phosphoinositide 3‐kinase/<scp>AKT</scp>signaling cascade (2012)

Increasing evidence suggests that PRMT5, a protein arginine methyltransferase, is involved in tumorigenesis. However, no systematic research has demonstrated the cell-transforming activity of PRMT5. We investigated the involvement of PRMT5 in tumor formation. First, we showed that PRMT5 was associated with many human cancers, through statistical analysis of microarray data in the NCBI GEO database. Overexpression of ectopic PRMT5 per se or its specific shRNA enhanced or reduced cell growth under conditions of normal or low concentrations of serum, low cell density, and poor cell attachment. A stable clone that expressed exogenous PRMT5 formed tumors in nude mice, which demonstrated that PRMT5 is a potential oncoprotein. PRMT5 accelerated cell cycle progression through G1 phase and modulated regulators of G1; for example, it upregulated cyclin-dependent kinase (CDK) 4, CDK6, and cyclins D1, D2 and E1, and inactivated retinoblastoma protein (Rb). Moreover, PRMT5 activated phosphoinositide 3-kinase (PI3K)/AKT and suppressed c-Jun N-terminal kinase (JNK)/c-Jun signaling cascades. However, only inhibition of PI3K activity, and not overexpression of JNK, blocked PRMT5-induced cell proliferation. Further analysis of PRMT5 expression in 64 samples of human lung cancer tissues by microarray and western blot analysis revealed a tight association of PRMT5 with lung cancer. Knockdown of PRMT5 retarded cell growth of lung cancer cell lines A549 and H1299. In conclusion, to the best of our knowledge, we have characterized the cell-transforming activity of PRMT5 and delineated its underlying mechanisms for the first time.
PETLON: Planning Efficiently for Task-Level-Optimal Navigation (2018)

Intelligent mobile robots have recently become able to operate autonomously in large-scale indoor environments for extended periods of time. Task planning in such environments involves sequencing the robot's high-level goals and subgoals, and typically requires reasoning about the locations of people, rooms, and objects in the environment, and their interactions to achieve a goal. One of the prerequisites for optimal task planning that is often overlooked is having an accurate estimate of the actual distance (or time) a robot needs to navigate from one location to another. State-of-the-art motion planners, though often computationally complex, are designed exactly for this purpose of finding routes through constrained spaces. In this work, we focus on integrating task and motion planning (TMP) to achieve task-level optimal planning for robot navigation while maintaining manageable computational efficiency. To this end, we introduce TMP algorithm PETLON (Planning Efficiently for Task-Level-Optimal Navigation) for everyday service tasks using a mobile robot. PETLON is more efficient than planning approaches that pre-compute motion costs of all possible navigation actions, while still producing plans that are optimal at the task level.
Engineering UiO-66-NH<sub>2</sub> for Toxic Gas Removal (2013)

The metal–organic framework UiO-66-NH2 was synthesized in a scaled batch of approximately 100 g. The material was then pressed into small pellets at pressures ranging from 5000 to 100000 psi to determine the effects on porosity and crystal structure. Nitrogen isotherm data and powder X-ray diffraction data indicate that the structure remains intact up to 25000 psi, with only a slight decrease in surface area. The structure exhibits significant degradation at pressures above 25000 psi. Subsequently, the powder was pressed at 5000 psi and then crushed and sieved into 20 × 40 mesh granules for evaluation against ammonia and cyanogen chloride in a breakthrough system simulating individual protection filters and respirator cartridges. The MOF showed capacity similar to that of a broad-spectrum carbon for both ammonia and cyanogen chloride; however, the breakthrough times, especially for cyanogen chloride, were dramatically reduced, likely as a result of mass-transfer limitations from the completely microporous MOF.
Lipid A-associated proteins provide an alternate "second signal" in the activation of recombinant interferon-gamma-primed, C3H/HeJ macrophages to a fully tumoricidal state. (1987)

Previous studies have shown that the activation of murine macrophages to a fully tumoricidal state requires that specific environmental signals be delivered to the macrophage in a stepwise manner: a "priming" signal first renders the macrophage responsive to a second or "trigger" signal. One potent "priming" signal has been identified as the T cell-derived lymphokine, interferon-gamma (IFN-gamma) and one often used "trigger" signal is lipopolysaccharide (LPS), the endotoxin derived from Gram-negative bacteria. In these studies, endotoxin-responsive C3H/OuJ (Lps(n)) and endotoxin-hyporesponsive C3H/HeJ (Lps(d)) macrophages were exposed in vitro to recombinant IFN-gamma (rIFN-gamma) and various preparations of endotoxin or purified lipid A-associated proteins (LAP). The resultant tumoricidal responses were evaluated to define the activation requirements of murine macrophages and to examine further the LPS defect exhibited by C3H/HeJ mice. The findings presented herein demonstrate that C3H/OuJ macrophages primed by rIFN-gamma respond to protein-free LPS (phenol-water extracted LPS), protein-rich LPS (butanol-extracted LPS), or purified LAP. In contrast, rIFN-gamma-primed C3H/HeJ macrophages failed to become cytolytic with phenol-water extracted LPS, but could be rendered fully tumoricidal if either butanol-extracted LPS or LAP were used as "second signals." These data indicate that C3H/HeJ macrophages are fully responsive to the priming effects of IFN-gamma, but remain restricted in their capacity to recognize protein-free LPS as a second signal. Alternate second signals, such as LAP, may provide a compensatory pathway by which these macrophages are rendered fully tumoricidal.
Nucleotide Binding to the C-terminal Nucleotide Binding Domain of ArsA (1998)

ArsA protein, the catalytic component of the plasmid-encoded anion-translocating ATPase in Escherichia coli, contains two consensus nucleotide binding domains, A1 and A2, that are connected by a flexible linker. ATP has previously been shown to cross-link to the A1 domain upon activation with UV light but not to the A2 domain. The ATP analogue, 5'-p-fluorosulfonylbenzoyladenosine (FSBA) was used to probe the nucleotide binding domains of ArsA. The covalently labeled protein was subjected to partial trypsin proteolysis, followed by Western blot analysis of the fragments with the anti-FSBA serum. The N-terminal amino acid sequence of the labeled fragment showed that FSBA binds preferentially to the C-terminal domain A2 both in the absence and the presence of antimonite. Occupancy of the two nucleotide binding sites was determined by protection from trypsin proteolysis. Trypsin cleaved the ArsA protein at Arg290 in the linker to generate a 32-kDa N-terminal and a 27-kDa C-terminal fragment. The 32-kDa fragment is compact and largely inaccessible to trypsin; however, the 27-kDa was cleaved further. Incubation with FSBA, which binds to the C-terminal domain, resulted in significant protection of the 27-kDa fragment. This fragment was not protected upon incubation with ATP alone, indicating that A2 might be unoccupied. However, upon incubation with ATP and antimonite, almost complete protection from trypsin was seen. ATP and FSBA together mimicked the effect of ATP and antimonite, implying that this fully protected conformation might be the result of both sites occupied with the nucleotide. It is proposed that the A1 site in ArsA is a high affinity ATP site, whereas the allosteric ligand antimonite is required to allow ATP binding to A2, resulting in catalytic cooperativity. Thus antimonite binding may act as a switch in regulating ATP binding to A2 and hence the ATPase activity of ArsA.
Multilocus Sequence Typing Scheme That Provides Both Species and Strain Differentiation for the <i>Burkholderia cepacia</i> Complex (2005)

A single multilocus sequence typing (MLST) scheme was developed for precise characterization of the opportunistic pathogens of Burkholderia cepacia complex (BCC), a group composed of at least nine closely related species. Seven conserved housekeeping genes were selected after a comparison of five Burkholderia species, and a collection of strains was subjected to nucleotide sequence analysis using a nested PCR amplification approach for each gene. MLST differentiated all nine current BCC species and identified 114 sequence types within a collection of 119 strains. No differentiation was found between strains recovered from environmental or clinical sources. The improved resolution in strain identification offered by MLST was able to identify previously characterized epidemic strain lineages and also demonstrated the presence of four novel potential species groups within the complex. There was also evidence for recombination having an important role in the recent evolution of individual BCC species. This highly transferable, validated, MLST scheme provides a new means to assist in species identification as well as unambiguous strain discrimination of the BCC by a single approach. It is also the first MLST scheme designed at the outset to incorporate multiple species and should facilitate global epidemiological investigations of the BCC.
A Preconditioned Adaptive Implicit Method for Reservoirs with Surface Facilities (1999)

Abstract Fully implicit coupling of surface facilities with a reservoir model can lead to a significant increase in computing time. The focus of this paper is on methods designed to reduce the computational effort. An adaptive implicit method is coupled with a novel preconditioning method to produce an optimal strategy for fully coupled surface facility reservoir simulation.
DNA-duplexes containing abasic sites: correlation between thermostability and acoustic wave properties (2006)

Aldehydic apurinic or apyrimidinic sites that lack a nucleobase moiety are one of the most common forms of toxic lesions in DNA. In the present study, a close structural analog of such a site, the 2-(hydroxymethyl) tetrahydrofuranyl residue, was synthesized in order to act as a model for damaged nucleic acid probes. Prepared oligodeoxyribonucleotides containing one, two or three abasic sites were hybridized to complementary sequences immobilized on a gold surface using the neutravidin-biotin interaction for study by thickness shear mode acoustic wave detector. Measurement of the complex electrical impedance of an AT-cut quartz device with immobilized biotinylated nucleotide allowed the detection of changes of series resonance frequency, Deltafs, and motional resistance, Rm, associated with duplex formation. The changes as detected by the acoustic wave method correlated well with the thermostability of DNA duplexes in solution. With respect to the latter, UV-monitored melting curves indicate that both the number of sites and their localization in the double-stranded structure influence the amount by which a 19 b.p. duplex is destabilized. The presence of 3 abasic sites completely destabilized the DNA duplex.
Learning Document Embeddings by Predicting N-grams for Sentiment Classification of Long Movie Reviews (2015)

Despite the loss of semantic information, bag-of-ngram based methods still achieve state-of-the-art results for tasks such as sentiment classification of long movie reviews. Many document embeddings methods have been proposed to capture semantics, but they still can't outperform bag-of-ngram based methods on this task. In this paper, we modify the architecture of the recently proposed Paragraph Vector, allowing it to learn document vectors by predicting not only words, but n-gram features as well. Our model is able to capture both semantics and word order in documents while keeping the expressive power of learned vectors. Experimental results on IMDB movie review dataset shows that our model outperforms previous deep learning models and bag-of-ngram based models due to the above advantages. More robust results are also obtained when our model is combined with other models. The source code of our model will be also published together with this paper.
Induced Foxp3+ T Cells Colonizing Tolerated Allografts Exhibit the Hypomethylation Pattern Typical of Mature Regulatory T Cells (2016)

Regulatory T cells expressing the transcription factor Foxp3 require acquisition of a specific hypomethylation pattern to ensure optimal functional commitment, limited lineage plasticity, and long-term maintenance of tolerance. A better understanding of the molecular mechanisms involved in the generation of these epigenetic changes in vivo will contribute to the clinical exploitation of Foxp3(+) Treg. Here, we show that both in vitro and in vivo generated antigen-specific Foxp3(+) Treg can acquire Treg-specific epigenetic characteristics and prevent skin graft rejection in an animal model.
Estimating optimal window size for analysis of low-coverage next-generation sequence data (2014)

An R package to estimate optimal window size is available at http://www1.maths.leeds.ac.uk/∼arief/R/win/.
Structure and properties of composites synthesized in situ using solid state displacement reactions (1993)

Solid state displacement reactions can produce in situ intermetallic and ceramic matrix composites in a process where an intermetallic or ceramic phase(s) and a potential reinforcing phase(s) are grown together during a solid state reaction. Interpenetrating and dispersed microstructures, important for desirable composite properties, have been produced by means of displacement reaction processing techniques. Two such composites have been synthesized which exhibit two distinct microstructures: MoSi{sub 2} reinforced with SiC particles, which exhibits a dispersed-phase structure, and NiAl/Ni{sub 3}Al reinforced with Al{sub 2}O{sub 3}, which exhibits an interpenetrating-phase structure. Strength in bending and chevron-notch fracture toughness have been determined as a function of temperature, and measured properties compare favorably with composites produced by other means. The measured properties are discussed with regard to the observed microstructures. The potential for displacement reaction processing is assessed, and it appears to be a cost-effective synthesis method compared to others.
Identifying the Catalytic Acid/Base in GH29 α-<scp>l</scp>-Fucosidase Subfamilies (2013)

While the catalytic nucleophile in the configuration-retaining α-L-fucosidases from family GH29 is fully conserved with respect to sequence, there is no fully sequence-conserved acid/base residue candidate across the family. X-ray crystallographic studies and kinetic characterizations have allowed the identification of this residue in a few cases, and a recent combination of phylogenetic tree analyses with substrate specificity data has allowed the division of GH29 enzymes into two subfamilies, A and B, allowing the probable assignment of these residues. Here, we perform detailed kinetic and mechanistic characterizations of the corresponding alanine mutants and other candidates. Through comparison of kinetic parameters obtained for the hydrolysis of fucosyl substrates with activated leaving groups by these mutants with those of the corresponding wild-type enzymes, in conjunction with the demonstration of azide rescue, we largely confirm the acid/base residue predictions for the GH29 fucosidases from the two subfamilies.