gebhart/patrepeval huggingface dataset:
Poster: 3D Virtual Disaster Management Environment using Wireless Sensor Networks (2016)

The integration of wireless sensor networks with 3D virtual environments contribute to a vast array of applications in several areas such as disaster management, emergency preparedness fire, complex military training, and virtual health. Collected sensor data can be mapped to a virtual controlled environment in order to produce a real live 3D virtual environment that reflects exactly the real situation. The virtual environment can be used and analyzed by rescuer professional team to come up with a rescue plan scenario and with an appropriate effort management in an acceptable response time whenever there is a need. In this paper, we provide a general framework for 3D Virtual Disaster Management Environment Using Wireless Sensor Networks.
Tracking Deformable Surfaces That Undergo Topological Changes Using an RGB-D Camera (2016)

We present a method for 3D tracking of deformable surfaces with dynamic topology, for instance a paper that undergoes cutting or tearing. Existing template-based methods assume a template of fixed topology. Thus, they fail in tracking deformable objects that undergo topological changes. In our work, we employ a dynamic template (3D mesh) whose topology evolves based on the topological changes of the observed geometry. Our tracking framework deforms the defined template based on three types of constraints: (a) the surface of the template has to be registered to the 3D shape of the tracked surface, (b) the template deformation should respect feature (SIFT) correspondences between selected pairs of frames, and (c) the lengths of the template edges should be preserved. The latter constraint is relaxed when an edge is found to lie on a "geometric gap", that is, when a significant depth discontinuity is detected along this edge. The topology of the template is updated on the fly by removing overstretched edges that lie on a geometric gap. The proposed method has been evaluated quantitatively and qualitatively in both synthetic and real sequences of monocular RGB-D views of surfaces that undergo various types of topological changes. The obtained results show that our approach tracks effectively objects with evolving topology and outperforms state of the art methods in tracking accuracy.
First Principles pKa Calculations on Carboxylic Acids Using the SMD Solvation Model: Effect of Thermodynamic Cycle, Model Chemistry, and Explicit Solvent Molecules B (2012)

Aqueous pKₐ values are calculated from first principles for a set of carboxylic acids using the SMD solvation model with various model chemistries, thermodynamic cycles, and treatments of explicit solvation. In all, 108 unique theoretical protocols are examined. The direct (D) and water proton exchange (PX) cycles are trialled along with a new approach, termed the semidirect (SD) cycle. The SD thermodynamic cycle offers some improvements over the D and PX schemes, as it bypasses the gas-phase heterolytic bond dissociation calculation required in the conventional D approach while also avoiding an aqueous OH– calculation required by the PX method when using water as the reference acid. With all three cycles, the recommended model chemistry employs M05-2X/cc-pVTZ Gibbs energies of solvation with a single discrete water molecule and a high-level composite method for the gas-phase reaction energies. With the SD cycle, these calculations result in a mean unsigned error of less than 1 pKₐ units, with respective mean signed error and maximum unsigned error of less than 0.5 and 2 pKₐ units. Similar results are obtained with the D and PX cycles, and further improvement is required in both the gas and aqueous phase ab initio energy calculations before we can truly discriminate between the thermodynamic cycles investigated here.
Long-Range Control of Renin Gene Expression in Tsukuba Hypertensive Mice (2016)

Renin, a rate-limiting enzyme in the renin-angiotensin system, is regulated to maintain blood pressure homeostasis: renin gene expression in the kidney is suppressed in a hypertensive environment. We found that expression of a 15-kb human RENIN (hREN) transgene was aberrantly upregulated (>4.2-fold), while the endogenous mouse renin (mRen) gene was suppressed (>1.7-fold) in Tsukuba hypertensive mice (THM), a model for genetically induced hypertension. We then generated transgenic mice using a 13-kb mRen gene fragment that was homologous to the 15-kb hREN transgene and found that its expression was also upregulated (>3.1-fold) in THM, suggesting that putative silencing elements of the renin genes were distally located in the loci. We next examined the possible role of a previously identified mouse distal enhancer (mdE) located outside of the 13-kb mRen gene fragment. Deletion of the mdE in the context of a 156-kb mRen transgene did not affect its transcriptional repression in THM, implying that although the silencing element of the mRen gene is located within the 156-kb fragment tested, it is distinct from the mdE. Consistent with these results, deletion of the 63-kb region upstream of the mdE from the endogenous mRen gene locus abrogated its transcriptional repression in THM. We finally tested whether dysregulation of the short renin transgenes also occurred in the fetal or neonatal kidneys of THM and found that their expression was not aberrantly upregulated, demonstrating that aberrant regulation of short renin transgenes commences sometime between neonate and adult periods.
Sur Le Pour et Contre de l'Abbe Prevost (1948)

Journal Article SUR LE POUR ET CONTRE DE L'ABBÉ PRÉVOST Get access M. R. RUTHERFORD M. R. RUTHERFORD LONDRES Search for other works by this author on: Oxford Academic Google Scholar French Studies, Volume II, Issue 3, July 1948, Pages 223–239, https://doi.org/10.1093/fs/II.3.223 Published: 01 July 1948
Separation imaging of DNA fragments in poly (dimethylsiloxane) microchip (2005)

Poly (dimethylsiloxane) (PDMS) had been extensively used as excellent microchip material due to its particular advantages. In this paper, Laser-induced fluorescence detection system for visualizing microchip electrophoresis had been constructed and a series of electrophoresis operation of DNA fragments labeled by SYBR Green I were imaged by charge coupled device (CCD) camera. We investigated the influence of the sieving matrix concentration and the electric field strength on the formation of sample injection plug. PCR markers were well separated in PDMS microchip.
Optimizing product allocation in a polling-based milkrun picking system (2018)

E-commerce fulfillment competition evolves around cheap, speedy, and time-definite delivery. Milkrun order picking systems have proven to be very successful in providing handling speed for a large, but highly variable, number of orders. In this system, an order picker picks orders that arrive in real-time during the picking process; by dynamically changing the stops on the picker’s current picking route. The advantage of milkrun picking is that it reduces order picking set-up time and worker travel time compared with conventional batch picking systems. This article is the first to study order throughput times of multi-line orders in a milkrun picking system. We model this system as a cyclic polling system with simultaneous batch arrivals, and determine the mean order throughput time for three picking strategies: exhaustive, locally-gated, and globally-gated. These results allow us to study the effect of different product allocations in an optimization framework. We show that the picking strategy that achieves the shortest order throughput times depends on the ratio between pick times and travel times. In addition, for a real-world application, we show that milkrun order picking significantly reduces the order throughput time compared with conventional batch picking.
Optimization of the Preparation of Aqueous Suspensions of Waxy Maize Starch Nanocrystals Using a Response Surface Methodology (2004)

Response surface methodology was used to investigate the effect of five selected factors on the selective H(2)SO(4) hydrolysis of waxy maize starch granules. These predictors were temperature, acid concentration, starch concentration, hydrolysis duration, and stirring speed. The goal of this study was to optimize the preparation of aqueous suspensions of starch nanocrystals, i.e., to determine the operative conditions leading to the smallest size of insoluble hydrolyzed residue within the shortest time and with the highest yield. Therefore empirical models were elaborated for the hydrolysis yield and the size of the insoluble residues using a central composite face design involving 31 trials. They allowed us to show that it was possible to obtain starch nanocrystals after only 5 days of H(2)SO(4) hydrolysis with a yield of 15 wt % and having the same shape as those obtained from the classical procedure after 40 days of HCl treatment, with a yield of 0.5 wt %.
Synthesis of New Imidazole Aminophosphonic and Aminophosphinic Acids. (2003)

Abstract For Abstract see ChemInform Abstract in Full Text.
Dysregulated genes and miRNAs in the apoptosis pathway in colorectal cancer patients (2018)

Apoptosis is genetically regulated and involves intrinsic and extrinsic pathways. We examined 133 genes within these pathways to identify whether they are expressed differently in colorectal carcinoma (CRC) and normal tissue (N = 217) and if they are associated with similar differential miRNA expression. Gene expression data (RNA-Seq) and miRNA expression data (Agilent Human miRNA Microarray V19.0) were generated. We focused on dysregulated genes with a fold change (FC) of > 1.50 or < 0.67, that were significant after adjustment for multiple comparisons. miRNA:mRNA seed-region matches were determined. Twenty-three genes were significantly downregulated (FC < 0.67) and 18 were significantly upregulated (FC > 1.50). Of these 41 genes, 11 were significantly associated with miRNA differential expression. BIRC5 had the greatest number of miRNA associations (14) and the most miRNAs with a seed-region match (10). Four of these matches, miR-145-5p, miR-150-5p, miR-195-5p, and miR-650, had a negative beta coefficient. CSF2RB was associated with ten total miRNAs (five with a seed-region match, and one miRNA, miR-92a-3p, with a negative beta coefficient). Of the three miRNAs associated with CTSS, miR-20b-5p, and miR-501-3p, had a seed-region match and a negative beta coefficient between miRNA:mRNA pairs. Several miRNAs that were associated with dysregulated gene expression, seed-region matches, and negative beta coefficients also were associated with CRC-specific survival. Our data suggest that miRNAs could influence several apoptosis-related genes. BIRC5, CTSS, and CSF2R all had seed-region matches with miRNAs that would favor apoptosis. Our study identifies several miRNA associated with apoptosis-related genes, that if validated, could be important therapeutic targets.
1H‐1,2,4‐Triazol‐3‐yl‐anilines: Novel Potent Inhibitors of Vascular Endothelial Growth Factor Receptors 1 and 2 (2007)

Novel derivatives of 1,2,4-triazoles are described as potent ATP-competitive inhibitors of vascular endothelial growth factor receptors I and II (VEGFR-1/2). A number of compounds display VEGFR-2 inhibitory activity comparable to that of Vatalanib and Vandetanib in both homogenous time-resolved fluorescence enzymatic and cellular assays. Several active molecules feature high intrinsic permeability (>30 x 10(-5) cm/min) across Caco-2 cell monolayer.
Calcium Chloride and Calcium Gluconate in Neonatal Parenteral Nutrition Solutions with Added Cysteine: Compatibility Studies Using Laser Light Obscuration Methodology (2018)

This study found that neonatal PN solutions containing CaGlu with added cysteine have significantly higher particle counts, exceeding USP guidelines for compatibility, than those containing CaCl<sub>2</sub> .
Comparative Interaction Studies of Quercetin with 2-Hydroxyl-propyl-β-cyclodextrin and 2,6-Methylated-β-cyclodextrin (2022)

Quercetin is a well-known natural product that can exert beneficial properties on human health. However, due to its low solubility its bioavailability is limited. In the present study, Here, we examine whether its formulation with two cyclodextrins (CDs) may enhance its pharmacological profile. Comparative interaction studies of quercetin with 2-hydroxyl-propyl-β-cyclodextrin (2HP-β-CD) and 2,6-methylated cyclodextrin (2,6Me-β-CD) were performed using NMR spec-troscopy and Molecular Dynamics (MD) simulations. Using T1 relaxation experiments and 2D DOSY it was illustrated that both cyclodextrin vehicles can host quercetin. Calculations of abso-lute binding free energies show that quercetin binds favorably to both 2,6Me-β-CD and 2HP-β-CD. MM/GBSA results show equally favorable binding of quercetin in the two CDs. Fluo-rescence spectroscopy shows moderate binding of quercetin in 2HP-β-CD (520 M-1) and 2,6Me-β-CD (770 M-1). Thus, we propose that both formulations (2HP-β-CD:quercetin, 2,6Me-β-CD:quercetin) could be further explored and exploited as small molecule carriers in bio-logical and clinical studies. In this entry we provide all input files for absolute free energy calculations using the non-equilibrium scheme of GROMACS 2021.4. Please cite this as "Vakali et al, Comparative Interaction Studies of Quercetin with 2-Hydroxyl-propyl-β-cyclodextrin and 2,6-Methylated-β-cyclodextrin, Molecules, 2022" <br> The file "input_files_non_equilibrium_AFE_hpbcd7.tar.gz" holds input files required to run the non-equilibrium free energy workflow for 2-Hydroxyl-propyl-β-cyclodextrin/Quercetin complex using GROMACS.2021.4 <br> The following files and directories/folders have been generated: <br> README.txt input_files_non_equilibrium_AFE_hpbcd7/ stateA_water/<br> Contains the 96 .gro and .tpr files required to run QUE solvation leg starting from λ=0 stateB_water/<br> Contains the 96 .gro and .tpr files required to run QUE solvation leg starting from λ=1 stateA_protein/<br> Contains the 96 .gro and .tpr files required to run QUE coupling leg starting from λ=0 stateB_protein/<br> Contains the 96 .gro and .tpr files required to run QUE coupling leg starting from λ=1 topology_scripts/ Contains the topology files for complex and solvent phase, mdp files containing all the input parameters to run each transition, grompp* python script files to produce the 95 tpr files to perform each transition for each system and the restraints.py script provided from http://www.alchemistry.org/wiki/Absolute_Binding_Free_Energy_-_Gromacs_2016 to compute analytically the restraints applied for these calculations
Absolute CF2 density and gas temperature measurements by absorption spectroscopy in dual-frequency capacitively coupled CF4/Ar plasmas (2014)

Broadband ultraviolet absorption spectroscopy has been used to determine the CF2 radical density in dual-frequency capacitively coupled CF4/Ar plasmas, using the CF2 Ã1B1←X̃1A1 system of absorption spectrum. The rotational temperature of ground state CF2 and excited state CF was also estimated by using Ã1B1←X̃1A1 system and B2Δ−X2Π system, respectively. The translational gas temperature was deduced from the Doppler width of the Ar*(3P2) and Ar*(3P0) metastable atoms absorption line by using the tunable diode laser absorption spectroscopy. The rotational temperatures of the excited state CF are about 100 K higher than those of ground state CF2, and about 200 K higher than the translational gas temperatures. The dependences of the radical CF2 density, electron density, electron temperature, rotational temperature, and gas temperature on the high frequency power and pressure have been analyzed. Furthermore, the production and loss mechanisms of CF2 radical and the gas heating mechanisms have also been discussed.
Deconstructing mastery in colorectal fluorescence angiography interpretation (2022)

Expert ICGFA users demonstrate high correlation in mathematical measures of their signal interpretation although do so tacitly. Computational quantification of expert behavior can help develop the necessary lexicon and training sets as well as computer vision methodology to better exploit ICGFA technology.
The value of detecting anti-VZV IgG antibody in CSF to diagnose VZV vasculopathy (2007)

<b>Background: </b> Factors that may obscure the diagnosis of varicella zoster virus (VZV) vasculopathy include the absence of rash before TIAs or stroke as well as similar clinical features and imaging, angiographic, and CSF abnormalities to those of other vasculopathies. Diagnosis relies on virologic confirmation that detects VZV DNA, anti-VZV IgG antibody, or both in the CSF. <b>Methods: </b> We reviewed our current 14 cases of patients diagnosed with VZV vasculopathy based on combined clinical, imaging, angiographic, or CSF abnormalities. All CSFs must have been tested for VZV DNA by PCR and for anti-VZV IgG antibody by enzyme immunoassay and found to be positive for either or both. Of the 14 subjects, 8 had a history of recent zoster, whereas 6 had no history of zoster rash before developing vasculopathy. <b>Results: </b> All 14 subjects (100%) had anti-VZV IgG antibody in their CSF, whereas only 4 (28%) had VZV DNA. The detection of anti-VZV IgG antibody in CSF was a more sensitive indicator of VZV vasculopathy than detection of VZV DNA (<i>p</i> &lt; 0.001). <b>Conclusions: </b> In varicella zoster virus (VZV) vasculopathy, the diagnostic value of detecting anti-VZV IgG antibody in CSF is greater than that of detecting VZV DNA. Although a positive PCR for VZV DNA in CSF is helpful, a negative PCR does not exclude the diagnosis of VZV vasculopathy. Only when the CSF is negative for both VZV DNA and anti-VZV IgG antibody can the diagnosis of VZV vasculopathy be excluded.
Two Alternative Parallel Implementations for Ray Tracing: OpenMP and MPI (2010)

In computer graphics, rendering scenes into high-quality images efﬁciently is critical, especially if some interactivity is required. However, it is hard to satisfy both speed and interactivity requirements for most existing rendering algorithms. Ray Tracing is an algorithm for three-dimensional scene rendering, but it needs massive heavy ﬂoating-point computations. Nevertheless, the algorithm can be very well parallelized, making it ideal for parallel mutli-core architectures. In this paper, we present a structured model for parallel Ray Tracing together with two software implementations in OpenMP and MPI. The model is based on the Uniform Grid spatial subdivision of the scene, which allows for intersection test reduction. Furthermore, we show that a parallel implementation improves the algorithm performance when the rendered scenes are large and sparse.
CARS spectroscopy of Aspergillus nidulans spores (2019)

Coherent Anti-Stokes Raman Spectroscopy (CARS) is performed on single spores (conidia) of the fungus Aspergillus nidulans in order to establish a baseline measurement for fungal spores. Chemical maps of single spores are generated and spectral differentiation between the cell wall and the cytoplasm is achieved. Principal Component Analysis of the measured spectra is then completed as a means to quantify spore heterogeneity. Applications range from the quick and accurate diagnosis of public health concerns to real-time agricultural and environmental sensing of fungal symbionts and pathogens.
Scotoma mapping by semi‐automated kinetic perimetry: the effects of stimulus properties and the speed of subjects' responses (2006)

Semi-automated kinetic perimetry can determine the size of the physiological blind spot with good repeatability in young, normal subjects. Determination of each individual's speed of response and inclusion of this variable in the calculations reduced variance of the measure significantly. This study confirmed the presence of considerable interindividual differences in the size of the physiological blind spot.
Eye Micro-movements Improve Stimulus Detection Beyond the Nyquist Limit in the Peripheral Retina (2003)

Even under perfect fixation the human eye is under steady motion (tremor, microsaccades, slow drift). The &amp;quot;dynamic&amp;quot; theory of vision [1, 2] states that eye-movements can improve hyperacuity. According to this theory, eye movements are thought to create variable spatial excitation patterns on the photoreceptor grid, which will allow for better spatiotemporal summation at later stages. We reexamine this theory using a realistic model of the vertebrate retina by comparing responses of a resting and a moving eye. The performance of simulated ganglion cells in a hyperacuity task is evaluated by ideal observer analysis. We find that in the central retina eye-micromovements have no effect on the performance. Here
ChemInform Abstract: Synthesis of Alkenes by Peterson Alkenation (2012)

Abstract Review: 78 refs.
Hydrogen and Nitrogen Desorption Phenomena Associated with a Stainless Steel 304 Low Energy Electron Diffraction (LEED) and Molecular Beam Assembly (1972)

The rates of hydrogen desorption from the walls of a standard LEED stainless steel vacuum chamber isolated from the ion pump have been measured using an oxygen-free copper orifice of known conductance, which acts as the final focussing slit in a molecular beam assembly, and found unacceptably high for the maintenance of a clean metal single crystal surface. The causes are discussed and the rates of desorption are presented after the stainless steel apparatus had been subjected to vacuum degassing at 850–950 °C in a vacuum furnace at pressures ≤10−5 Torr. Desorption rates are decreased ∼130 times. Rates of desorption of nitrogen from Varian post-acceleration type two and three grid LEED optics screens (P-4 CR 422 phosphor) have been measured. Possible displacement reactions with residual hydrogen, small quantities of which are adsorbed during nitrogen desorption, are discussed. It is concluded that the two processes are independent of each other. Contamination of the single crystal samples with the nitrogen desorbed for the LEED screen is also discussed. Brief reference is made to the adsorption properties of stainless steel 304 with special reference to hydrogen and nitrogen.
Transient and Permanent Effects of Direct Current on Oxygen Transfer across YSZ‐Electrode Interfaces (1997)

The impedance response of a Pt/YSZ (yttria‐stabilized zirconia) interface at 900°C is modified by the passage of direct currents. The initial steady‐state impedance spectra are different from those taken after current interruption. The latter evolve toward a new steady state. The magnitude and equilibration kinetics of this effect are complex functions of the direction and magnitude of the applied current and the history of gas exposure. An equivalent circuit that models the evolving changes in the impedance spectra is proposed. The analysis of the effect may provide an insight into the mechanism of the anodic and cathodic interfacial reactions in a solid oxide fuel cell.
Carboxylation reaction of active methylene compounds by bromomagnesium thioureide complexes as a carbon dioxide carrier. (1985)

1,3-二置換チオ尿素と臭化エチルマグネシウムとから調製したチオウレイドーマグネシウム(II)錯体は,二酸化炭素をカルパマート型として取り込み,取り込んだカルボキシラト基を活性メチレン化合物に移す機能を示した。なかでも,六員環および七員環の環状チオ尿素を用いたカルパマート錯体は温和な条件できわめてすぐれたカルボキシノヒ化能を示し,ケトン類のほか従来カルボキシル化されにくかったエステル類の α-位カルボキシル化に対しても有効であった。なお,モノカルバマート錯体とジカルバマート錯体のカルボキシル化能を比較した結果,後者がはるかにすぐれていることを認めた。
A uniform color space based upon CIECAM97s (2002)

This paper describes a new uniform color space which was derived by modifying CIECAM97s to fit available large color difference datasets including CII-Zhu, OSA, Guan, BFDB- Textile, BFDB-Paint and Munsell. Testing results show that the new color space fit the above experimental datasets better than the current best CIELAB and IPT spaces.
Analog tunable diffractive grating with milliradian resolution (2002)

We have designed and fabricated two versions of analog tunable grating. The extrapolated performance of the device is a wide tunable range between sub-nanometer and sub-micrometer with actuation voltage below 100 Volts by electrostatic actuation or 5 Volts by the piezoelectric version. We have demonstrated the preliminary function of our designs.