gebhart/patrepeval huggingface dataset:
Application of structural symmetries in the plane-wave-based transfer-matrix method for three-dimensional photonic crystal waveguides (2003)

The plane-wave-based transfer-matrix method (TMM) exhibits a peculiar advantage of being capable of solving eigenmodes involved in an infinite photonic crystal and electromagnetic (EM) wave propagation in finite photonic crystal slabs or even semi-infinite photonic crystal structures within the same theoretical framework. In addition, this theoretical approach can achieve much improved numerical convergency in solution of photonic band structures than the conventional plane-wave expansion method. In this paper we employ this TMM in combination with a supercell technique to handle two important kinds of three-dimensional (3D) photonic crystal waveguide structures. The first one is waveguides created in a 3D layer-by-layer photonic crystal that possesses a complete band gap, the other more popular one is waveguides built in a two-dimensional photonic crystal slab. These waveguides usually have mirror-reflection symmetries in one or two directions perpendicular to their axis. We have taken advantage of these structural symmetries to reduce the numerical burden of the TMM solution of the guided modes. The solution to the EM problems under these mirror-reflection symmetries in both the real space and the plane-wave space is discussed in a systematic way and in great detail. Both the periodic boundary condition and the absorbing boundary condition are employed to investigate structures with or without complete 3D optical confinement. The fact that the EM field components investigated in the TMM are collinear with the symmetric axes of the waveguide brings great convenience and clarity in exploring the eigenmode symmetry in both the real space and the plane-wave space. The classification of symmetry involved in the guided modes can help people to better understand the coupling of the photonic crystal waveguides with external channels such as dielectric slab or wire waveguides.
Deep Affinity Network for Multiple Object Tracking (2018)

Multiple Object Tracking (MOT) plays an important role in solving many fundamental problems in video analysis in computer vision. Most MOT methods employ two steps: Object Detection and Data Association. The first step detects objects of interest in every frame of a video, and the second establishes correspondence between the detected objects in different frames to obtain their tracks. Object detection has made tremendous progress in the last few years due to deep learning. However, data association for tracking still relies on hand crafted constraints such as appearance, motion, spatial proximity, grouping etc. to compute affinities between the objects in different frames. In this paper, we harness the power of deep learning for data association in tracking by jointly modelling object appearances and their affinities between different frames in an end-to-end fashion. The proposed Deep Affinity Network (DAN) learns compact; yet comprehensive features of pre-detected objects at several levels of abstraction, and performs exhaustive pairing permutations of those features in any two frames to infer object affinities. DAN also accounts for multiple objects appearing and disappearing between video frames. We exploit the resulting efficient affinity computations to associate objects in the current frame deep into the previous frames for reliable on-line tracking. Our technique is evaluated on popular multiple object tracking challenges MOT15, MOT17 and UA-DETRAC. Comprehensive benchmarking under twelve evaluation metrics demonstrates that our approach is among the best performing techniques on the leader board for these challenges. The open source implementation of our work is available at https://github.com/shijieS/SST.git.
Early Induction of<i>CDKN1A</i>(<i>p21</i>) and<i>GADD45</i>mRNA by a Low Dose of Ionizing Radiation is due to Their Dose-Dependent Post-transcriptional Regulation (2002)

Previous studies have shown that induction of some genes by low-dose radiation has a different dependence on the time after irradiation than induction by high doses. To examine the mechanisms underlying this phenomenon, we investigated the changes in the time course of the rates of transcription of genes in cells of the human myeloblastic leukemia cell line ML-1 by a nuclear run-on assay. It is possible that the more rapid induction of the mRNA of the CDKN1A and GADD45 genes after exposure to 50 cGy of X rays than after 20 Gy is due to a lower level of stabilization of the mRNA of these genes after 50 cGy. In addition, our results show that 50 cGy of X rays increases the transcription rates of the CDKN1A and GADD45 genes, with a maximum induction at 0.5 to 1 h after irradiation, much earlier than the maximum accumulation of stabilized TP53 protein. We suggest the involvement of BRCA1 protein in the early induction of transcription of these two genes.
A Mobile Intelligent Interruption Management System (2010)

Abstract: Mobile phones have become the most hated device that people cannot live without. For its primary usage as a communication device, it has surpassed any other medium. But it comes with a high price, interruption, anywhere anytime. These unwanted interruptions cause loss of productivity and also mostly not beneficial to the immediate task at hand, and moving them few minutes into the future can increase productivity. Considering receiver’s unavailability, it is possible to manage cell phone disruptions using advanced features like sensing capability, ubiquitous computing and context aware systems. This paper proposes the architecture of a system named Mobile Intelligent Interruptions Management (MIIM), created for the automated administration of personal unavailability with regard to cell phones. We provide the problem description of interruption and its impact. Next, we state the desirable characteristics and architecture of the MIIM system. We also provide a case study implementation of MIIM system on the Android platform. Simulation and evaluation results show that its computational volumes are low enough for a mobile device. The analysis of the system also successfully satisfies all the characteristics requirements.
Peptidylarginine Deiminases as Mediators of Microvesicular Release - Novel Therapeutic Interventions (2017)

Extracellular vesicle (EV) release, which occurs in most eukaryotic cells, has recently been associated with peptidylarginine deiminase (PAD)-driven protein deimination. Evidence points to the involvement of deiminated cytoskeletal proteins and changes in histone deimination. Both PADs and EVs are associated with various pathologies including cancers, autoimmune and neurodegenerative diseases. The elevated PAD expression observed in cancers may contribute to increase in EV shedding observed from cancer cells, contributing to cancer progression. Similarly, elevated PAD expression observed in neurodegenerative diseases may cause increased EV shedding and spread of neurodegenerative EV cargo, contributing to disease progression and pathologies. Pharmacological inhibition of PAD-mediated deimination using pan-PAD inhibitor Cl-amidine, reduced cellular EV release in prostate cancer cells, rendering them significantly more susceptible to chemotherapeutic drugs. Studies on models of central nervous system damage have demonstrated critical functional roles for PADs and neuroprotective effects using PAD inhibitors in vivo, while human neurodegenerative iPSC in vitro models showed evidence of increased protein deimination. Besides using refined PAD inhibitors to selectively manipulate EV biogenesis for novel combination therapies in cancer treatment, we also speculate how EV biogenesis could be targeted via the newly identified PAD-pathway to ameliorate neurodegenerative disease progression.
Dysfunctional intracellular calcium homoeostasis: a central cause of neurodegeneration in Alzheimer's disease (2001)

The clinical symptoms of all forms of Alzheimer's disease (AD) result from a slowly progressive neurodegeneration that is associated with the excessive deposition of beta-amyloid (A beta) in plaques and in the cerebrovasculature, and the formation of intraneuronal neurofibrillary tangles, which are composed primarily of abnormally hyperphosphorylated tau protein. The sequence of cellular events that cause this pathology and neurodegeneration is unknown. It is, however, most probably linked to neuronal signal transduction systems that become misregulated in the brains of certain individuals, causing excessive A beta to be formed and/or deposited, tau to become aggregated and hyperphosphorylated and neurons to degenerate. We hypothesize that a progressive alteration in the ability of neurons to regulate intracellular calcium, particularly at the level of the endoplasmic reticulum, is a crucial signal transduction event that is linked strongly to the initiation and development of AD pathology. In this chapter we will discuss the key findings that lend support to this hypothesis.
What Are the Top 10 Research Questions in the Treatment of Inflammatory Bowel Disease? A Priority Setting Partnership with the James Lind Alliance (2016)

A partnership involving multidisciplinary clinicians, patients and organisations supporting patients has identified the top 10 research priorities in the treatment of patients with inflammatory bowel disease.
Refrigeration Control with Varying Condensing Pressures (1992)

Allowing the condensing pressure of direc;t expansion refrigeration equipment to float (vary freely) with ambient temperature can lead to substantial energy savings.This paper presems experimental results of the perfonnance of thermostatic expansion valves (TEV) under a range of condensing pressures.system loads and inlet quality.A theory is developed to exp!aTn the performance of the valves under these conditions.It is concluded that condensing pressures can be allowed to vary freely across a wide range of conditions provided that the TEV is correctly siz.ed and that an envelope of safe operating conditions is defined to ensure satisfactory perform:.tnceat all times.
Cloak Without Dagger: Dr Thomas Hussey, 1746–1803 (1988)

CHARLES BUTLER, who knew Thomas Hussey well, wrote of him that he ‘would long live the memory of his friends:—a man of great genius, of enlightened piety; with manners at once imposing and elegant; and enchanting conversation. He did not come into contact with many whom he did not subdue: the highest rank often sunk before him. One notes, straightaway, the language of avoirdupois: the man ‘imposes’, he ‘subdues’, and beneath him others ‘sink’. Thomas Hussey had weight. That is evident in the portrait which hangs today in the building that rests on his foundations, Spanish Place: it conveys the force of character of one who was, in the words of another acquaintance, ‘by talents, nerves, ambition and intrepidity fitted for the boldest enterprise’.
ChemInform Abstract: Reductive Biotransformation of Carbonyl Compounds. Application of Fungus, Geotrichum sp. G38 in Organic Synthesis. (1993)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Mechanisms and Stereochemistry of Heterolytic Fragmentation (1969)

Abstract Heterolytic fragmentation can proceed by several mechanisms. A study of the solvolysis of γ‐aminoalcohol derivatives NCCCX, where X equals halogen or OSO 2 R, shows that fragmentation may occur by a one‐step mechanism or by several multi‐step mechanisms depending on structural, electronic, and steric factors. The one‐step synchronous mechanism has rigorous stereoelectronic requirements. It is associated with an increased reaction rate as evidenced by the “frangomeric” effect. Ketoxime derivatives RR′CNX may undergo Beckmann fragmentation by the synchronous mechanism or by prior rearrangement depending on their α‐substituents. Fragmentation is frequently accompanied by conventional substitution, elimination, and rearrangement reactions. Under such circumstances knowledge of all possible mechanisms of a given substrate is essential to bring about a desired transformation.
Water Use (2003)

Water managers and planners are slowly beginning to change their perspective and perceptions about how best to meet human needs for water; they are shifting from a focus on building supply infrastructure to improving their understanding of how water is used and how those uses can best be met. This review discusses definitions of water use, explores the history of water use around the world and in characteristic regions, identifies problems with collecting and analyzing water data, and addresses the question of improving water-use efficiency and productivity in different regions and economic sectors. There is growing interest on the part of water managers around the world to implement these approaches to lessen pressures on increasingly scarce water resources, reduce the adverse ecological effects of human withdrawals of water, and improve long-term sustainable water use.
Decomposition of Prediction Error (1985)

Abstract The problem considered is that of predicting the value of an unobservable random variable w from the value of an observable random vector y. This problem is considered under each of four states of knowledge about the joint distribution of w and y, ranging from complete knowledge to "no" knowledge. A (point) predictor or predictors are presented for each case. Prediction error is decomposed so that each component reflects an absence of information. Under certain conditions, these components are uncorrelated and have zero means. An exact or approximate expression is given for the variance of each component. Key Words: Best linear unbiased predictionMixed linear modelsEmpirical Bayes estimationJames—Stein estimatorVariance components
Dinuclear complexes of a pseudocalixarene macrocycle: structural consequences of intramolecular hydrogen bonding (2005)

A series of dinuclear complexes of a pseudocalixarene macrocycle H6L containing two 2,2'-methylenediphenol groups have been synthesised and structurally characterised. Using divalent metal ions, complexes containing a common hyperbolic paraboloid (saddle) M2(H4L)2+ core are formed. The structure is controlled by two strong O-H-O interactions resulting from metal ion-promoted monodeprotonation of the methylenediphenol units. The metal ions are located in a cleft within which neutral or anionic guests can bind. Use of trivalent metal ions leads to complete deprotonation of the phenol groups and loss of the saddle conformation.
Steady state model of a micro loop heat pipe (2003)

Loop Heat Pipes (LHP) have been demonstrated to be able to passively transport orders of magnitude more heat than conventional heat pipes, and offer other functional and performance advantages that have popularized its use in the aerospace industry. Developments at the NASA Glenn Research Center and the University of Cincinnati have produced micro-machining techniques for silicon that will be used to manufacture microchip scale LHP (/spl mu/LHP) with application potential for cooling of individual chips as an integrated package. To aid in its design and to ascertain its performance potential, a proven steady state analytical model developed by TTH Research for a large ammonia LHP was modified and further developed for microchip scale analysis with water working fluid. Without accounting for heat spreading efficiency across the evaporator wick surface, results show that the loop could accommodate more than 600 W/cm/sup 2/ of heat load. However, its operating (fluid) temperature was limited to >90/spl deg/C, even at moderate heat loads, regardless of condenser sink temperature, which could have adverse implications in terms of life and reliability of the component being cooled.
Long‐term suppression of <scp>EAE</scp> relapses by pharmacological impairment of epitope spreading (2013)

Our data emphasize the therapeutic potential of PARP-1 inhibitors in the treatment of relapsing-remitting MS and additional ES-driven autoimmune disorders.
Characterization of a germ-line proliferation mutation in <i>C. elegans</i> (1992)

The C. elegans germ line is generated by extensive proliferation of the two germ-line progenitor cells present in newly hatched larvae. We describe genetic and phenotypic characterization of glp-4, a locus whose product is required for normal proliferation of the germ line. glp-4(bn2ts) mutant worms raised at the restrictive temperature contain approximately 12 germ nuclei, in contrast to the 700-1000 present in wild-type adults. The few germ cells present in sterile glp-4 adults appear to be arrested at prophase of the mitotic cell cycle. This cell-cycle disruption prevents the germ cells from entering meiosis and differentiating into gametes. Shifting sterile glp-4 worms to the permissive temperature enables their germ cells to undergo extensive proliferation and form gametes, demonstrating that the bn2-induced cell-cycle arrest is reversible and that proliferation and differentiation of germ cells can be uncoupled from development of the somatic gonad. The glp-4(bn2ts) mutation can be used to generate large populations of worms that are severely depleted in germ cells, facilitating determination of whether any gene of interest is expressed in the germ line or soma or both.
ReaxFF Reactive Force Field for Molecular Dynamics Simulations of Hydrocarbon Oxidation (2008)

To investigate the initial chemical events associated with high-temperature gas-phase oxidation of hydrocarbons, we have expanded the ReaxFF reactive force field training set to include additional transition states and chemical reactivity of systems relevant to these reactions and optimized the force field parameters against a quantum mechanics (QM)-based training set. To validate the ReaxFF potential obtained after parameter optimization, we performed a range of NVT-MD simulations on various hydrocarbon/O2 systems. From simulations on methane/O2, o-xylene/O2, propene/O2, and benzene/O2 mixtures, we found that ReaxFF obtains the correct reactivity trend (propene > o-xylene > methane > benzene), following the trend in the C-H bond strength in these hydrocarbons. We also tracked in detail the reactions during a complete oxidation of isolated methane, propene, and o-xylene to a CO/CO2/H2O mixture and found that the pathways predicted by ReaxFF are in agreement with chemical intuition and our QM results. We observed that the predominant initiation reaction for oxidation of methane, propene, and o-xylene under fuel lean conditions involved hydrogen abstraction of the methyl hydrogen by molecular oxygen forming hydroperoxyl and hydrocarbon radical species. While under fuel rich conditions with a mixture of these hydrocarbons, we observed different chemistry compared with the oxidation of isolated hydrocarbons including a change in the type of initiation reactions, which involved both decomposition of the hydrocarbon or attack by other radicals in the system. Since ReaxFF is capable of simulating complicated reaction pathways without any preconditioning, we believe that atomistic modeling with ReaxFF provides a useful method for determining the initial events of oxidation of hydrocarbons under extreme conditions and can enhance existing combustion models.
Versatile Fluorescent Staining of Fungi in Clinical Specimens by Using the Optical Brightener Blankophor (1999)

Fluorescent staining of fungi in clinical specimens with the optical brightener Blankophor can be performed concomitantly with maceration of surrounding tissue and may be accelerated by heating. The procedure is suitable for disclosing fungi in gram-stained microscopical mounts and can be used for screening of tissue sections prior to immunofluorescence.
Differential Chemoprotection against Acetaminophen-Induced Hepatotoxicity by Latentiated <scp>l</scp>-Cysteines (1998)

Novel thiazolidine prodrugs were prepared by the condensation of L-cysteine with aldose disaccharides. Using a disaccharide in prodrug construction allows for a terminal cyclic sugar moiety to be present on the prodrug, which may allow the delivery of the agent to specific receptors, such as the asialoglycoprotein receptor (ASGPR) of hepatocytes, that require specific structural motifs for recognition. Three L-cysteine prodrugs were synthesized with a pendant cyclic galactose moiety; two related glucose-bearing prodrugs were synthesized for comparison. The prodrugs were designed to release L-cysteine, which is then available to support glutathione (GSH) biosynthesis and provide cytoprotection against a variety of toxic insults. Protection studies in Swiss-Webster mice used acetaminophen (575 mg/kg), a well-documented hepatotoxin which depletes GSH at overdose. Three prodrugs performed exceptionally well against acetaminophen-induced hepatotoxicity, as measured by increased survival and improved histological profiles of liver tissue after 48 h. In further experimentation, two of the disaccharide-based prodrugs, prepared from alpha- and beta-lactose, were compared with the monosaccharide-based compound prepared from ribose. Co-administration of the selected prodrugs with a 400 mg/kg dose of acetaminophen to Swiss-Webster mice prevented the short-term depletion in hepatic GSH and also reduced hepatotoxicity as determined by histological damage and serum levels of alanine aminotransferase. A single dose of the prodrugs alone had no effect on hepatic drug metabolizing enzymes [glutathione S-transferase (GST), NAD(P)H:quinone oxidoreductase (QOR), UDP-glucuronosyltransferase (UGT), and cytochrome P450], but, concordant with the reduction of hepatotoxicity, the latentiated forms prevented the significant elevation in QOR activity and mRNA and GST mRNA elicited by acetaminophen itself. GST activity, UGT activity and mRNA, and cytochrome P450 concentration were all unaffected by acetaminophen or the prodrugs. These studies identified novel L-cysteine prodrugs with potentially useful hepatoprotective activity. However, no structure-activity relationships were obvious. In addition, the occurrence of targeted delivery to hepatocytes remains ambiguous.
Surface Reduction of Poly(aryl ether ether ketone) Film:  UV Spectrophotometric, <sup>3</sup>H Radiochemical, and X-ray Photoelectron Spectroscopic Assays of the Hydroxyl Functions (1997)

The surface reduction of amorphous poly(aryl ether ether ketone) (PEEK) film was successfully achieved by wet chemistry using a solution of NaBH4 in DMSO at 120 °C for 3 h. The resulting PEEK-OH film was fully characterized by MIR, UV−visible, and 1H NMR spectroscopies; all the data were consistent with those of the references, 4-(4-methoxyphenoxy)benzhydrol and bulk-reduced PEEK (“PEEK-OH”). The surface of PEEK-OH film was analyzed by X-ray photoelectron spectroscopy (XPS). From the fine structures of the C1s and O1s peaks, we could determine a ratio of reduction reaching 75−85% of the monomer units contained in the 10 outermost atomic layers. The surface reactivity of the hydroxyl groups was assayed by derivatization with [3H]acetic anhydride followed by liquid scintillation counting (LSC) of the sample-associated radioactivity. The PEEK-OH film was reacted with p-nitrophenyl chloroformate to furnish an activated surface (PEEK-OCO2PNP), the basic hydrolysis of which allowed the indirect spectrophotometric assay of the reactive OH groups. The PEEK-OCO2PNP film was further used to covalently fix amine derivatives via a carbamate linkage. Using [3H]lysine and trifluoroethylamine, we were able to assay the surface reactivity by LSC and XPS respectively. The ratios of surface derivatization were within 5−30%. The PEEK-OH film was used as substrate for the cultivation of CaCo2 epithelial cells; the presence of surface hydroxyl functions moderately improves the polymer biocompatibility.