gebhart/patrepeval huggingface dataset:
On the Mechanism of Action of Soybean Lipoxygenase-1. A Stopped-Flow Kinetic Study of the Formation and Conversion of Yellow and Purple Enzyme Species (1977)

1 The conversion of the native iron-containing lipoxygenase-1 into yellow and purple ferric enzyme species by 13-L-hydroperoxy-9-cis, 11-trans-octadecadienoic acid (R-13-OOH) was studied by measuring the absorbance changes at 330 nm and 580 nm, respectively in the stopped-flow apparatus. The pseudo-first-order rate constant for this reaction was found to be 50 s−1 at 4.4°C, either in the presence or absence of O2. This rate constant is lower than the one for R-13-OOH formation from linoleic acid and O2 catalysed by lipoxygenase-1: kcat= 232 s−1 at 4.4°C. 2 The coloured ferric enzymes are formed only in the presence of R-13-OOH; therefore the formation of the coloured ferric enzymes from oxygen, linoleic acid and the native enzyme indicates that the latter is active even before it is converted into the ferric forms. 3 Under anaerobic conditions the yellow and purple enzyme species are rapidly converted into colourless ferrous enzyme species by linoleic acid at a rate which is faster than the formation of the coloured enzymes from R-13-OOH and the native ferrous enzyme. 4 Both the aerobic formation of the coloured ferric enzymes and the anaerobic bleaching of these enzymes occur more slowly when [11-2H2]linoleic acid instead of unlabeled linoleic acid is used. The kinetic deuterium isotope effect as estimated from the rates of aerobic formation of R-13-OOH is approximately 9, whereas in the anaerobic conversion of R-13-OOH and deuterated linoleic acid a value of 1.1 is found. This demonstrates that H abstraction from linoleic acid determines the rate of the aerobic formation but not of the anaerobic conversion of R-13-OOH. 5 The rate constant for the anaerobic conversion of [11-2H2]linoleic acid by the yellow ferric enzyme species, k(2H) = 30 s−1 at 25°C, is close to the rate constant for the overall oxygenation reaction of the deuterated substrate, kcat(2H) = 32 s−1. For unlabelled linoleic acid the rate constants of the anaerobic H-abstraction step and the overall oxygenation reaction were found to be 111 s-1 and 290 s−1, respectively at 25°C. The former rate constant is probably affected by substrate inhibition. 6 Since the native ferrous enzyme is capable of catalysing H abstraction from linoleic acid under aerobic but not under anaerobic conditions, while the yellow ferric enzyme is active either in the absence or presence of O2, it is proposed that O2 reversibly converts the ferrous enzyme species into a ferric state.
SemAttNet: Towards Attention-based Semantic Aware Guided Depth Completion (2022)

Depth completion involves recovering a dense depth map from a sparse map and an RGB image. Recent approaches focus on utilizing color images as guidance images to recover depth at invalid pixels. However, color images alone are not enough to provide the necessary semantic understanding of the scene. Consequently, the depth completion task suffers from sudden illumination changes in RGB images (e.g., shadows). In this paper, we propose a novel three-branch backbone comprising color-guided, semantic-guided, and depth-guided branches. Specifically, the color-guided branch takes a sparse depth map and RGB image as an input and generates color depth which includes color cues (e.g., object boundaries) of the scene. The predicted dense depth map of color-guided branch along-with semantic image and sparse depth map is passed as input to semantic-guided branch for estimating semantic depth. The depth-guided branch takes sparse, color, and semantic depths to generate the dense depth map. The color depth, semantic depth, and guided depth are adaptively fused to produce the output of our proposed three-branch backbone. In addition, we also propose to apply semantic-aware multi-modal attention-based fusion block (SAMMAFB) to fuse features between all three branches. We further use CSPN++ with Atrous convolutions to refine the dense depth map produced by our three-branch backbone. Extensive experiments show that our model achieves state-of-the-art performance in the KITTI depth completion benchmark at the time of submission.
ChemInform Abstract: Catalytic Applications of Early/Late Heterobimetallic Complexes (2012)

Abstract Review: 100 refs.
Patterns of gene expression among murine models of hemorrhagic shock/trauma and sepsis (2015)

Controversy remains whether the leukocyte genomic response to trauma or sepsis is dependent upon the initiating stimulus. Previous work illustrated poor correlations between historical models of murine trauma and sepsis (i.e., trauma-hemorrhage and lipopolysaccharide injection, respectively). The aim of this study is to examine the early genomic response in improved murine models of sepsis [cecal ligation and puncture (CLP)] and trauma [polytrauma (PT)] with and without pneumonia (PT+Pp). Groups of naïve, CLP, PT, and PT+Pp mice were killed at 2 h, 1 or 3 days. Total leukocytes were isolated for genome-wide expression analysis, and genes that were found to differ from control (false discovery rate adjusted P < 0.001) were assessed for fold-change differences. Spearman correlations were also performed. For all time points combined (CLP, PT, PT+Pp), there were 10,426 total genes that were found to significantly differ from naïve controls. At 2 h, the transcriptomic changes between CLP and PT showed a positive correlation (rs) of 0.446 (P < 0.0001) but were less positive thereafter. Correlations were significantly improved when we limited the analysis to common genes whose expression differed by a 1.5 fold-change. Both pathway and upstream analyses revealed the activation of genes known to be associated with pathogen-associated and damage-associated molecular pattern signaling, and early activation patterns of expression were very similar between polytrauma and sepsis at the earliest time points. This study demonstrates that the early leukocyte genomic response to sepsis and trauma are very similar in mice.
Study of the Strain Evolution of Lithium-Ion Cells to Provide a State of Charge and State of Health Indicators (2013)

Abstract not Available.
Salinity, depth and the structure and composition of microbial mats in continental Antarctic lakes (2004)

Summary 1. Lakes and ponds in the Larsemann Hills and Bølingen Islands (East‐Antarctica) were characterised by cyanobacteria‐dominated, benthic microbial mats. A 56‐lake dataset representing the limnological diversity among the more than 150 lakes and ponds in the region was developed to identify and quantify the abiotic conditions associated with cyanobacterial and diatom communities. 2. Limnological diversity in the lakes of the Larsemann Hills and Bølingen Islands was associated primarily with conductivity and conductivity‐related variables (concentrations of major ions and alkalinity), and variation in lake morphometry (depth, catchment and lake area). Low concentrations of pigments, phosphate, nitrogen, DOC and TOC in the water column of most lakes suggest extremely low water column productivity and hence high water clarity, and may thus contribute to the ecological success of benthic microbial mats in this region. 3. Benthic communities consisted of prostrate and sometimes finely laminated mats, flake mats, epilithic and interstitial microbial mats. Mat physiognomy and carotenoid/chlorophyll ratios were strongly related to lake depth, but not to conductivity. 4. Morphological‐taxonomic analyses revealed the presence of 26 diatom morphospecies and 33 cyanobacterial morphotypes. Mats of shallow lakes (interstitial and flake mats) and those of deeper lakes (prostrate mats) were characterised by different dominant cyanobacterial morphotypes. No relationship was found between the distribution of these morphotypes and conductivity. In contrast, variation in diatom species composition was strongly related to both lake depth and conductivity. Shallow ponds were mainly characterised by aerial diatoms (e.g. Diadesmis cf. perpusilla and Hantzschia spp.). In deep lakes, communities were dominated by Psammothidium abundans and Stauroforma inermis . Lakes with conductivities higher than ±1.5 mS cm −1 became susceptible to freezing out of salts and hence pronounced conductivity fluctuations. In these lakes P. abundans and S. inermis were replaced by Amphora veneta . Stomatocysts were important only in shallow freshwater lakes. 5. Ice cover influenced microbial mat structure and composition both directly by physical disturbance in shallow lakes and by influencing light availability in deeper lakes, as well as indirectly by generating conductivity increases and promoting the development of seasonal anoxia. 6. The relationships between diatom species composition and conductivity, and diatom species composition and depth, were statistically significant. Transfer functions based on these data can therefore be used in paleolimnological reconstruction to infer changes in the precipitation–evaporation balance in continental Antarctic lakes.
Randomisierte klinische und radiologische Studie zur Verwendung unterschiedlicher Cageoberflächen bei PLIF-Operationen (2013)

Fragestellung: Zur interkorporellen Fusion bei PLIF-Operationen an der Lendenwirbelsäule werden überwiegend Cages aus PEEK oder Titan benutzt. PEEK bietet den Vorteil des geringeren Elastizitätsmoduls und der besseren Beurteilung knöcherner Fusionen im Röntgen. Titan-Cages dagegen[for full text, please go to the a.m. URL]
Kinetics of DNA duplex formation: A-tracts versus AT-tracts (2014)

The hybridisation and melting of DNA strands are critical steps in many biological processes, but still a deeper understanding of the kinetics is lacking. This is evident from the absence of a clear correlation between rate constants for duplex formation and the number of bases in the strand or the sequence. Here we have probed differences between formation times of A-tracts and AT-tracts by studying complementary model strands mainly comprised of adenine (A) and thymine (T) in stopped-flow (SF) experiments. These strands are relevant as DNA replication begins in regions with a large number of AT base pairs. Interpretation of our results is aided by secondary-structure modelling where both the fractions of the different types of structures and the number of paired bases in the lowest-energy ones are determined. The model is based on calculation of free energies using fixed values for enthalpies and entropies associated with base pairing and a stochastic sampling of the possible structures. We find that the strand length affects rates: the activation energy for the formation of short (16-base pairs) A-tracts is larger than that for longer ones (20-base pairs). Activation energies for the formation of AT-tracts are an order of magnitude larger, and larger for shorter strands than for long ones. These higher activation energies are in agreement with the fact that the fraction of unpaired bases in the constituent AT-tract strands is less than in those which comprise the A-tracts. That the pre-structures of the single strands significantly affect rates is also used to rationalise the results obtained for two pairs of complementary 12-mer strands that have the same bases but in a different sequence; we report here similar activation energies as reported earlier and that these are strongly sequence dependent. Finally, we demonstrate that SF can be coupled with the measurement of circular dichroism (CD) in the vacuum ultraviolet (VUV) region, taking advantage of a synchrotron radiation facility, and that CD is useful to probe geometrical structures in the VUV where the absorption by DNA is high. Though this work is preliminary, our initial results suggest that the strands align prior to the formation of base pairs.
Cyclic voltammetry of mono- and diiron(II)Cyclopentadienyl complexes of thianthrene and related heterocycles (1989)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTCyclic voltammetry of mono- and diiron(II)Cyclopentadienyl complexes of thianthrene and related heterocyclesR. Quin Bligh, Roger Moulton, Allen J. Bard, Adam Piorko, and Ronald G. SutherlandCite this: Inorg. Chem. 1989, 28, 13, 2652–2659Publication Date (Print):June 1, 1989Publication History Published online1 May 2002Published inissue 1 June 1989https://pubs.acs.org/doi/10.1021/ic00312a030https://doi.org/10.1021/ic00312a030research-articleACS PublicationsRequest reuse permissionsArticle Views191Altmetric-Citations12LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Unification and consistency verification of object-oriented analysis models (2002)

The scale of software products is becoming larger as a result of the rapid progress and increasing use of computer systems. It is necessary to develop such large-scale software effectively. object-oriented methodologies have been proposed for the development of such systems. In typical object-oriented methodologies like OMT, a target system is described by several model which mirror different views of it. Though it is desirable to analyze models in this style as it enables us to represent independent aspects of the system in orthogonal manner, it causes a difficulty to maintain consistency among them. In this paper, we show a mechanism to unify analysis models at first. This allows us to deal with the models in concepts shared by them. Next we propose a verification method for checking consistency among them with respect to dataflow. In our method, verification is performed by proving dataflow in an axiomatic system.
A Bregman-Split-Based Compressive Sensing Method for Dynamic Harmonic Estimation (2022)

In order to overcome the spectral interference of the conventional Fourier transform in the International Electrotechnical Commission framework, this paper introduces a Bregman-split-based compressive sensing (BSCS) method to estimate the Taylor-Fourier coefficients in a multi-frequency dynamic phasor model. Considering the DDC component estimation, this paper transforms the phasor problem into a compressive sensing model based on the regularity and sparsity of the dynamic harmonic signal distribution. It then derives an optimized hybrid regularization algorithm with the Bregman split method to reconstruct the dynamic phasor estimation. The accuracy of the model was verified by using the cross entropy to measure the distribution differences of values. Composite tests derived from the dynamic phasor test conditions were then used to verify the potentialities of the BSCS method. Simulation results show that the algorithm can alleviate the impact of dynamic signals on phasor estimation and significantly improve the estimation accuracy, which provides a theoretical basis for P-class phasor measurement units (PMUs).
Application of a Thermodynamically Based Wear Estimation Methodology (2016)

Entropic and energy-based approaches are employed for prediction of wear in dry sliding contact between crossed cylinders. The methodology requires measurement or estimation of the temperature rise in the sliding system. The results of experimental tests reported in literature in conjunction with measured degradation coefficients are used to examine the validity of the proposed methodology. The approach presented is shown to be capable of predicting the wear rate for different tribopairs and under different loading conditions.
Fast SUBMAP decoders for duo-binary turbo-codes (2003)

Since 1993, turbo-codes have been used in several communications systems because of their high performance in error correction over noisy channels. In data frame applications, the main decoding algorithm used in this technology is the suboptimal maximum a posteriori algorithm (SUBMAP). In this paper, we describe several implementations of a SUBMAP decoder for duo-binary codes, the final one being optimized for speed.
Multimodal imaging for nonmelanoma skin cancer margin delineation (2016)

Our results show that the frequency powers of diseased and normal skin tissues differ significantly at 0.47 THz. While TPI has demonstrated contrast between diseased and normal tissue, it can also highlight normal structures. As TPI alone lacks the resolution necessary to distinguish between tissue types morphologically, polarization optical imaging was used for the inspection of the suspicious areas highlighted by TPI. Combined TPI and optical imaging has the potential for quick intraoperative delineation of cancers. Lasers Surg. Med. 49:319-326, 2017. © 2016 Wiley Periodicals, Inc.
Novel roles for the radial spoke head protein 9 in neural and neurosensory cilia (2016)

Cilia are cell surface organelles with key roles in a range of cellular processes, including generation of fluid flow by motile cilia. The axonemes of motile cilia and immotile kinocilia contain 9 peripheral microtubule doublets, a central microtubule pair, and 9 connecting radial spokes. Aberrant radial spoke components RSPH1, 3, 4a and 9 have been linked with primary ciliary dyskinesia (PCD), a disorder characterized by ciliary dysmotility; yet, radial spoke functions remain unclear. Here we show that zebrafish Rsph9 is expressed in cells bearing motile cilia and kinocilia, and localizes to both 9 + 2 and 9 + 0 ciliary axonemes. Using CRISPR mutagenesis, we show that rsph9 is required for motility of presumptive 9 + 2 olfactory cilia and, unexpectedly, 9 + 0 neural cilia. rsph9 is also required for the structural integrity of 9 + 2 and 9 + 0 ciliary axonemes. rsph9 mutant larvae exhibit reduced initiation of the acoustic startle response consistent with hearing impairment, suggesting a novel role for Rsph9 in the kinocilia of the inner ear and/or lateral line neuromasts. These data identify novel roles for Rsph9 in 9 + 0 motile cilia and in sensory kinocilia, and establish a useful zebrafish PCD model.
Analysis of human two-dimension target-aiming movement. (2002)

Objective. To study the problem of human movement characteristics of target-aiming movement. Method. The authors first analyzed the essentials of target-aiming movement on the basis of previous research results, then designed and made a two-dimension experiment of target-aiming movement. Result. After theoretical consideration and analysis of experimental results, a new model of human two-dimension target-aiming movement was proposed, and the coefficients are determined experimentally. Conclusion. The model was verified by experimental data. It was demonstrated that the new model has an excellent suitability, and is applicable for evaluations of target-aiming movements of one and two dimensions.
Capteur interférométrique à atomes froids (2009)

L'invention se rapporte à un capteur interférométrique à atomes froids (1, 1a, 1b) comprenant : une source d'atomes (11); un laser bifréquence (2) apte à générer un premier faisceau laser bifréquence Raman (4, 4a, 4b); un réflecteur (7, 13) agencé pour réfléchir le premier faisceau laser bifréquence Raman de sorte à générer un deuxième faisceau laser bifréquence Raman (12), le premier faisceau laser et le deuxième faisceau laser se propageant dans des directions différentes pour obtenir des franges d'interférence atomiques à partir d'un lancement d'atomes froids obtenus à partir de la source d'atomes; caractérisé en ce que le réflecteur (7, 13) est agencé en outre pour permettre des réflexions multiples du premier faisceau (4) sur des surfaces (7a, 7b, 7c, 7d, 14) du réflecteur de sorte que le premier faisceau et ses réflexions multiples permettent de capturer les atomes issus de la source d'atomes de manière à obtenir les atomes froids.
Effects of MEK5/ERK5 Association on Small Ubiquitin-Related Modification of ERK5: Implications for Diabetic Ventricular Dysfunction After Myocardial Infarction (2008)

Diabetes mellitus (DM) contributes to the exacerbation of left ventricle (LV) dysfunction after myocardial infarction (MI). Activation of ERK5, an atypical mitogen activated protein kinase with transcriptional activity, inhibits apoptosis and LV dysfunction after doxorubicin treatment. SUMOylation has been proposed as a negative regulator of various transcription factors. In the current study, we investigated the role of ERK5-SUMOylation in ERK5 transcriptional activity as well as on DM-mediated exacerbation of LV dysfunction and apoptosis after MI. ERK5 wild-type transcriptional activity was inhibited by Ubc9 (SUMO E2 conjugase) or PIAS1 (E3 ligase), but not in the ERK5-SUMOylation-site defective mutant (K6R/K22R). H2O2 and high glucose, 2 well-known mediators of diabetes, induced ERK5-SUMOylation, and the K6R/K22R mutant, dominant negative form of Ubc9, and siRNA-PIAS1 reversed H2O2-mediated reduction of ERK5 transcriptional activity in cardiomyocytes, indicating the presence of SUMOylation-dependent ERK5 transcriptional repression. Constitutively active form of MEK5alpha (CA-MEK5alpha) inhibited ERK5-SUMOylation independent of kinase activity, but dependent on MEK5-ERK5 association. To investigate the pathological role of ERK5-SUMOylation in DM mice after MI, we used cardiac specific CA-MEK5alpha transgenic mice (CA-MEK5alpha-Tg). MI was induced in streptozotocin (STZ)-injected (DM+MI group) or vehicle-injected mice (MI group) by ligating the left coronary artery. The ERK5-SUMOylation was increased in the DM+MI, but not in the MI group. ERK5-SUMOylation, the exacerbation of LV dysfunction, and the number of TUNEL-positive cells in DM+MI was significantly inhibited in CA-MEK5alpha-Tg mice. Of note, we could not detect any difference of cardiac function after MI in non-diabetic CA-MEK5alpha-Tg and non-transgenic littermate control mice. These results demonstrated that ERK5 transcriptional activity is subject to downregulation by diabetes-dependent SUMOylation, which resulted in a proapoptotic condition contributing to poor post-MI LV function.
A remote computation facility for a heterogeneous environment (1988)

The authors describe THERE (the heterogeneous environment for remote execution), a general-purpose facility designed to simplify the adaptation of nonnetworked, nonheterogeneous applications to a distributed heterogeneous environment. Existing applications made accessible with THERE become heterogeneous network services, and users of those services become heterogeneous network clients. They discuss the problems of remote computation, provide an overview of THERE, and describe the building of THERE applications. They present TPL, THERE programming language, which is tailored toward building execution environments for application programs (on the server sided), defining client interfaces to remote services (on the client side), and providing system-independent communication between client and server interfaces.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>