gebhart/patrepeval huggingface dataset:
Identification of a receptor‐induced binding site (RIBS) in plasminogen induced by its interaction with cells (2010)

When plasminogen is bound to cells its activation is markedly enhanced compared to the reaction in solution, a key step in regulation of thrombolysis and cell migration. To study the mechanism of cell‐surface plasminogen activation we developed a monoclonal antibody (mAb 51) that reacts with cell‐associated plasminogen in blood in the presence of a high molar excess of soluble plasminogen. Thus, mAb 51 detects receptor‐induced binding sites (RIBS) induced in plasminogen upon its interaction with cells. The objective of our study was to define the RIBS epitope in plasminogen recognized by mAb 51. Plasminogen was denatured, reduced and alkylated and then digested with trypsin. Using western blotting and a specific Mab 51‐based ELISA for plasminogen, we established the concentration of trypsin that resulted in maximal digestion of plasminogen, while still retaining reactivity with mAb 51. The plasminogen digest was applied to a mAb 51 immunoaffinity column. MALDI analysis of the eluate yielded a single peak with a mass of 3,076 m/z. In LC‐MS‐MS, a peak with the same mass was obtained and assigned to a peptide corresponding to K 177‐ Y 154 , spanning a domain linking plasminogen kringles 1 and 2. Our data suggest that this domain becomes accessible when plasminogen interacts with cells. Thus, this conformational change detected by mAb 51 is likely to contribute to the ability of plasminogen to be activated on the cell surface.
Exome sequencing in Crisponi/cold‐induced sweating syndrome–like individuals reveals unpredicted alternative diagnoses (2019)

Crisponi/cold-induced sweating syndrome (CS/CISS) is a rare autosomal recessive disorder characterized by a complex phenotype (hyperthermia and feeding difficulties in the neonatal period, followed by scoliosis and paradoxical sweating induced by cold since early childhood) and a high neonatal lethality. CS/CISS is a genetically heterogeneous disorder caused by mutations in CRLF1 (CS/CISS1), CLCF1 (CS/CISS2) and KLHL7 (CS/CISS-like). Here, a whole exome sequencing approach in individuals with CS/CISS-like phenotype with unknown molecular defect revealed unpredicted alternative diagnoses. This approach identified putative pathogenic variations in NALCN, MAGEL2 and SCN2A. They were already found implicated in the pathogenesis of other syndromes, respectively the congenital contractures of the limbs and face, hypotonia, and developmental delay syndrome, the Schaaf-Yang syndrome, and the early infantile epileptic encephalopathy-11 syndrome. These results suggest a high neonatal phenotypic overlap among these disorders and will be very helpful for clinicians. Genetic analysis of these genes should be considered for those cases with a suspected CS/CISS during neonatal period who were tested as mutation negative in the known CS/CISS genes, because an expedited and corrected diagnosis can improve patient management and can provide a specific clinical follow-up.
Limitations of Shielding Effectiveness Measurements of Planar Materials using a DTEM cell (2021)

This paper addresses issues encountered in a method for measuring the shielding effectiveness of planar materials using a dual transverse electromagnetic cell. The aim of this work is to evaluate the performance of the setup and to point out its strengths and weaknesses. The effect of placement of several materials varying in size and texture is examined. Additionally, techniques for improving the setup and therefore the measurement accuracy and sensitivity are presented. The size of the aperture is investigated by applying two different methods in order to observe its effect on the shielding effectiveness results. Restrictions and limitations of the measurement method are discussed and supported by experimental results.
Recent developments in molecular precursors for atomic layer deposition (2018)

One field of organometallic and materials chemistry that has seen great advancements over the last 20 years is that of atomic layer deposition (ALD), and in particular the development of precursors for the deposition of thin films of highly functional materials. This review focuses on newly developed ALD precursors for metals and metalloid elements (Groups I to XV). New precursors are necessary for a wide range of both established and emerging high-tech applications. A brief overview of recent advances in precursor chemistry is given.
Analysis of Chromatin Organization by Deep Sequencing Technologies (2013)

Micrococcal nuclease (MNase) is an endonuclease that cleaves native DNA at high frequency, but is blocked in chromatin by sites of intimate DNA-protein interaction, including nucleosomal regions. Protection from MNase cleavage has often been used to map transcription factor binding sites and nucleosomal positions on a single-gene basis; however, by combining MNase digestion with high--throughput, paired-end DNA sequencing, it is now possible to simultaneously map DNA-protein interaction regions across the entire genome. Biochemical and bioinformatic protocols are detailed for global mono-nucleosome positioning at ~160 bp spacing coverage, but are applicable to mapping more broadly or for site-specific binding of transcription factors at ~50 bp resolution.
Supplementary Tables 1 and 2 from Tumor Hypoxia Does Not Drive Differentiation of Tumor-Associated Macrophages but Rather Fine-Tunes the M2-like Macrophage Population (2023)

&lt;p&gt;PDf - 36K, List of antibodies (S1); List of gene specific primers (S2).&lt;/p&gt;
Theory of photoemission and inverse photoemission in the presence of strong correlations: Application to high-Tcmaterials (1990)

We consider a single copper oxide plane with infinite Hubbard U on the copper sites and direct oxygen-oxygen and copper-oxygen overlaps as a model for high-${\mathit{T}}_{\mathit{c}}$ materials. Using a slave-boson representation, we find a region of parameter space with a charge-transfer-type metal-insulator transition at zero doping, i.e, half-filling in a mean-field limit. Performing a 1/N expansion we calculate the photoemission and inverse-photoemission spectra near the transition for both the n-type and p-type high-${\mathit{T}}_{\mathit{c}}$ materials using the sudden approximation.
Response of wild oat (Avena fatua) to residual and non-residual herbicides in canola (Brassica napus) in western Canada (2002)

It has been stated that soil residual herbicides, by controlling successive flushes of weeds, increase effective kill (efficacy) over the growing season, and thus impose a higher selection pressure for resistance in weeds than non-residual herbicides. To investigate this issue, the responses of wild oat to increasing rates of residual and non-residual herbicides in canola and wild oat recruitment in the following year were examined in a field study conducted in Saskatchewan, Canada, from 1997 to 2000. The rate-response curves of the wild oat variables indicated that efficacy of the soil residual herbicides, ethalfluralin and triallate, and of the non-residual herbicide, glufosinate, was generally lower than that of imazamox/imazethapyr (residual), sethoxydim, and glyphosate (non-residual). Emergence of wild oat in spring wheat (Triticum aestivum L.) grown in the following year did not differ among herbicides applied in the preceding crop year, nor was there a significant herbicide by rate interaction. The results suggest that the soil residual activity o f these herbicides does not strongly influence selection pressure, estimated by reduction in wild oat seed return in canola. Key words: Brassica napus, Avena fatua, selection pressure, herbicide resistance
Epitope mapping of recombinant Leishmania donovani virulence factor A2 (recLdVFA2) and canine leishmaniasis diagnosis using a derived synthetic bi-epitope (2017)

Our work suggests that synthetic peptide-based ELISA strategy may be useful for the development of a sensitive and highly specific serodiagnosis for CVL or other parasitic diseases.
Antithrombotic effects of synthetic peptides targeting various functional domains of thrombin. (1992)

To determine in vivo functional roles for thrombin's structural domains, we have compared the relative antithrombotic and antihemostatic effects of (i) catalytic-site antithrombin peptide, D-Phe-Pro-Arg; (ii) exosite antithrombin peptide, the C-terminal tyrosine-sulfated dodecapeptide of hirudin; and (iii) bifunctional antithrombin peptide, a 20-mer peptide combining catalytic-site antithrombin peptide and exosite antithrombin peptide with a polyglycyl linker. All three peptides inhibited thrombin-mediated platelet aggregation and fibrin formation in vitro. In vivo thrombus formation was measured in real time as 111In-labeled platelet deposition and 125I-labeled fibrin accumulation on thrombogenic segments incorporated into chronic exteriorized arteriovenous access shunts in baboons. Under low flow conditions, the continuous infusion of peptides reduced thrombus formation onto collagen-coated tubing by half at doses (ID50) and corresponding concentrations (IC50) of 800 nmol per kg per min and 400 nmol/ml for catalytic-site antithrombin peptide, greater than 1250 nmol per kg per min and greater than 1500 mumol/ml for exosite antithrombin peptide, and 50 nmol per kg per min and 25 nmol/ml for bifunctional antithrombin peptide. Under arterial flow conditions, systemically administered bifunctional antithrombin peptide decreased thrombus formation in a dose-dependent manner for segments of collagen-coated tubing or prosthetic vascular graft ID50 and IC50 values of 120 nmol per kg per min and 15 nmol/ml; this dose also produced intermediate inhibition of hemostatic function [bleeding time, 21 +/- 3 min vs. 4.5 +/- 0.5 min (baseline values); P less than 0.001; activated partial thromboplastin time, 285 +/- 13 sec vs. 31 +/- 3 sec (baseline), P less than 0.001]. In contrast, thrombus formation onto segments of endarterectomized aorta was potently decreased by bifunctional antithrombin peptide with an ID50 value of 2.4 nmol per kg per min and an IC50 value of 0.75 nmol/ml, a systemic dose that failed to affect hemostasis. Thus, inhibiting both thrombin's catalytic and exosite domains increases antithrombotic potency by several orders of magnitude over the inhibition of either domain alone, particularly at sites of deep arterial injury.
Evaluating match running performance in elite Australian football: a narrative review (2021)

During Australian football (AF) matches, players are subjected to high running loads, which are intermittent in nature. There is a growing body of research that highlights factors which can both positively and negatively affect this match running performance (e.g., the total distance travelled by a player during match-play). In order to appropriately evaluate these factors, a thorough search of MEDLINE, SportDiscus and Web of Science databases was performed, with a total of 17 manuscripts included within the final evaluation. The main findings from this review highlighted that match running performance is increased amongst those playing in midfield and half back/forward positions, in players with lower playing experience, as well as in matches against higher quality opponents, and in losing quarters. Additionally, a well-design interchange-rotation strategy may be able to positively affect match running performance. A decrease in match running performance was evident amongst more experienced players, during periods of acute fatigue (e.g., following periods of high intensity activity), during matches played in higher temperatures and matches with an increased number of stoppages. However, no effect of ground hardness or size, as well as responses to self-reported wellness questionnaires was found. Other factors such as finals series matches, pre-season training load and elements related to the schedule have been shown to have substantial conflicting results within the literature, increasing the difficulty in making generalisable conclusions to their effect on match running performance. Developing a thorough understanding of these factors which affect match running performance can aid practitioners and coaches to gain a greater understanding of a player's performance as well as inform the development of strategies for its improvement.
In-Flight Operation of the Dawn Ion Propulsion System Through Year One of Cruise to Ceres (2013)

The Dawn mission, part of NASA's Discovery Program, has as its goal the scientific exploration of the two most massive main-belt asteroids, 4 Vesta, and the dwarf planet 1 Ceres. The Dawn spacecraft was launched from the Cape Canaveral Air Force Station on September 27, 2007 on a Delta-II 7925H-9.5 rocket that placed the 1218-kg spacecraft into an Earth-escape trajectory. On-board the spacecraft is an ion propulsion system (IPS) developed at the Jet Propulsion Laboratory which will provide an additional delta- V of approximately 11 km/s for the heliocentric transfers to each body and for all orbit transfers including orbit capture/escape and transition to the various science orbits. Deterministic thrusting to Vesta began in December 2007 and concluded with orbit capture at Vesta in July 2011. The transfer to Vesta included a Mars gravity assist flyby in February 2009 that provided an additional delta-V of 2.6 km/s and was the only postlaunch mission delta-V not provided by IPS. During the mission at Vesta the IPS was used for all orbit transfers which included six different near-polar science mapping orbits. Thrusting for departure from Vesta and the start of cruise to Ceres began on July 25, 2012 with escape from Vesta occurring on September 5, 2012. To date the IPS has been operated for approximately 31,000 hours, consumed approximately 300 kg of xenon, and provided a delta-V of approximately 8.3 km/s. IPS performance characteristics are very close to the expected performance based on analysis and testing performed prelaunch. Thrusting for cruise to Ceres will continue until the spring of 2015, with a planned arrival date at Ceres in April 2015. This paper provides an overview of Dawn's mission objectives and the results of Dawn IPS mission operations from Vesta departure through the first year of cruise to Ceres.
Discovery of (S)-2-Cyclopentyl-N-((1-isopropylpyrrolidin2-yl)-9-methyl-1-oxo-2,9-dihydro-1H-pyrrido[3,4-b]indole-4-carboxamide (VU0453379): A Novel, CNS Penetrant Glucagon-Like Peptide 1 Receptor (GLP-1R) Positive Allosteric Modulator (PAM) (2014)

A duplexed, functional multiaddition high throughput screen and subsequent iterative parallel synthesis effort identified the first highly selective and CNS penetrant glucagon-like peptide-1R (GLP-1R) positive allosteric modulator (PAM). PAM (S)-9b potentiated low-dose exenatide to augment insulin secretion in primary mouse pancreatic islets, and (S)-9b alone was effective in potentiating endogenous GLP-1R to reverse haloperidol-induced catalepsy.
Design and simulation for hybrid LEO communication and navigation constellation (2016)

LEO satellite communication systems and LEO satellite navigation systems are imperative in various fields. Therefore, a method to design hybrid LEO constellation for communication and strengthen the capability of navigation is proposed in this paper, which takes coverage capability and precession into consideration. Firstly, the methods of selection of constellation parameters, such as altitude, inclination, and number of satellites are proposed. Then, the coverage of polar and Walker constellation are analyzed. Finally, two constellations are simulated to validate the proposed methods. The hybrid LEO constellation designed can not only be used for communication and strengthen the capability of navigation, but also has a good compatibility. The results of simulation indicate that the proposed method is feasible and effective.
Microwave Imaging Radiometers by Aperture Synthesis Performance Simulator (Part 2): Instrument Modeling, Calibration, and Image Reconstruction Algorithms (2016)

The Synthetic Aperture Interferometric Radiometer Performance Simulator (SAIRPS) has been a three-year project sponsored by the European Space Agency (ESA) to develop a completely generic end-to-end performance simulator of arbitrary synthetic aperture interferometric radiometers. In a companion manuscript (Part I), the Radiative Transfer Module used to generate synthetic fully polarimetric brightness temperatures from 1 to 100 GHz, including land and ocean covers, as well as the atmosphere, is described in detail. In this manuscript (Part II), the instrument model, the calibration procedure, and the imaging algorithms are described. The instrument model includes the simulation of the array topology in terms of the number of antenna elements, the time-dependent position and orientation, and the arbitrary receivers’ topology which can be modified from a very generic one by connecting and disconnecting subsystems. All the parameters can be, one by one, defined either by mathematical functions or by input data files, including the frequency and temperature dependence. Generic calibration algorithms including an external point source, the flat target transformation, and the two-level correlated noise injection are described. Finally, different image reconstruction algorithms suitable for arbitrary array topologies have also been implemented and tested. Simulation results have been validated and selected results are presented.
Prevention and Therapeutic Effects and Mechanisms of Tanshinone IIA Sodium Sulfonate on Acute Liver Injury Mice Model (2016)

Tanshinone IIA sodium sulfonate (TSS) is a water-soluble derivative of tanshinone IIA, which is the main pharmacologically active component of Salvia miltiorrhiza. This study aimed to verify the preventive and therapeutic effects of TSS and its combined therapeutic effects with magnesium isoglycyrrhizinate (MI) in D-galactosamine- (D-Gal-) induced acute liver injury (ALI) in mice. The potential regulatory mechanisms of TSS on ALI were also examined. Our results may provide a basis for the development of novel therapeutics for ALI.
Design of a bending vibrations hybrid type ultrasonic motor with a bonded-type structure (2015)

A bending vibrations hybrid type ultrasonic motor with a bonded-type structure is proposed and designed in this work. Four pieces of PZT plates are bonded on a metal beam to form the proposed motor. In this design, elliptical movements of the driving feet, the significant motion to realize the actuating of a rotor, is produced by the superimposing of two first bending vibrations orthogonal in space. The structural parameters' sensitivities of the bending resonance frequency and the electromechanical coupling factor are calculated and discussed by modal analysis and harmonic analysis respectively. The most sensitive parameters are obtained. Then, the vibration characteristic of the proposed motor is investigated by transient analysis; another ultrasonic motor with the same length but no horns is also calculated to give a comparison. Different with previous motor, the proposed one drive the runner by two transversal displacements of the driving tip; this new actuating mode has merits of higher resonance frequency, larger vibration amplitude and velocity, better movement trajectory uniformity and shorter response time. The study results can guide the fabrication of linear or rotary ultrasonic motor with small size.
Inorganic–Organic Hybrid Materials Based on Amino Acid Modified Hydrotalcites Used as UV‐Absorber Fillers for Polybutylene Succinate (2012)

Abstract Polybutylene succinate (PBS)‐functionalized nanocomposites with amino acid tyrosine (TYR)‐ and tryptophan (TRY)‐hybrid‐interleaved layered double hydroxide (LDH) materials exhibit interesting anti‐UV properties and rheological properties. Embedding amino acid into the layered double hydroxide container preserves the UV shielding property of the pristine organic molecule. When employed in an aliphatic polymer such as PBS, chain scission occurs during photoageing and accelerates the degradation of the raw material. However the embedded inorganic amino acid melt blended with PBS prevents such degradative phenomenon. An investigation of their structure–property relationship (i.e., nonmiscibility and expanded PBS nanocomposite structures) was conducted. The nonmiscible structure observed for LDH‐TYR was found to be associated with a chain‐extender behaviour, whereas the interleaved structure of PBS‐LDH‐TRY yielded a liquid–gel transition. Both PBS nanocomposite structures were found to be stable under agressive UV conditions, whereas amino acid free of an LDH container resulted in a deleterious effect when dispersed in PBS, largely promoting PBS chain scission. Hence amino acid organically modified hydrotalcites appear to hold promise for use as UV absorbers when dispersed into other aliphatic biodegradable polymers.
Structure of sulfonosine (1990)

C 10 H 14 N 6 O 6 S cristallise dans P2 1 avec a=6,2899, b=13,276, c=8,4161 A, β=105,686 o , Z=2; affinement jusqu'a R=0,0386. La derniere liaison C−OH du ribofuranose gauche-gauche, associee a un angle de torsion glycosidique de 34,0 o , resulte en une liaison hydrogene intramoleculaire avec l'un des azotes de la purine. Le cycle purine est pratiquement plan. L'un des atomes d'oxygene, cis par rapport a l'imidazole. Dans le cristal, il n'y a pas d'empilement des bases. Les groupes ribose et sulfonamide sont pris en sandwich entre les heterocycles
Portable smartphone-controlled microscopy for the automated diagnosis of helminth infections from Kato-Katz fecal stains (2023)

Helminth infections affect around 1.5 billion people worldwide but have historically been neglected by major healthcare initiatives. Manual microscopic examination to identify parasite eggs in urine or faeces remains the gold-standard diagnostic, but the technique is time consuming and requires bright-field microscopes which can be expensive to transport and maintain. We present a low-cost device which uses deep learning to automate helminth diagnosis from Kato-Katz (KK) faecal smears. The device comprises a 3D-printed microscope, which connects wirelessly to an Android smartphone. Egg detection is accomplished with a ResNet-50 object detection algorithm, trained on a dataset of over 6,000 images of eggs from six common helminth species. The model is exported to TensorFlow Lite and hosted locally in the app, enabling edge computing and removing the need for external internet connection.