gebhart/patrepeval huggingface dataset:
Deficiency in the receptor tyrosine kinase EphB2 attenuates experimentally-induced liver fibrosis in mice (CAM1P.156) (2015)

Abstract Beyond the well-defined role of Eph receptor tyrosine kinases in biological processes, cell migration, adhesion, nothing is known about their implication in liver pathologies. During blood-stage rodent malaria infection, EphB2 mRNA and proteins are upregulated in the liver, a result likely driven by elevated surface expression on macrophages. This is significant for malaria pathogenesis because EphB2-/- mice are protected from malaria-induced liver fibrosis despite having a similar liver parasite burden compared with littermate mice. This protection is correlated with a defect in inflammatory potential of hepatocytes from EphB2-/- mice resulting in a reduction in adhesion molecules, chemokine/chemokine receptors RNA levels and infiltration of leukocytes including Kupffer cells which mediate liver fibrosis during malaria. These observations are recapitulated in the well-established carbon tetrachloride (CCL4) model of liver fibrosis in which EphB2-/- CCL4-treated mice showed a significant reduction of liver fibrosis compared to CCL4-treated littermate mice. EphB2 is predominantly expressed by Kupffer cells and depletion of macrophages abrogates liver EphB2 mRNA and protein increase in malaria infected mice, as well as fibrosis. Altogether these results reinforce the critical role played by EphB2 in promoting liver inflammation and fibrosis. To our knowledge, this work is the first to reveal the potential profibrotic nature of EphB receptor tyrosine kinases in liver injury.
Robust source and mask optimization compensating for mask topography effects in computational lithography (2014)

Mask topography effects need to be taken into consideration for a more accurate solution of source mask optimization (SMO) in advanced optical lithography. However, rigorous 3D mask models generally involve intensive computation and conventional SMO fails to manipulate the mask-induced undesired phase errors that degrade the usable depth of focus (uDOF) and process yield. In this work, an optimization approach incorporating pupil wavefront aberrations into SMO procedure is developed as an alternative to maximize the uDOF. We first design the pupil wavefront function by adding primary and secondary spherical aberrations through the coefficients of the Zernike polynomials, and then apply the conjugate gradient method to achieve an optimal source-mask pair under the condition of aberrated pupil. We also use a statistical model to determine the Zernike coefficients for the phase control and adjustment. Rigorous simulations of thick masks show that this approach provides compensation for mask topography effects by improving the pattern fidelity and increasing uDOF.
An extended friction model to capture load and temperature effects in robot joints (2010)

Friction is the result of complex interactions between contacting surfaces in a nanoscale perspective. Depending on the application, the different models available are more or less suitable. Available static friction models are typically considered to be dependent only on relative speed of interacting surfaces. However, it is known that friction can be affected by other factors than speed. In this paper, static friction in robot joints is studied with respect to changes in joint angle, load torque and temperature. The effects of these variables are analyzed by means of experiments on a standard industrial robot. Justified by their significance, load torque and temperature are included in an extended static friction model. The proposed model is validated in a wide operating range, reducing the average error a factor of 6 when compared to a standard static friction model.
Experimental Pyelonephritis and Hypertension in Rats. (1951)

Unilateral renal diseases resembling hydronephrosis, pyonephrosis, or pyelonephritis were induced in rats by partial ureteral constriction and intravenous injection of E. coli. Arterial hypertension developed when chronic unilateral renal infection was produced.
3D Motion Planning for Image-Based Visual Servoing Tasks (2006)

The execution of positioning tasks by using image-based visual servoing can be easier if a trajectory planning mechanism exists. This paper deals with the problem of generating image plane trajectories (a trajectory is made of a path plus a time law) for tracked points in an eye-in-hand system which has to be positioned with respect to a fixed object. The generated image plane paths must be feasible i.e. they must be compliant with rigid body motion of the camera with respect to the object so as to avoid image jacobian singularities and local minima problems. In addition, the image plane trajectories must generate camera velocity screws which are smooth and within the allowed bounds of the robot. We show that a scaled 3D motion planning algorithm can be devised in order to generate feasible image plane trajectories.
Joanneum Research at TRECVID 2005 - Camera Motion Detection (2005)

Low-level feature extraction (camera motion) Ground truth annotation Manual camera motion annotation has been performed by three groups using a tool provided by Joanneum Research. Some types of content made it difficult or impossible for human annotators to describe the camera motion. The comparison of annotations of the same content done by two groups shows significant differences for some features. We discuss the questions that arise from the results of the manual annotation. Submitted runs Our approach is based on feature tracking, clustering the feature trajectories and selecting the cluster representing dominant motion. The parameters for the decision about the presence of certain types of camera motion from the estimated motion parameter sequence differ between the runs. JRS1: same parameters for pan and tilt, stricter parameters for zoom JRS2: slightly reduced parameters for tilt, reduced parameters for pan and zoom Modification of pan and tilt parameters increased recall by slight loss of precision, the tradeoff between precision and recall was higher for zoom. The decision about the presence of a certain type of camera motion from the estimated motion parameter sequence is most critical point. Cross-evaluation between parameters trained on the development or test data set on the respective other set should be done.
Identification of non‐T non‐B lymphocyte leukaemia patients with favourable prognosis by cell surface glycoprotein analysis (1985)

Leukaemic cells from 15 children with ALL were isolated and their surface glycoproteins labelled with 3H after treatment with neuraminidase and galactose oxidase followed by NaB3H4. The labelled glycoproteins were separated by polyacrylamide slab gel electrophoresis and visualized by fluorography. The cells could be classified into four groups: 1) Surface glycoprotein pattern resembling that of normal T lymphocyte (one patient); 2) Surface glycoprotein pattern showing some T cell characteristics (5 patients); 3) Surface glycoprotein profile with strongly labelled glycoproteins of apparent molecular weight of 120 000 and 130 000, and frequently a glycoprotein with an apparent molecular weight of 210 000 and visible HLA-coded glycoproteins (6 patients); 4) Surface glycoprotein pattern not resembling those of the other groups (3 patients). Follow-up showed that patients in group 3 have remained in their initial remission (5/6) for the complete study period of 5-6 yr, whereas all patients in the other groups have relapsed and/or died. We conclude that the surface glycoprotein analysis enables the identification of patients with non-T non-B ALL with favourable prognosis.
Bacterial exopolysaccharides: biosynthesis pathways and engineering strategies (2015)

Bacteria produce a wide range of exopolysaccharides which are synthesized via different biosynthesis pathways. The genes responsible for synthesis are often clustered within the genome of the respective production organism. A better understanding of the fundamental processes involved in exopolysaccharide biosynthesis and the regulation of these processes is critical toward genetic, metabolic and protein-engineering approaches to produce tailor-made polymers. These designer polymers will exhibit superior material properties targeting medical and industrial applications. Exploiting the natural design space for production of a variety of biopolymer will open up a range of new applications. Here, we summarize the key aspects of microbial exopolysaccharide biosynthesis and highlight the latest engineering approaches toward the production of tailor-made variants with the potential to be used as valuable renewable and high-performance products for medical and industrial applications.
Tratamiento psicofisiológico y médico en la actividad electromiográfica del dolor músculo-esquelético crónico (2015)

El modelo biomedico que explica el origen y tratamiento del dolor cronico ha sido insuficiente para entender y resolver las diferencias individuales en la practica clinica, de ahi que se hayan tenido que considerar diferentes perspectivas teoricas para resolver dicho problema. Tal situacion ha permitido reconocer la importancia de las variables psicofisiologicas en el estudio del dolor cro- nico, asumiendo que la respuesta muscular es uno de los componentes que identifica algunos mecanismos que subyacen al mantenimiento y cronicidad del mismo. El objetivo de esta investigacion fue identificar el efecto diferencial entre el tratamiento medico y el psicofisiologico en la respuesta muscular, tomando como referencia su evaluacion a traves de la electromiografia de su perficie. En un muestreo intencional se incluyo a pacientes con dolor musculo-esqueletico con tratamientos a base de analgesicos no opioides y opioides. Se realizo una evaluacion de la respuesta muscular antes y despues del tratamiento psicofisiologico , consistente en retroalimentacion biolo- gica con electromiografia de superficie, combinada con relajacion muscular. Los resultados muestran diferencias en el nivel de la respuesta muscular dependiendo del tratamiento base y predominio de patrones de asimetria e hipoactividad, que se modificaron en el grupo no opioide despues del tratamiento. La evaluacion y tratamiento de la respuesta muscular resulta pertinente para la poblacion con dolor musculo-esqueletico, la que muestra una relacion entre los cuadros de dolor cronico y las alteraciones de la respuesta muscular.
Physiologic Benefits of Exercise Training in Rehabilitation of Patients With Severe Chronic Obstructive Pulmonary Disease (1997)

We determined the effect on exercise tolerance and physiological exercise responses of rigorous rehabilitative exercise training in chronic obstructive pulmonary disease (COPD). Fifteen men and 10 women (mean age, 68 +/- 6 yr; FEV1, 0.93 +/- 0.27 L) participated in a rehabilitation program with an exercise component of three per week 45-min sessions of cycle ergometer training for 6 wk with exercise intensity kept near maximal targets. Before and after rehabilitation, patients performed an incremental test and a constant work rate (CWR) test at 80% of the peak work rate in the preprogram incremental test. Ventilation (V(E)) and gas exchange were measured breath by breath; arterialized venous blood was analyzed for blood gas determinations and lactate. Rehabilitation yielded an average increase in peak work rate in the incremental test of 36% (p < 0.001), and in the duration of the CWR test of 77% (p < 0.001). In the CWR test, the kinetics of O2 uptake, CO2 output, V(E), and heart rate were markedly slower than those of healthy subjects. After training, mean response time decrease averaged 17, 22, 34, and 29%, respectively (p < 0.02), evidence of a physiologic training effect. Further, for identical CWR tasks, V(E) was 10% lower (p < 0.02) after training, attributable to altered breathing pattern: tidal volume increased by 8% and respiratory rate decreased by 19%, yielding lower V(D) /V(T) (0.46 versus 0.53 p < 0.005). Rigorous exercise training for patients with severe COPD yields more efficient exercise breathing pattern and lower V(E); this is associated with improved exercise tolerance.
Patterning Multiplex Protein Microarrays in a Single Microfluidic Channel (2011)

The development of versatile biofunctional surfaces is a fundamental prerequisite in designing Lab on a Chip (LOC) devices for applications in biosensing interfaces and microbioreactors. The current paper presents a rapid combinatorial approach to create multiplex protein patterns in a single microfluidic channel. This approach consists of coupling microcontact printing with microfluidic patterning, where microcontact printing is employed for silanization using (3-Aminopropyl) triethoxysilane (APTES), followed by microfluidic patterning of multiple antibodies. As a result, the biomolecules of choice could be covalently attached to the microchannel surface, thus creating a durable and highly resistant functional interface. Moreover, the experimental procedure was designed to create a microfluidic platform that maintains functionality at high flow rates. The functionalized surfaces were characterized using X-ray photoelectron spectroscopy (XPS) and monitored with fluorescence microscopy at each step of functionalization. To illustrate the possibility of patterning multiple biomolecules along the cross section of a single microfluidic channel, microarrays of five different primary antibodies were patterned onto a single channel and their functionality was evaluated accordingly through a multiplex immunoassay using secondary antibodies specific to each patterned primary antibody. The resulting patterns remained stable at shear stresses of up to 50 dyn/cm(2). The overall findings suggest that the developed multiplex functional interface on a single channel can successfully lead to highly resistant multiplex functional surfaces for high throughput biological assays.
Resudus, Courants residuels et Courants de Green (1994)

Some explicit formulas are provided in order to solve division problems in commutative algebra or questions related to intersection theory; it is shown here how the ides of analytic continuation of distributions leads to some explicit solution for Green equation for algebraic complete intersections in the projective space.
Experimental and Theoretical Studies on the Movements of Two Bubbles in an Acoustic Standing Wave Field (2013)

When subjected to an ultrasonic standing-wave field, cavitation bubbles smaller than the resonance size migrate to the pressure antinodes. As bubbles approach the antinode, they also move toward each other and either form a cluster or coalesce. In this study, the translational trajectory of two bubbles moving toward each other in an ultrasonic standing wave at 22.4 kHz was observed using an imaging system with a high-speed video camera. This allowed the speed of the approaching bubbles to be measured for much closer distances than those reported in the prior literature. The trajectory of two approaching bubbles was modeled using coupled equations of radial and translational motions, showing similar trends with the experimental results. We also indirectly measured the secondary Bjerknes force by monitoring the acceleration when bubbles are close to each other under different acoustic pressure amplitudes. Bubbles begin to accelerate toward each other as the distance between them gets shorter, and this acceleration increases with increasing acoustic pressure. The current study provides experimental data that validates the theory on the movement of bubbles and forces acting between them in an acoustic field that will be useful in understanding bubble coalescence in an acoustic field.
<i>K</i>-ary clustering with optimal leaf ordering for gene expression data (2003)

We have implemented the above algorithms in C++ on the Linux operating system.
CCN measurements during ACE-2 and their relationship to cloud microphysical properties (2000)

Measurements of cloud condensation nuclei (CCN) concentration at 0.1% supersaturation were made onboard the CIRPAS Pelican over the northeast Atlantic during June and July, 1997, in the vicinity of Tenerife, Spain, as part of the second Aerosol Characterization Experiment (ACE-2). The average CCN concentration (Nccn) in the marine boundary layer for clean air masses was 27±8 and 42±14 cm−3 for cloudy and clear conditions, respectively, consistent with measurements made near the British Isles and close to Tasmania, Australia, during ACE-1 for similar conditions. A local CCN closure experiment was conducted. Measured Nccn is compared with predictions based on aerosol number size distributions and size-resolved chemical composition profiles determined from measurements and the literature. A sublinear relationship between measured and predicted Nccn, Nccn ~ Nc0c.5n1, predicted, was found. This result is consistent with some previous studies, but others have obtained results much closer to the expected 1 : 1 relationship between measured and predicted Nccn. A large variability between measured and predicted Nccn was also observed, leading to the conclusion that, for 95% of the data, the predictions agree with measurements to within a factor of 11. Relationships between belowcloud Nccn and aerosol accumulation mode concentration, and in-cloud cloud droplet number concentration, measured onboard the Pelican and the Me´te´o-France Merlin-IV, respectively, are calculated for periods while the 2 aircraft were in close proximity at approximately the same time. Measured relationships are reproduced by an adiabatic parcel model, and are also consistent with some previous studies. However, the shape of the CCN spectrum, or the aerosol size distribution, and the updraft velocity are predicted by the model to affect these relationships to a significant extent. Therefore, parameterizations of cloud microphysical properties need to include these variables to accurately predict cloud droplet number concentration. A relationship between Nccn and cloud droplet effective diameter is also calculated and shown to be consistent both with the literature and with the parameterization of effective diameter proposed by Martin et al.
zing Technique for L-Band er Amplifier: Effect of edance on Phase Distortion (1996)

E-band power amplifiers operating with high ef- linearity at a single and low supply voltage and for mobile communication systems. This paper presents a new self-linearizing technique for power het- erojunction b~~o~~r transistors (HBT's). Utilizing the nonlinear input co~duc~ance of the device itself and setting the source im~e~ance to the ~e~f-~inear~~ing impedance, the phase distortion ge power (ACP) for ?r/4-shift ur InGaWGaAs power NBT's have result, the HBT exhibited the ACP of -49.2 dBc with a power-added an output power (Pout) of 31 dBm I. INTRODUCTION ETEROJUNCTION bipolar transistors (HBT's) are one of the most promising devices for future mobile commu- nication handsets due to their superior power characteristics even at low-bias voltage with a only single supply, and their higher power handling capability with a smaller chip size (l). In addition, the advantages of InGaP/GaAs HBT's over AlGaAdGaAs HBT's (or low-voltage-operation amplifiers are their smaller knee voltage, due to the smaller collector-emitter offset voltage of less than 0.1 V, and the higher reliability even at a high current density (2). The large current handling capability enables high output power with a low supply voltage at a low cost (3). Moreover, recent digital communication systems require power amplifiers with much higher linearity. The linearity of HBT's, however, has not been studied in detail so far. In particular, the effects of load and source impedance on phase distortion and adjacent channel leakage power (ACP) for a 7rl4-shift QPSK-modulated signal are not fully understood. We discuss the nonlinear effect of device parameters on phase distortion and present a new self-linearizing matching technique utilizing a nonlinear input conductance of the device itself.
Comparison of Engine Calibration Methods Based on Design of Experiments (DoE) (2008)

Due to more stringent emission and durability requirements as well as higher client-felt quality targets, engine technology and strategies used to control them are more and more complex. Car manufacturers need productive and reliable test facility as well as efficient methods and tools to address the challenge of tuning the increasing number of parameters related to these strategies, while reducing in the same development schedule and cost. In this context, IFP is developing methods to perform engine calibration, using a full automated test bench together with advanced mathematical methods for modeling and optimizing, as well as engine and vehicle simulation. The paper describes and compares the different approaches to perform the mapping of an engine on the NEDC area. Results obtained on a Common Rail Diesel engine are also presented to illustrate specific development works.
On a non linear describing function for bio-data. (1976)

The behaviour and handling of a flexible three variable--parameter function is presented, which is suitable for unbiased regression analysis. The function is defined by an intercept, a slope or coefficient and an exponent on the independent variable. Analog and digital problems and solutions are defined. Handling is simple and the program is run without operator intervention. The range of curves include linear, convex, concave and asymptotic forms and can be extended to include sigmoid and parabolic forms. Some application results are presented for different situations.
Screening of Electrocatalysts for Photoelectrochemical Water Oxidation on W-Doped BiVO<sub>4</sub> Photocatalysts by Scanning Electrochemical Microscopy (2011)

Oxygen evolution reaction (OER) electrocatalyst arrays for photoelectrochemical (PEC) water oxidation were fabricated on a metal oxide semiconductor photoelectrode, W-doped BiVO4 (BiVW-O). The electrocatalysts (IrOx, Pt, Co3O4) were prepared on a drop cast film of BiVW-O on fluorine-doped tin oxide (FTO) with a picoliter solution dispenser or photodeposition with light irradiation through an optical fiber. The prepared arrays were tested for PEC water oxidation in 0.2 M sodium phosphate buffer (pH 6.8) using scanning electrochemical microscopy modified with an optical fiber. Pt and Co oxide electrocatalysts showed an enhanced photocurrent for PEC water oxidation, while the other metal oxide catalysts including IrOx, which is known as an excellent water oxidation electrocatalyst on a metal substrate, were not effective. These results were confirmed with bulk film studies. A cobalt phosphate (Co-Pi) electrocatalyst was also tested as a bulk film on BiVW-O and showed improvement for PEC water oxidation. Preliminary characterization (X-ray diffraction and X-ray photoelectron spectroscopy) was also performed for these catalysts. The results indicate that considerations of the semiconductor photocatalyst/electrocatalyst interface are important in determining the effectiveness of materials for the photodriven OER.
Fumagillin: First Effective Therapy for Intestinal Microsporidiosis (2002)

Intestinal microsporidiosis, caused by a spore-forming parasite, Enterocytozoon bieneusi, is characterized by chronic diarrhea and malabsorption in
Sensorless induction motor drive for low cost applications (2003)

The paper presents an experimental comparison of two sensorless control schemes: natural field orientation; and stator flux oriented vector control. The final target of this research is the determination of a suitable scheme for implementation in low cost platforms. In order to consider an industrial application of the sensorless drive in a wide set of fields, the implementation is performed using standard microncontrollers instead of DSPs.