gebhart/patrepeval huggingface dataset:
Hedgehog-Gli Activators Direct Osteo-chondrogenic Function of Bone Morphogenetic Protein toward Osteogenesis in the Perichondrium (2013)

Specification of progenitors into the osteoblast lineage is an essential event for skeletogenesis. During endochondral ossification, cells in the perichondrium give rise to osteoblast precursors. Hedgehog (Hh) and bone morphogenetic protein (BMP) are suggested to regulate the commitment of these cells. However, properties of perichondrial cells and regulatory mechanisms of the specification process are still poorly understood. Here, we investigated the machineries by combining a novel organ culture system and single-cell expression analysis with mouse genetics and biochemical analyses. In a metatarsal organ culture reproducing bone collar formation, activation of BMP signaling enhanced the bone collar formation cooperatively with Hh input, whereas the signaling induced ectopic chondrocyte formation in the perichondrium without Hh input. Similar phenotypes were also observed in compound mutant mice, where signaling activities of Hh and BMP were genetically manipulated. Single-cell quantitative RT-PCR analyses showed heterogeneity of perichondrial cells in terms of natural characteristics and responsiveness to Hh input. In vitro analyses revealed that Hh signaling suppressed BMP-induced chondrogenic differentiation; Gli1 inhibited the expression of Sox5, Sox6, and Sox9 (SRY box-containing gene 9) as well as transactivation by Sox9. Indeed, ectopic expression of chondrocyte maker genes were observed in the perichondrium of metatarsals in Gli1(-/-) fetuses, and the phenotype was more severe in Gli1(-/-);Gli2(-/-) newborns. These data suggest that Hh-Gli activators alter the function of BMP to specify perichondrial cells into osteoblasts; the timing of Hh input and its target populations are critical for BMP function.
Uniform Heterogeneous Catalysts: The Role of Solid‐State Chemistry in their Development and Design (1988)

Abstract Heterogeneous catalysts are generally assumed to be multiphasic and multicomponent; many of them are, and this is one of the resons why disentangling the factors that govern their mode of action is so difficult. But there is a large class of heterogeneous catalysts where the solid is monophasic and where the activity may be envisaged as being dispersed in a spatially uniform fashion throughout its bulk. This is true both of zeolites and many other microporous catalysts on the one hand, and of certain mixed metal oxides, where the non‐stoiohiometry is inextricably mingled with the catalysis, on the other. By recognizing this broad classification numerous operational advantages follow: the performance of existing catalysts and the design of those yet to be prepared can be placed on a rational footing; moreover, the myriad techniques of solid‐state chemistry and physics, often regarded as inapplicable to the subtle and special problems of surface chemistry, are seen to be of direct relevance as probes for the structure and properties of proven uniform heterogeneous catalysts as well as for the synthesis and development of new ones. This review, which draws analogies with and lessons from the chemistry of enzyme catalysts, focuses largely on the catalytic conversions of hydrocarbons over zeolites, clays, microporous AlPO 4 and a wide range of metal oxides.
Polyacrylonitrile as a gate dielectric material (2007)

A soluble organic material, polyacrylonitrile (PAN), was investigated for its feasibility of gate dielectric applications. The solution-processed PAN was spin coated in air. Results show that leakage current density as low as 0.3nA∕cm2 for 50nm PAN dielectrics could be achieved via process optimization. Functional transistor characteristics were achieved in air for the implementation of PAN in organic thin-film transistors using pentacene or poly(3-hexylthiophene) as a semiconductor material.
DNA vaccines induce partial protection against Leishmania mexicana (2003)

As part of an ongoing effort to develop a vaccine against Leishmania mexicana, we tested DNA vaccines encoding L. mexicana GP63, CPb, and LACK, and L. amazonensis GP46, to evaluate this strategy and define the best antigen candidates. Immune responses and vaccine efficacy were evaluated in BALB/c mice immunized with plasmid DNA encoding the different antigens. All four DNA vaccines induced Leishmania-specific humoral and lympho-proliferative immune responses. However, only mice immunized with VR1012-GP46, VR1012-GP63 and VR1012-CPb were partially protected against infection, as evidenced by reduced lesion size and parasite burden. Interestingly, immunization of mice with a mixture of these three plasmids further increased protection. Thus, plasmids encoding CPb, GP63 and GP46 represent good candidates for further development of DNA vaccines against L. mexicana.
Learning and Predicting Dynamic Behavior with Graphical Multiagent Models (2012)

Factored models of multiagent systems address the complexity of joint behavior by exploiting locality in agent interactions. History-dependent graphical multiagent models (hGMMs) further capture dynamics by conditioning behavior on history. The challenges of modeling real human behavior motivated us to extend the hGMM representation by distinguishing two types of agent interactions. This distinction opens the opportunity for learning dependence networks that are different from given graphical structures representing observed agent interactions. We propose a greedy algorithm for learning hGMMs from time-series data, inducing both graphical structure and parameters. Our empirical study employs human-subject experiment data for a dynamic consensus scenario, where agents on a network attempt to reach a unanimous vote. We show that the learned hGMMs directly expressing joint behavior outperform alternatives in predicting dynamic human voting behavior, and end-game vote results. Analysis of learned graphical structures reveals patterns of action dependence not directly reflected in the original experiment networks.
The circulating soluble TRAIL is a negative marker for inflammation inversely associated with the mortality risk in chronic kidney disease patients (2010)

Circulating sTRAIL is a negative marker for inflammation and is inversely associated with the mortality risk in CKD patients. Further studies are needed to better understand the role of sTRAIL as an inflammatory marker and to confirm its protective role in the CKD population.
Eradication of bone marrow minimal residual disease may prompt early treatment discontinuation in CLL (2014)

The high complete remission rate with first-line combined fludarabine, cyclophosphamide, and rituximab (FCR) begs the question of the value of minimal residual disease (MRD)-negative status as a treatment end point. We report on 237 patients with chronic lymphocytic leukemia who received first-line FCR. MRD was prospectively assessed by 4-color flow cytometry in bone marrow after course 3 and at final response assessment. After course 3 and at final response assessment, 17% and 43% of patients were MRD negative in bone marrow, respectively. A mutated immunoglobulin heavy chain variable gene and trisomy 12 were independently associated with MRD-negative status both after 3 courses of FCR and at final response assessment in multivariable analyses (MVAs). MRD-negative status was independently associated with significantly longer progression-free survival (PFS) and overall survival (OS) in MVA (P = .03 and .02, respectively). This association was confirmed also on landmark MVA at the time of MRD assessment (P = .04 and .05, respectively). MRD-negative patients had comparable PFS and OS, independent of the number of courses received or interim staging. Early MRD eradication may be a desirable goal, prompting consideration of early discontinuation of treatment. This trial was registered at www.clinicaltrials.gov as #NCT00759798.
A Weighted Generalized Maximum Entropy Estimator with a Data-driven Weight (2009)

The method of Generalized Maximum Entropy (GME), proposed in Golan, Judge and Miller (1996), is an information-theoretic approach that is robust to multicolinearity problem. It uses an objective function that is the sum of the entropies for coefficient distributions and disturbance distributions. This method can be generalized to the weighted GME (W-GME), where different weights are assigned to the two entropies in the objective function. We propose a data-driven method to select the weights in the entropy objective function. We use the least squares cross validation to derive the optimal weights. MonteCarlo simulations demonstrate that the proposedW-GME estimator is comparable to and often outperforms the conventional GME estimator, which places equal weights on the entropies of coefficient and disturbance distributions.
Bit Manipulation Accelerator for Communication Systems Digital Signal Processor (2005)

This paper proposes application-specific instructions and their bit manipulation unit (BMU), which efficiently support scrambling, convolutional encoding, puncturing, interleaving, and bit stream multiplexing. The proposed DSP employs the BMU supporting parallel shift and XOR (exclusive-OR) operations and bit insertion/extraction operations on multiple data. The proposed architecture has been modeled by VHDL and synthesized using the SEC 0.18 m standard cell library and the gate count of the BMU is only about 1700 gates. Performance comparisons show that the number of clock cycles can be reduced about for scrambling, convolutional encoding, and interleaving compared with existing DSPs.
A New Electromagnetic Linear Actuator for Quick Latching (2007)

The traditional engine valve train in a combustion engine is the mechanically driven camshaft system that provides one-fixed valve timing. The variable valve timing (VVT), however, is highly required to achieve the significant improvement in fuel economy and lower emission. To provide the VVT, the double solenoid type of actuators with steel-made armature have been developed in past years, but it requires electric power in the most engine operating period, the starting is difficult and the efficiency is low. In this paper, a new linear actuator using permanent magnets is proposed and the dynamic performances are analyzed by finite-element analysis. The results show that the designed colenoid system has a fast transition time between valve events suitable for the practical use in combustion engine valve system
The biological basis of radiotherapy. Second edition (1989)

GAL appeared to be a neuroprotective agent against neuroinflammation caused by DOX by reducing inflammatory markers in the brain.
Accelerated Tests for Evaluating Protein Stability in Frozen Skim Milk (1981)

ABSTRACT Skim milk was diafiltered (DF) to remove about 90% of the lactose, and major salts and vitamins were restored to normal levels. Protein stability at –9°C was monitored using two accelerated test procedures. One involved DF skim milk containing a normal level of carbohydrate and 3.9 times the normal level of calcium, and the other involved DF skim milk containing a normal level of calcium and one‐half the normal level of carbohydrate. Both approaches resulted in casein instability in about 1 wk at ‐9°C. These test procedures should be useful for rapidly assessing the effects of additives or processing on the stability of casein in frozen skim milk.
INTEGRATION OF LEVELING AND INSAR DATA FOR LAND SUBSIDENCE MONITORING (2003)

Leveling surveys have traditionally been used for the geodetic monitoring of land subsidence. Although optical leveling allows for the detection of very small deformations, it is rather expensive and time-consuming. Because of the high temporal and spatial resolution versus relatively low costs, the interferometric use of Synthetic Aperture Radar (InSAR) is in principal a promising supplement for precise deformation monitoring. In this paper an integrated approach is described for the adjustment and testing of height differences from both leveling and InSAR data. This approach is restricted to subsidence due to gas or oil extraction, for which a smooth spatio-temporal subsidence bowl may be assumed and residual subsidence can be stochastically modeled. Test computations show that the velocity, shape and location of an isolated subsidence bowl due to oil extraction can be in good agreement when estimated from either leveling observations only or from combined leveling/InSAR observations. In such an integrated approach the number of leveling observations can be significantly reduced. Nevertheless, leveling data remain necessary, since the availability and quality of InSAR data cannot always be guaranteed yet. 1.
Free-hand interaction with leap motion controller for stroke rehabilitation (2014)

In recent years, the field of Human-Computer Interaction (HCI) has been advanced with many technologies, however, most are limited to healthy users. In this paper, we leveraged the technology of free-hand interaction to rehabilitate patients with stroke. We modified the game of Fruit Ninja to use Leap Motion controller's hand tracking data for stroke patients with arm and hand weakness to practice their finger individuation. In a pilot study, we recruited 14 patients with chronic stroke to play the game using natural interaction. Their Fruit Ninja (FN) scores show high correlation with the standard clinical assessment scores such as Fugl-Meyer (FMA) and Box-and-Blocks Test (BBT) scores. This finding suggests that our free-hand Fruit Ninja's score is a good indicator of the patient's hand function and therefore will be informative if used in their rehabilitation.
The Effect of the α2-Agonist Dexmedetomidine and the N-Methyl-d-Aspartate Antagonist S(+)-Ketamine on the Expression of Apoptosis-Regulating Proteins After Incomplete Cerebral Ischemia and Reperfusion in Rats (2003)

In this study, we investigated whether the neuroprotection previously seen with dexmedetomidine or S(+)-ketamine involves regulation of proapoptotic (Bax and p53) and antiapoptotic (Bcl-2 and Mdm-2) proteins. Rats were anesthetized with isoflurane. After surgical preparation of isoflurane was discontinued, animals were randomly assigned to receive fentanyl and nitrous oxide (N(2)O)/oxygen plus 100 microg/kg of dexmedetomidine intraperitoneally 30 min before ischemia (n = 8), 1 mg x kg(-1) x min(-1) of S(+)-ketamine and oxygen/air (n = 8), or fentanyl and N(2)O/oxygen (n = 8; control group). In all three treatment groups, incomplete cerebral ischemia (30 min) was induced by unilateral carotid artery occlusion and hemorrhagic hypotension to a mean arterial blood pressure of 30-35 mm Hg. Four hours after the start of reperfusion, the brains were removed, and the expression of apoptosis-regulating proteins was determined by using immunofluorescence and Western blot analysis. The results were compared with sham-operated animals (n = 8). After cerebral ischemia/reperfusion, the relative protein concentration of Bax was increased by 110% in control animals compared with the dexmedetomidine- and S(+)-ketamine-treated rats and by 140% compared with the sham-operated animals. In animals treated with dexmedetomidine, the expression of Bcl-2 and Mdm-2 was larger compared with control (68% and 210%, respectively) or sham-operated (110% and 180%, respectively) animals. Therefore, it is possible that the neuroprotective properties of dexmedetomidine and S(+)-ketamine seen in previous studies involve ultra-early modulation of the balance between pro- and antiapoptotic proteins.
Key management for substations: Symmetric keys, public keys or no keys? (2011)

In this paper, we discuss symmetric-key and public-key protocols for key management in electricity transmission and distribution substations-both for communication within substations, and between substations and the network control center. Key management in the electricity network is widely regarded as a challenging problem, not only because of the scale, but also due to the fact that any mechanism must be implemented in resource-constrained environments. NISTIR 7628, the foundation document for the architecture of the US Smart Grid, mentions key management as one of the most important research areas, and the IEC 62351 standards committee has already initiated a new specification dedicated to key management. In this document, we describe different variants of symmetric-key and public-key protocols. Our design is motivated by the need to keep the mechanism simple, robust, usable and still cost effective. It is important to take into account the complexity and the costs involved not just in the initial bootstrapping of trust but also in subsequent key management operations like key update and revocation. It is vital to determine the complexity and the cost of recovery mechanisms-recovery not only from malicious, targeted attacks but also from unintentional failures. We present a detailed threat model, analysing a range of scenarios from physical intrusion through disloyal maintenance personnel to supply-chain attacks, network intrusions and attacks on central systems. We conclude that while using cryptography to secure wide area communication between the substation and the network control center brings noticeable benefits, the benefits of using cryptography within the substation bay are much less obvious; we expect that any such use will be essentially for compliance. The protocols presented in this paper are informed by this threat model and are optimised for robustness, including simplicity, usability and cost.
The effect of a full agonist/antagonist of the D1 receptor on locomotor activity, sensorimotor gating and cognitive function in dizocilpine-treated rats (2009)

Cognitive impairment has been found across all subtypes of schizophrenia. The location and function of dopamine-1 receptors (D1Rs) make them attractive targets for the treatment of cognitive impairment in schizophrenia. Here we investigate the systemic effect of a D1R agonist (A77636) and antagonist (SCH 23390) on hyperlocomotor activity and cognitive deficit induced by an NMDA receptor antagonist (MK-801). Wistar rats (250-300 g) received A77636 (0.1, 0.5 or 1 mg/kg) or SCH 23390 (0.02 or 0.05 mg/kg) with MK-801 (0.1 mg/kg) or saline for 4 d. On day 4 we assessed the prepulse inhibition of the acoustic startle response, locomotor activity in a novel arena and active allothetic place avoidance (spatial memory task) 15 min after the last injection. Systematic administration of the D1R agonist at 0.1 mg/kg ameliorates cognitive dysfunction in our model of schizophrenia, but increases stereotypy and locomotor activity (model of psychotic symptoms) at higher doses (0.5 or 1 mg/kg). Administration of the D1R antagonist had no effect on cognitive function, but decreased hyperlocomotion induced by MK-801. Thus, based on our results, over-activation of D1Rs may exacerbate psychotic symptoms in patients with schizophrenia.
Fluidization of a vertically oscillated shallow granular layer (2007)

Molecular dynamics simulations are used to study fluidization of a vertically vibrated, three-dimensional shallow granular layer. As the container acceleration is increased above g, the granular temperature and root mean square particle displacement increase, gradually fluidizing the layer. For nearly elastic particles, or low shaking frequencies, or small layer depths, the end of the fluidization process is marked by an abrupt increase in the granular temperature and rms particle displacement. The layer is then fully fluidized since macroscopic, fluid-like phenomena such as convection rolls and surface waves are observed. Increasing the total dissipation (by either decreasing the restitution coefficient or increasing the total number of particles) decreases the increase in granular temperature and rms particle displacement at fluidization, and shifts the increase to higher accelerations. Increasing the frequency also decreases the magnitude of the jump, and shifts the change to lower accelerations.
A New Wheelchair Ergometer Designed as an Admittance-Controlled Haptic Robot (2013)

Wheelchair ergometers aim to simulate the propulsion of a wheelchair in a controlled laboratory setup. One drawback of current ergometers is that the simulated wheelchair is always modeled as a simple unidimensional mass and friction, which do not allow a correct simulation of turning maneuvers. In this paper, we present a new design for a wheelchair ergometer based on haptic robotics. This ergometer allows us to simulate any linear or nonlinear model of the wheelchair-user system in real time, including models that implement turning maneuvers. The presented prototype was validated experimentally. The rear wheels of the ergometer match the rear wheels' velocities of the simulated wheelchair with a root-mean-square error of 0.9 %. Therefore, the ergometer's accuracy is mainly bounded by the accuracy of the wheelchair-user model, which means that future improvements of the wheelchair-user model will be directly reflected by the ergometer. The conditions for stability were also evaluated. A minimal simulated mass of 18 kg and a minimal simulated moment of inertia of 1 kg ·m <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> are needed. These requirements are encountered by any wheelchair-user combination.
Extracting Reusable Object-Oriented Legacy Code Segments with Combined Formal Concept Analysis and Slicing Techniques for Service Integration (2006)

Web services, together with service-oriented architectures, are promising integration technology to facilitate legacy system Webification and evolution. However, a service-oriented re-engineering process is still essential for legacy systems to survive in the service-oriented computing environment. In this service-oriented re-engineering process, understanding and reusing object-oriented code turn to be important activities. In this paper, we proposed a comprehensive approach to support the extraction and integration of reusable object-oriented legacy code. In the extraction phase, formal concept analysis, which is a general and flexible technique for recovering structural design information, and inter-procedural program slicing are adopted as main reverse engineering techniques to recover reusable object-oriented code. In the integration phase, service packaging processes are presented in details. Our approach produces extracted components with core legacy object-oriented code function in Web services by wrapping underlying computing models with XML
Multi-layer sidewall WO<inf>X</inf> resistive memory suitable for 3D ReRAM (2012)

An easy to fabricate, low-cost, multi-layer sidewall WO <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">X</sub> ReRAM device is proposed for 3D ReRAM application. A 2-layer (10nm × 100nm) device is fabricated and characterized for the first time. The WOX is grown by conventional RTO process but a special semi-permeable TiN (SP-TiN) is developed to achieve the necessary extrusion-free structure for 3D ReRAM. The multi-layer sidewall WO <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">X</sub> ReRAM devices show characteristics similar to planar devices, but the reasons for layer-to-layer variation and some performance degradation still need to be understood.