gebhart/patrepeval huggingface dataset:
Morin Hydrate Sensitizes Hepatoma Cells and Xenograft Tumor towards Cisplatin by Downregulating PARP-1-HMGB1 Mediated Autophagy (2020)

The cross-talk between apoptosis and autophagy influences anticancer drug sensitivity and cellular death in various cancer cell lines. However, the fundamental mechanisms behind this phenomenon are still unidentified. We demonstrated anti-cancerous role of cisplatin (CP) and morin hydrate (Mh) as an individual and/or in combination (CP-Mh) in hepatoma cells and tumor model. Exposure of CP resulted in the production of intracellular reactive oxygen species (ROS)-mediated cellular vacuolization, expansion of mitochondria membrane and activation of endoplasmic reticulum (ER)-stress. Consequently, Cyt <i>c</i> translocation led to the increase of Bax/Bcl-2 ratio, which simultaneously triggered caspase-mediated cellular apoptosis. In addition, CP-induced PARP-1 activation led to ADP-ribosylation of HMGB1, which consequently developed autophagy as evident by the LC3I/II ratio. Chemically-induced inhibition of autophagy marked by increased cell death signified a protective role of autophagy against CP treatment. CP-Mh abrogates the PARP-1 expression and significantly reduced HMGB1-cytoplasmic translocation with subsequent inhibition of the HMGB1-Beclin1 complex formation. In the absence of PARP-1, a reduced HMGB1 mediated autophagy was observed followed by induced caspase-dependent apoptosis. To confirm the role of PARP-1-HMGB1 signaling in autophagy, we used the PARP-1 inhibitor, 4-amino-1,8-naphthalimide (ANI), HMGB1 inhibitor, ethyl pyruvate (EP), autophagy inhibitors, 3-methyl adenine (3-MA) and bafilomycin (baf) and small interfering RNAs (siRNA) to target Atg5 in combination of CP and Mh. Exposure to these inhibitors enhanced the sensitivity of HepG2 cells to CP. Collectively, our findings indicate that CP-Mh in combination served as a prominent regulator of autophagy and significant inducer of apoptosis that maintains a homeostatic balance towards HepG2 cells and the subcutaneous tumor model.
Dual-Arm Master-Slave Surgical Robot System with Montion Cancelation (2002)

心拍動下の心臓外科手術のために, 高速度カメラを用いた臓器運動補償外科手術ロボットシステムを開発している。6自由度を有する双腕小型マスタスレーブロボットにより, 内視鏡下での心拍動下外科手術を可能とする手術ロボットシステムを開発した。光学的位置計測装置によりシステムを管理し, 小型マスタスレーブロボットは, 手術器具先端の位置を決定する能動トロカールと, 手術器具先端の姿勢を決定する能動鉗子からなる手術室空間を占有しない小型高剛性ロボットとした。
Performance prediction of a small-sized herringbone-grooved bearing with ferrofluid lubrication considering cavitation (2009)

The small-sized herringbone groove journal bearing (HGJB), i.e., so-called “magnetic bearing,” filled with Newtonian ferrofluid lubrication is investigated via finite difference analysis (FDA), with consideration of cavitation zones in HGJB. The FDA starts with constructing the mass flux equations of the HGJB filled with ferrofluid. Discretization for FDA is next performed over the bearing clearance domain, from which algebraic finite difference equations based on the mass flow balance over the clearance domain are derived. Solving the equations, rotordynamic coefficients, cavitation zones, and side leakage rate are successfully predicted to show effectiveness in enhancing bearing performance by ferrofluid.
PAPER 064: AN ANTHROPOMETRIC STUDY OF THE DISTAL HUMERUS WITH IMPLICATIONS TOWARDS CONTRALATERAL REGISTRATION (2010)

Purpose: The successful placement of elbow prostheses, external fixators and ligament reconstructions is dependent on the accurate identification of the elbow’s flexion-extension (FE) axis. In the case of periarticular bone loss, the FE axis must be visually estimated, as the necessary anatomical landmarks may not be available. Hence, referencing the uninjured elbow anatomy may prove beneficial in accurately defining this axis. However, this is contingent on the morphological features being similar between the two sides. Our objective was to compare distal humeral morphology between paired specimens. Our hypothesis was that anthropometric measurements from the distal humerus would be similar to the contralateral side. Method: CT Images of 25 paired distal humeri were obtained. A right-to-left surface registration was then performed on each pair using the iterative closest point (icp) least-squares algorithm, thus placing each specimen in the same coordinate system.. Anthropometric characteristics measured (and compared between the left and right sides) included the angles of the FE and epicondylar axes in both the coronal and transverse planes, the anterior offset of the FE axis with respect to the humeral shaft axis, the length of the FE axis and the radius of curvature of the capitellum and trochlea. Results: There was no statistically significant difference between the left and right humeri for the eight anthropometric characteristics studied (p > 0.05). The mean difference in magnitude for the FE axis angle was approximately 1.0° in both the coronal and transverse planes and the difference in magnitude for 80% of the paired specimens was less than 1.5°. Conclusion: The anthropometric features of the distal humerus that are typically employed during elbow surgery are similar from side to side. Preoperative imaging of the contralateral normal elbow should be considered in patients with periarticular bone loss where referencing anatomical landmarks of the injured side is not possible. This information can be used as part of a preoperative plan to determine the ideal position of the implant, ligament reconstruction or external fixator during surgery. Contralateral imaging should be particularly useful when combined with computer-assisted elbow surgery.
Model and Calibration of a Diesel Engine Air Path With an Asymmetric Twin Scroll Turbine (2013)

A control-oriented model and its associated tuning methodology is presented for the air path of a six cylinder 13 L diesel engine equipped with an asymmetric twin-scroll turbine, wastegate (WG), and exhaust gas recirculation (EGR). This model is validated against experimental engine data and shows good agreement. The small scroll of the asymmetric twin scroll turbine is fed by the exhaust of three cylinders via a split manifold that operates at higher pressure than the exhaust manifold feeding the larger turbine scroll. The asymmetric design with the high exhaust back pressure on three of the six cylinders gives the necessary EGR capability, with reduced pumping work, but leads to complex flow characteristics. The mean-value model describes the flows through the engine, the flow through the two turbine scrolls, the EGR flow, and the WG flow as they are defined, and defines the pressure of the manifolds they connect to. Using seven states that capture the dynamics of the pressure and composition in the manifolds and the speed of the turbo shaft, the model can be used for transient control, along with set point optimization for the EGR and WG flows for each speed and load condition. The relatively low order of the model makes it amenable to fast simulations, system analysis, and control design.
ChemInform Abstract: CONFORMATIONAL ANALYSIS. 40. CONFORMATION OF 1‐METHYL‐1‐PHENYLCYCLOHEXANE AND D CONFORMATIONAL ENERGIES OF THE PHENYL AND VINYL GROUPS (1981)

Abstract Konformationen der Methyl‐cyclohexane (I)‐(III) werden untersucht ; die Vinylverbindung (III) entsteht aus 4‐Methylcyclohexylessigsäure (IV) über eine Reduktion zum Carbinol (Va) und Eliminierung über die Ammoniumverbindung (Vc).
Composing General Audio Representation by Fusing Multilayer Features of a Pre-trained Model (2022)

Many application studies rely on audio DNN models pre-trained on a large-scale dataset as essential feature extractors, and they extract features from the last layers. In this study, we focus on our finding that the middle layer features of existing supervised pre-trained models are more effective than the late layer features for some tasks. We propose a simple approach to compose features effective for general-purpose applications, consisting of two steps: (1) calculating feature vectors along the time frame from middle/late layer outputs, and (2) fusing them. This approach improves the utility of frequency and channel information in downstream processes, and combines the effectiveness of middle and late layer features for different tasks. As a result, the feature vectors become effective for general purposes. In the experiments using VGGish, PANNs' CNN14, and AST on nine downstream tasks, we first show that each layer output of these models serves different tasks. Then, we demonstrate that the proposed approach significantly improves their performance and brings it to a level comparable to that of the state-of-the-art. In particular, the performance of the non-semantic speech (NOSS) tasks greatly improves, especially on Speech commands V2 with VGGish of +77.1 (14.3% to 91.4%).
Development of Structural Components for ANTLE and CLEAN, the European Technology Validator Engines (2005)

Acute infection of female mice with T. gondii oocysts resulted in changes in ENS and a marked increase in 5-HT. These changes are consistent with its modulatory role in the development of moderate acute inflammation. The use of this experimental model may lend itself to studies aimed at understanding the pathophysiological mechanisms of intestinal inflammation in humans involving ENS.
Residue role assignment based transform partition predetermination on HEVC (2013)

The transform unit (TU), combining with the rate-distortion optimized quantization (RDOQ), as a part of the important features of HEVC brings much performance gain by adding more computation burden to the encoder. Different from the previous standards, the transform and quantization (T&Q) lead into a quadtree structure which requires to be split and calculated recursively for one coding unit (CU). The complexity issues limit the development of both software and hardware video code engine. To solve this problem, this paper proposes a residue role assignment based transform partition predetermination method by introducing the all zero block detection principle. The proposal generates from the observation that the rate-distortion optimized TU partitions generally depend on the distribution of the low frequency residue blocks. 3 different roles are assigned to the residue blocks based on 3 level of residue frequency value. Each role of residue relates to a concrete T&Q calculation. Therefore, instead of traversal calculating of full T&Q size and T&Q depth, the residue blocks are categorized previously and only the corresponding T&Q are calculated. The evaluation results state that the proposal can achieve 12.8% and 26.3% total encoding time reduction with only 1.00% and 0.80% BD bit-rate loss in average with both RDOQ off and on cases.
Alcohol metabolizing genes and alcohol phenotypes in an Israeli household sample (2013)

BACKGROUND: Alcohol dehydrogenase 1B and 1C (ADH1B and ADH1C) variants have been robustly associated with alcohol phenotypes in East Asian populations, but less so in non-Asian populations where prevalence of the most protective ADH1B allele is low (generally Language: en
Tolerability and Positive Efficacy Results after Subcutaneous Immunotherapy with Parietaria Judaica Depot Extract (2018)

P. judaica subcutaneous immunotherapy (Allergovac<sup>®</sup> depot ROXALL Medicina España S.A., Zamudio, Spain) with an abbreviated up-dosing scheme showed an adequate safety and tolerability profile and induced preliminary efficacy changes.
A Model Predicting Optimal Parameters for Deep Brain Stimulation in Essential Tremor (2008)

In nine patients with essential tremor (14 thalami), the authors varied frequency, voltage, and pulsewidth of thalamic deep brain stimulation, and quantified postural tremor. Low frequency stimulation aggravated tremor; the effect increased with increasing voltage. High frequency stimulation had a U-shaped relation to voltage, with minimum tremor at an optimal voltage characteristic of the individual thalamus and increases in voltage beyond the optimum reduced tremor suppression.Based on the hypothesis that tremor response to deep brain stimulation resulted from two competing processes, the authors successfully modeled the relationship of tremor to voltage and frequency of stimulation using a mathematical model. The optimum voltage predicted by the model agreed with the empirically measured value. Moreover, the model made accurate predictions at high stimulation frequency based on measurements made at low stimulation frequency.Our results indicate there is an optimal voltage for tremor suppression by thalamic deep brain stimulation in most patients with essential tremor. The optimum varies across patients, and this is related to electrode position. A mathematical model based on "competing processes" successfully predicts optimum voltage in individual patients. This supports a competing processes model of deep brain stimulation effects.
Cyclic melanotropins (1984)

The highly potent cyclic analogue of α‐MSH, Ac‐[Cys 4 , Cys 10 ]‐α‐MSH 4–13 ‐NH 2 , was structurally modified in position 4. Four analogues were prepared and their biological activities in the in vitro frog and lizard skin bioassays were determined. It was shown that removing the terminal acetylamino group to give [Mpa 4 , Cys 10 ]‐α‐MSH 4–13 ‐NH 2 resulted in little change in the biological activity, but a change in the stereochemistry of cysteine in position 4 to give Ac‐[D‐Cys 4 , Cys 10 ]‐α‐MSH 4–13 ‐NH 2 led to a small decrease of activity in both bioassays. Decreasing the size of the intramolecular ring by removing one methylene group to give [Maa 4 , Cys 10 ]‐α‐MSH 4–13 ‐NH 2 , resulted in an analogue with lower activities in both assays (about 3 times in the lizard and 500 times in the frog), and increasing the size of the ring by one methylene group to give Ac‐[Hcy 4 , Cys 10 ]‐α‐MSH 4–13 ‐NH 2 led to much lower activities in the lizard system and similar effects were seen upon decreasing the ring size in the frog skin assay.
Modeling volcanic deformation in a regional stress field: Implications for the formation of graben structures on Alba Patera, Mars (2003)

Abundant grabens transect the volcano Alba Patera. Their complex geometry and formation mechanisms are still poorly understood. Tectonic processes and magmatic intrusions are responsible for these long surface features. Cross‐cutting relationships of the grabens show radial fractures that were formed during early stages and were progressively overprinted by concentric fractures on the mid and upper flanks of the volcano. Two modeling methods are used to understand the formation of the observed structures and to evaluate their implications for hidden subvolcanic processes. Surface deformation and fault arrangements predicted in finite element models are compared to the graben systems observed in Viking images. The orientation and position of the concentric grabens are found to be best reproduced by local crustal subsidence, superimposed on a regional NW‐SE oriented extension with decreasing magnitude from south to north. In analogue sandbox models we also simulate surface structures of arrangements that almost perfectly mimic the observed lineaments on Alba Patera. Formation of the grabens spans a period on the order of a billion years, suggesting long‐term geodynamic processes to be responsible for the subsidence of the central Alba Patera area. The progressive change toward higher concentricity is likely resultant from an increase in density in the crust by accumulation of intrusive material and cooling, thus causing subsidence of the region above this volcanic root.
Supplementary Data from Pattern of Serum Autoantibodies Allows Accurate Distinction between a Tumor and Pathologies of the Same Organ (2023)

Supplementary Data from Pattern of Serum Autoantibodies Allows Accurate Distinction between a Tumor and Pathologies of the Same Organ
Organocatalytic Synthesis of β-Alkylaspartates via β-Lactone Ring Opening (2007)

Cinchona alkaloid-catalyzed reaction of ethyl glyoxylate with substituted ketenes, formed in situ, gives disubstituted beta-lactones in moderate yield and high enantiomeric excess. Subsequent azide ring opening, reduction, and ester hydrolysis allows access to chiral beta-alkyl aspartates.
Scattering versus intrinsic attenuation in the vadose zone: A VSP experiment (2013)

ABSTRACT We studied scattering versus intrinsic attenuation estimates in the vadose zone from a shallow VSP experiment conducted in the Lawrence Livermore National Laboratory (LLNL) facility. Using permanent downhole geophones and a vertical impact source, we estimated effective attenuation of the downgoing transmitted P-wave. We compared theoretical scattering attenuation estimates and finite-difference synthetics to the measured field Q values (1/Q being a measure of attenuation). Using a selected range of impedance profiles of variance typical for a sedimentary basin, our estimates of Qscattering are in the order of 20–85. Given the short propagation pathlengths involved (∼30 m), we show that attenuation due to lateral heterogeneity is not significant. We analyzed additional distorting factors, including near-field presence, local impedance effects, and interference from reflections originating beneath receivers, and found that they may significantly impact attenuation measurement in near-surface studies, and result in biased Q values. From a comparison of the analyzed ranges of Qscattering to the measured Qeffective values, we deduced Qintrinsic, which is consistently low, but whose inferred frequency dependence depends strongly on the scattering model assumed. The ranges for the Q factor resulting from scattering and distorting factors, and the intrinsic Q value were estimated as, respectively, 4–7, and 7–4. We identified two potential mechanisms which could lead to low Qintrinsic values in the vadose zone: patchy saturation and squirt flow. We found through viscoelastic 3D synthetic modeling using a standard linear solid (SLS), that the field Q frequency dependence can be reproduced, although nonuniquely, for the studied range of impedance variance.
A Micro-Architectural Based Structural Model for Elastomeric Electrospun Scaffolds (2010)

Interest in electrospun polymeric nano-microfibers for tissue engineering applications has rapidly grown during the last decade. In spite of this technique’s flexibility and ability to form complex fiber assemblies, additional studies are required to elucidate how the fibrous microstructure translates into specific tissue (or meso-scale) level mechanical behavior. Deterministic structural models can quantify how key structures contribute to the mechanical response as a function of bulk deformation across multiple scales, as well as provide a better understanding of cellular mechanical response to local micro-structural deformations. Our ultimate aim is to utilize such models to assist tissue engineering scaffold design. In the current work, we present a novel approach to automatically quantify key micro-architectural descriptors (fiber overlaps, connectivity, orientation, and diameter) from SEM images of electrospun poly (ester urethane) urea (PEUU) to recreate statistically equivalent scaffold mechanical models. An appropriate representative volume element (RVE) size was determined by quantifying the point of stabilization of the architectural descriptors over image areas of increasing size. Material models were then generated specifying: fiber overlap density, fiber orientation, connectivity and fiber diameter. Macro-meso mechanical response was predicted via FEM simulations.
Ultrafast laser surgery of the anterior segment of the eye: the GRECO and NOUGAT collaborative research projects (2010)

International audience
Optimizing in-line defect monitoring using correlation with electrical failures (1997)

This paper describes the work done for optimization of product wafer inline monitoring using the KLA 2132 and Tencor 7700 at the SGS Thomson Rousset facility using electrical bitmapping as response. Emphasis was placed on understanding each system's capability and limitation with regards to detecting 'killer defects', as applied to different process steps. In addition speed of detection as well as signal to noise ratio were used as criteria for selecting the monitoring equipment for certain critical process steps. This experiment was carried out using a high volume product with a ROM code which made up 55 percent of the chip. The inspection was concentrated in detecting defects in this ROM area and then correlating these defects to bitmap failures.
Using a Case Study Approach to Understanding R&D Communication Barriers (2012)

Communication issues can exist between Research and Development (R&D) and other organizations which can create inefficiencies in R&D. Companies may not be aware of this communication breakdown or may not be conscious of tools and best practices which exist in literature and benchmarking which can address this gap. Effective R&D management and strategy formation can play a critical role in giving a company a competitive advantage and therefore make it successful in intense competitive environments. Good communication between R&D and other parts of the organization (e.g. marketing) is significant in developing and executing these strategies. In this paper a case study methodology was utilized to compare how R&D strategies from different companies and different sectors compare, and how these companies communicate and manage their R&D activities. The team conducted interviews with R&D managers, focusing on the communication element of R&D management. These interviews were conducted using a consistent framework obtained from literature. Results were compiled from each company and recommendations were prepared based on lessons from benchmarking, literature, case studies [2], and lecture material.
Application of nonnegative principal component analysis in hyperspectral imaging (2006)

The classic PCA (Principal Component Analysis) has been applied in hyperspectral imaging with varying success. One obstacle in its application is the potential physical interpretation of the principal components, which is questionable unless the principal component coefficients are nonnegative. In this paper, we show hyperspectral imaging applications of a recently developed methodology of nonnegative PCA, which overcomes this difficulty by constructing nonnegative principal components. We construct an approximation of a physics-derived target space, and suggest some interpretations of the resulting components.