gebhart/patrepeval huggingface dataset:
GapIII, a new brain‐enriched member of the GTPase‐activating protein family (1995)

Ras GTPase-activating proteins (GAPs) are negative regulators of ras, which controls proliferation and differentiation in many cells. Ras GAPs have been found in a variety of species from yeast to mammals. We describe here a newly identified mammalian GAP, GapIII, which was obtained by differential screening of a rat oligodendrocyte cDNA library. GapIII putatively encodes a 834 amino acid protein with a predicted molecular weight of 96 kDa, which contains a consensus GAP-related domain (GRD). The protein encoded by this cDNA has high homology with Gap1m, which was recently identified as a putative mammalian homolog of Drosophila Gap1. These proteins contain three structural domains, an N-terminal calcium-dependent phospholipid binding domain, GRD, and a C-terminal PH/Btk domain. Because of the sequence homology and the structural similarities of this protein with Gap1m, we hypothesize that GapIII and Gap1m may be members of a mammalian GAP gene family, separate from p120GAP, neurofibromin (NF1), and IQGAP. To confirm the GapIII protein activity, constructs containing different GapIII-GRD domains were transformed into iral mutant yeast to determine their relative ability to replace IRA1 functionally. Constructs that contained essentially the full-length protein (all three domains), the GRD alone, or the GRD plus PH/Btk domain suppressed heat shock sensitivity of ira1, whereas constructs that contained the GRD with part of the PH/Btk domain had only a weak ability to suppress heat shock sensitivity. These results suggest that the GapIII GRD itself is sufficient to down-regulate ras proteins in yeast. Expression of GapIII mRNA (4.2 kb) was examined by Northern analysis and in situ hybridization. This mRNA was expressed at highest levels in the brain, where its expression increased with development. Lower levels of the mRNA were expressed in the spleen and lung. Among neural cells, GapIII mRNA was expressed in neurons and oligodendrocytes, but not in astrocytes. Interestingly, the expression pattern in brain is reminiscent of type 1 NF1 expression reported by Gutmann et al. (Cell Growth Differ in press, 1995). We propose that in addition to p120GAP and neurofibromin, the GapIII/Gap1m family may be important for modulating ras activity in neurons and oligodendrocytes during normal brain development and in particular in the adult brain.
ReducedVglut2/Slc17a6Gene Expression Levels throughout the Mouse Subthalamic Nucleus Cause Cell Loss and Structural Disorganization Followed by Increased Motor Activity and Decreased Sugar Consumption (2016)

The subthalamic nucleus (STN) plays a central role in motor, cognitive, and affective behavior. Deep brain stimulation (DBS) of the STN is the most common surgical intervention for advanced Parkinson's disease (PD), and STN has lately gained attention as target for DBS in neuropsychiatric disorders, including obsessive compulsive disorder, eating disorders, and addiction. Animal studies using STN-DBS, lesioning, or inactivation of STN neurons have been used extensively alongside clinical studies to unravel the structural organization, circuitry, and function of the STN. Recent studies in rodent STN models have exposed different roles for STN neurons in reward-related functions. We have previously shown that the majority of STN neurons express the vesicular glutamate transporter 2 gene (<i>Vglut2/Slc17a6</i>) and that reduction of Vglut2 mRNA levels within the STN of mice [conditional knockout (cKO)] causes reduced postsynaptic activity and behavioral hyperlocomotion. The cKO mice showed less interest in fatty rewards, which motivated analysis of reward-response. The current results demonstrate decreased sugar consumption and strong rearing behavior, whereas biochemical analyses show altered dopaminergic and peptidergic activity in the striatum. The behavioral alterations were in fact correlated with opposite effects in the dorsal versus the ventral striatum. Significant cell loss and disorganization of the STN structure was identified, which likely accounts for the observed alterations. Rare genetic variants of the human <i>VGLUT2</i> gene exist, and this study shows that reduced <i>Vglut2/Slc17a6</i> gene expression levels exclusively within the STN of mice is sufficient to cause strong modifications in both the STN and the mesostriatal dopamine system.
Successful Long-Term Fixation and Progression of Osteolysis Associated with First-Generation Cementless Acetabular Components Retrieved Post Mortem (2012)

Acetabular fixation by bone ingrowth can be successful into the third decade after implantation. Osteolysis and secondary replacement of bone with particle-induced granuloma are commonly seen in the presence of excellent clinical function. Strategies designed to minimize bearing-surface wear and backside damage are important to maintain long-term bone ingrowth fixation.
Amplificateur de Puissance Push-Pull en Technologie CMOS 0,13µm. Application au Standard de Communication WLAN 802.11b (2007)

National audience
Diagnostic Accuracy of Echo Envelope Statistical Modeling Compared to B‐Mode and Power Doppler Ultrasound Imaging in Patients With Clinically Diagnosed Lateral Epicondylosis of the Elbow (2019)

An automated, computer-based QUS technique diagnosed LE with accuracy of 0.82. This technique could provide quantitative biomarkers for the characterization of LE disease.
d-Idose, d-Iduronic Acid, and d-Idonic Acid from d-Glucose via Seven-Carbon Sugars (2019)

A practical synthesis of the very rare sugar d-idose and the stable building blocks for d-idose, d-iduronic, and d-idonic acids from <i>ido</i>-heptonic acid requires only isopropylidene protection, Shing silica gel-supported periodate cleavage of the C6-C7 bond of the heptonic acid, and selective reduction of C1 and/or C6. d-Idose is the most unstable of all the aldohexoses and a stable precursor which be stored and then converted under very mild conditions into d-idose is easily prepared.
High Efficiency Semi-Transparent Organic Photovoltaics (2019)

Considering the vast surface areas of windows and facades in modern urban environments, developing building-integrated photovoltaics employing transparent photovoltaic cells provides an opportunity to convert solar energy to electricity rather than generating waste heat. In this work, a non-fullerene acceptor based near-infrared (NIR) absorbing ternary component cell combined with a thin, semitransparent, high conductivity Cu-Ag alloy electrode was used to demonstrate semitransparent organic photovoltaic cells (ST-OPVs). A combination of optical outcoupling and anti-reflection coatings leads to enhance visible transmission, while reflecting the NIR back into the cell where it is absorbed. The optimized devices have the light utilization efficiency (LUE), which is equal to the product of the power conversion efficiency (PCE) and the average photopic transparency compared with a conventional semitransparent cell, twice that of a cell lacking these coatings. A maximum LUE = 3.56± 0.11% is achieved for a ST-OPV with a PCE = 8.0± 0.2%% at 1 sun, AM1.5G simulated emission.
Pharmacokinetic biodistribution assessment of Phosphorescent sensor, PtG4 Oxyphor in mice for optimization of in vivo oxygenation imaging (2019)

Luminescence molecular tomography with Cherenkov excitation offers the ability to non-invasively image and quantify temporal changes in fluorescence throughout the body, and then further realize tumor localization. This can be done in radiotherapy to determine the response to treatment in fractionated therapy. To obtain high signal-to-background or signal-to-noise ratio measurement, it is critical to know the best post time point of in-vivo agent-based molecular imaging, which could account on a high signal ratio of target to skin (TSR). For this purpose, ex-vivo murine experiments were performed to quantify the biokinetics and biodistribution of the major organs, plasma, tumor, and skin.
GcpE Is Involved in the 2- C -Methyl- d -Erythritol 4-Phosphate Pathway of Isoprenoid Biosynthesis in Escherichia coli (2001)

In a variety of organisms, including plants and several eubacteria, isoprenoids are synthesized by the mevalonate-independent 2-C-methyl-D-erythritol 4-phosphate (MEP) pathway. Although different enzymes of this pathway have been described, the terminal biosynthetic steps of the MEP pathway have not been fully elucidated. In this work, we demonstrate that the gcpE gene of Escherichia coli is involved in this pathway. E. coli cells were genetically engineered to utilize exogenously provided mevalonate for isoprenoid biosynthesis by the mevalonate pathway. These cells were then deleted for the essential gcpE gene and were viable only if the medium was supplemented with mevalonate or the cells were complemented with an episomal copy of gcpE.
Regioselective Synthesis of 6-O-Acetyl Dieckol and Its Selective Cytotoxicity against Non-Small-Cell Lung Cancer Cells (2022)

Dieckol, a phlorotannin from <i>Ecklonia cava</i>, has shown potential for use as an anticancer agent that selectively kills cancer cells. However, it is necessary to amplify its potency without damaging its inherent safety in order to develop it as a competitive chemotherapeutic. Here, we explored the controlled <i>O</i>-acylations of dieckol. Acyl groups could be consistently introduced to the 6-<i>O</i> position of dieckol with a high regioselectivity, which was confirmed by NOESY, HMBC and HSQC spectroscopies. In cytotoxicity studies on the newly synthesized 6-<i>O</i>-acetyl, 6-<i>O</i>-benzoyl dieckols and previously synthesized 6-<i>O</i>-alkyl dieckols against A549 vs. normal cells, all of the derivatives showed low cytotoxicity in normal cells with an IC<sub>50</sub> of 481-719 μM, and highly structure-dependent cytotoxicity in A549 cells with an IC<sub>50</sub> of 7.02 (acetyl)-842.26 (benzyl) μM. The selectivity index also showed a large structure dependency in the range of 0.67 (benzyl)-68.58 (acetyl). An analysis of the structure-activity relationship indicated that the activity was dramatically reduced in the presence of a benzene ring and was highly increased in the presence of small polar substituents. Conclusions: Controlled mono-<i>O</i>-modifications of dieckol could be a powerful tool to enhance the anticancer activity of dieckol, thus contributing to the development strategy for dieckol-based chemotherapeutics.
Evaluation of initiator systems for controlled and sequentially curable free‐radical/cationic hybrid photopolymerizations (2005)

Abstract Free‐radical/cationic hybrid photopolymerizations of acrylates and epoxides were initiated using a three‐component initiator system comprised of camphorquinone as the photosensitizer, an amine as the electron donor, and a diaryliodonium salt. Thermodynamic considerations revealed that the oxidation potential of the electron donor must be less than 1.34 V relative to SCE for electron transfer with the photoexcited camphorquinone to take place. This electron transfer leads to the production of the active centers for the hybrid polymerization (two radicals and a cation). Further investigation revealed that only a subset of electron donors that meet the oxidation potential requirement resulted in polymerization of the epoxide monomer; therefore, a second requirement for the electron donor (pK b higher than 8) was established. Experiments performed using a combination of electron donors revealed that the onset of the hybrid system's cationic polymerization can be advanced or delayed by controlling the concentration and composition of the electron donor(s). These studies demonstrate that a single three‐component initiator system can be used to initiate and chemically control the sequential curing properties of a free‐radical/cationic hybrid photopolymerization and is a viable alternative to separate photoinitiators for each type of polymerization. © 2005 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 43: 1747–1756, 2005
Evaluating a suitable level of model complexity for finite element analysis of the intact acetabulum (2011)

To enable large-scale multi-factorial finite element (FE) studies, the FE models used must be as computationally efficient as is feasible, while maintaining a suitable level of definition. The present study seeks to find an optimum level of model complexity for use in such large-scale studies by investigating which model attributes are most influential over the chosen model outputs of principal stress and strain in the intact acetabulum. A multi-factorial sensitivity study was carried out using 128 FE models, representing combinations of the following variables: bone stiffness distribution, imposed muscle loading, boundary condition location, hip joint contact conditions and patient's bone anatomy. The relative sensitivity of each input factor was analysed, and it was concluded that the optimum level of model definition must include CT-dependent trabecular bone properties and a sliding interface at the hip joint. It was found that it was not essential to describe the ligamentous sacroiliac and pubic symphysis joints; these could be rigidly fixed in space; and for the normal walking load case, muscle forces may be neglected. It was also concluded that a variety of bone anatomies should be included in a multi-factorial analysis if results are to be inferred for a wider population.
Data from Broadening Specificity and Enhancing Cytotoxicity of Adoptive T Cells for Nasopharyngeal Carcinoma Immunotherapy (2023)

&lt;div&gt;Abstract&lt;p&gt;Although promising, clinical responses to adoptive immunotherapy for nasopharyngeal carcinoma (NPC) are still limited by the restricted number of Epstein–Barr virus (EBV) antigens that can be targeted and their poor immunogenicity. Our previous work indicated that the immunogenic features of the NPC-associated viral antigen BARF1 may be exploited for immunotherapeutic purposes. Nevertheless, T-cell lines obtained with current protocols include only negligible numbers of BARF1-specific cytotoxic T lymphocytes, pointing to the need to enrich these effectors in BARF1 specificities. Considering that in B lymphocytes BARF1 is mainly a lytic EBV antigen, we tested different EBV lytic-cycle inducers (TPA/butyric acid, doxorubicin, and cisplatin) used at suboptimal concentrations for their ability to upregulate BARF1 expression in lymphoblastoid B-cell lines (LCL), the commonly used antigen-presenting cells, without compromising their survival. The LCLs treated with doxorubicin (DX-LCL) can reproducibly and efficiently generate EBV-specific effectors enriched in BARF1 specificities from both healthy donors and NPC patients. These DX-LCLs also had more pronounced immunogenic properties, including HLA class I upregulation and expression of immunogenic cell death markers, such as enhanced calreticulin exposure and HMGB1 release. In particular, doxorubicin triggers an HMGB1 autocrine/paracrine loop with its receptor, TLR4, which is also upregulated in DX-LCLs and is responsible for NF-κB activation and a delayed apoptosis that allows a prolonged stimulation of EBV-specific T-cell precursors. This protocol may thus constitute a valid alternative to the use of engineered LCLs to generate EBV-specific T-cell lines for adoptive immunotherapy, being relatively simple, easily upgradable to Good Manufacturing Practice standards, and therefore more broadly applicable. &lt;i&gt;Cancer Immunol Res; 4(5); 431–40. ©2016 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
What matters to users? (2013)

Much of the debate surrounding online behavioral advertising (OBA) has centered on how to provide users with notice and choice. An important element left unexplored is how advertising companies' privacy practices affect users' attitudes toward data sharing. We present the results of a 2,912-participant online study investigating how facets of privacy practices---data retention, access to collected data, and scope of use---affect users' willingness to allow the collection of behavioral data. We asked participants to visit a health website, explained OBA to them, and outlined policies governing data collection for OBA purposes. These policies varied by condition. We then asked participants about their willingness to permit the collection of 30 types of information. We identified classes of information that most participants would not share, as well as classes that nearly half of participants would share. More restrictive data-retention and scope-of-use policies increased participants' willingness to allow data collection. In contrast, whether the data was collected on a well-known site and whether users could review and modify their data had minimal impact. We discuss public policy implications and improvements to user interfaces to align with users' privacy preferences.
In Vitro Autoradiographic Localization of Receptor-Stimulated [<sup>35</sup>S]GTPγ S Binding in Brain (2003)

Neurotransmitter receptors contain two main functional components: a ligand binding domain, which specifically recognizes the neurotransmitter, and a signaling component, which translates the binding of the neurotransmitter (or its agonists) into a physiological response. Radioligand binding assays represented a breakthrough in understanding the properties of these receptors in brain at the level of the ligand binding site, and the development of techniques like in vitro autoradiography of receptor binding allowed high-resolution analysis of the neuroanatomical localization of these receptors. However, these methodologies provide no information regarding the signal transduction component of these receptors, and in particular, cannot provide a true picture of the biological activity of receptors and of the efficacy of neurotransmitters and their agonists to produce a biological response. Even more recent methodological developments, like in situ hybridization of receptor mRNA, provide excellent localization of receptor gene expression, but also give little information about receptor coupling to intracellular signaling mechanisms. In order to address this question, techniques must be developed to allow for in vitro localization of receptor-mediated signal transduction.
Effect of microbial and other naturally occurring polymers on mineral dissolution (1994)

Several naturally occurring polymers were tested for their effect on mineral dissolution. Polymers composed primarily of neutral sugars had no effect on dissolution, even at concentrations 1000 times greater than average dissolved organic carbon concentration in groundwater. In contrast, alginate, a polysaccharide composed of two uronic acids, inhibited dissolution by 80% at the highest concentration. A high‐molecular‐weight (26 kD) polyaspartate also inhibited dissolution, though a lower molecular weight (6 kD) polyaspartate had no effect. Solutions of fresh microbial extracellular polysaccharides (EPS) extracted from subsurface microbes increased the dissolution rate of feldspars, probably by forming complexes with framework ions in solution. However, EPS inhibited dissolution in experiments with both high‐ and low‐molecular‐weight microbial metabolites by irreversibly binding to mineral surfaces.
Common mode noise suppression control for two‐motor drive systems (2022)

Abstract This paper introduces a pulse‐width modulation (PWM) method for a two‐motor drive system that reduces the propagation of conduction noise to the power supply. This two‐motor drive system consists of two motors with two inverters, each of which is connected to a common DC bus. The proposed method suppresses the common mode voltage ideally to zero by shifting the rise and fall times of the output voltage of each inverter. Our experimental results show that the rise and fall times of the output voltage can be synchronized even when the two inverters are driven at different amplitudes and frequencies. We confirm that the proposed method suppresses the propagation of conduction noise to the power supply.
Breadth-first search for social network graphs on heterogenous platforms (2016)

Breadth-First Search (BFS) is the core of many graph analysis algorithms, and it is useful in many problems including social network, computer network analysis, and data organization, but, due to its irregular behav- ior, its parallel implementation is very challenging. There are several approaches that implement efficient algorithms for BFS in multicore architectures and in Graphics Processors, but an efficient implementation of BFS for heterogeneous systems is even more complicated, as the task of distributing the work among the main cores and the accelerators becomes a big challenge.&#13;\nAs part of this work, we have assessed different heterogenous shared-memory architectures (from high- end processors to embedded mobile processors, both composed by a multi-core CPU and an integrated GPU) and implemented different approaches to perform BFS. This work introduces three heterogeneous approaches for BFS: Selective, Concurrent, and Async. Contributions of this work includes both the analysis of BFS performance on Heterogenous platforms, as well as in depth analysis of social network graphs and its implications on the BFS algorithm.&#13;\nThe results show that BFS is very input dependent, and that the structure of the graph is one of the prime factors to analyze in order to develop good and scalable algorithms. The results also show that heterogenous platforms can provide acceleration to even irregular algorithms, reaching speed-ups of 2.2x in the best case. It is also shown how the different system configurations and capabilities impact the performance and how the shared-memory system can reach bandwidth limitations that prevent performance improvements despite having higher utilization of the resources.
Laser-induzierte Thermotherapie (LITT) von Lungenmetastasen: Beschreibung eines miniaturisierten Applikators, Optimierung und erste Patientenbehandlungen (2003)

The miniaturized applicator system enables the introduction of a laser fiber into pulmonary metastases with only minor complications. Complete ablation seems to be achievable in suitable patients with the applied laser energy and a slow cooling fluid flow rate.
Supplementary Figure 3 from Low-Calcium Serum-Free Defined Medium Selects for Growth of Normal Prostatic Epithelial Stem Cells (2023)

Supplementary Figure 3 from Low-Calcium Serum-Free Defined Medium Selects for Growth of Normal Prostatic Epithelial Stem Cells
Visual organization for figure/ground separation (1996)

A common factor in all illusory contour figures is the perception of a surface occluding part of a background. In our previous work, we have shown we could diffuse a proper set of junction hypothesis (what is salient or background) to obtain a surface where their boundaries represented illusory contours. Amodal completions emerge at the overlapping surfaces. We address the problem of selecting the best image organization (set of hypothesis). We propose an optimization criteria based on a coherence measure between pairs of junctions (correlation between the diffusion of each pair). A statistical physics approach to select the best organization is applied. The experiments suggest that despite the large number of possible organizations our approach may take only a few steps (in organization space) to select the best one.