gebhart/patrepeval huggingface dataset:
Constitutive phosphorylation of cardiac myosin regulatory light chain prevents development of hypertrophic cardiomyopathy in mice (2015)

Myosin light chain kinase (MLCK)-dependent phosphorylation of the regulatory light chain (RLC) of cardiac myosin is known to play a beneficial role in heart disease, but the idea of a phosphorylation-mediated reversal of a hypertrophic cardiomyopathy (HCM) phenotype is novel. Our previous studies on transgenic (Tg) HCM-RLC mice revealed that the D166V (Aspartate166 → Valine) mutation-induced changes in heart morphology and function coincided with largely reduced RLC phosphorylation in situ. We hypothesized that the introduction of a constitutively phosphorylated Serine15 (S15D) into the hearts of D166V mice would prevent the development of a deleterious HCM phenotype. In support of this notion, MLCK-induced phosphorylation of D166V-mutated hearts was found to rescue some of their abnormal contractile properties. Tg-S15D-D166V mice were generated with the human cardiac RLC-S15D-D166V construct substituted for mouse cardiac RLC and were subjected to functional, structural, and morphological assessments. The results were compared with Tg-WT and Tg-D166V mice expressing the human ventricular RLC-WT or its D166V mutant, respectively. Echocardiography and invasive hemodynamic studies demonstrated significant improvements of intact heart function in S15D-D166V mice compared with D166V, with the systolic and diastolic indices reaching those monitored in WT mice. A largely reduced maximal tension and abnormally high myofilament Ca(2+) sensitivity observed in D166V-mutated hearts were reversed in S15D-D166V mice. Low-angle X-ray diffraction study revealed that altered myofilament structures present in HCM-D166V mice were mitigated in S15D-D166V rescue mice. Our collective results suggest that expression of pseudophosphorylated RLC in the hearts of HCM mice is sufficient to prevent the development of the pathological HCM phenotype.
A Novel Laboratory Test Method to Measure Dynamic Water Pressure Underneath a Cracked Concrete Pavement (2018)

Water infiltration through a discontinuity (crack/joint) in a pavement generates water pressure at the end of the discontinuity when experience traffic load. If this discontinuity extends to the full depth, the generated water pressure can lead to deterioration of foundation material, which ultimately can create under stab voids resulting poor load transfer efficiency and failure of the pavement. A novel laboratory test has been developed to measure water pressure underneath a flooded concrete slab that contains 2mm continuous pore across the full depth. The slab was subjected to dynamic load of a 5kN and 10kN, applied at four different frequencies, 1Hz, 5Hz, 10Hz and 15Hz. Excellent repeatability has been achieved on measuring pore water pressure. The results also showed that pore water pressure increases with increasing load frequency, but the influence of load magnitude and the depth of surface water was found to have only marginal impact.
Exploiting bias in a non-immune human antibody library to predict antigenicity (2011)

Non-immune human antibody fragment libraries have generated antigen-binding proteins useful as prospective research, imaging, diagnostic and therapeutic agents. However, because the generation of such libraries relies on cloning antibody sequences from the circulating immune repertoire rather than truly naïve, germline sequences, their composition may reflect the deletion of autoreactive sequences, making them less suited for isolating binding clones to human antigens, but perhaps useful in applications where an in vitro handle on representative circulating antibody diversity is desired. Here we demonstrate that a large non-immune human scFv library is relatively depleted of sequences capable of recognizing human antigens as compared with orthologs antigens. Additionally, because this non-naïve, non-immune library may capture a representative section of antibody diversity, we explore its possible utility in conducting early pre-screens to predict the antigenicity of prospective therapeutics and find a correlation between the clinical immunogenicity of a small panel of protein therapeutics with their propensity for interacting with the library.
Tuimorigenic activity of fluoranthene, 2-methylfluoranthene and 3-methylfluoranthene in newborn CD-I mice (1994)

Fluoranthene (FA) is frequently among the more abundant components detected in environmental mixtures of polycyclic aromatic hydrocarbons. Several methylated fluoranthenes, although less prevalent than FA, have also been detected as environmental pollutants. While FA is inactive as a tumorigenic agent on mouse skin, it does induce lung and liver tumors in newborn mice. Among the five isomers of methylfluoranthene, only 2-methylfluoranthene (2-MeFA) and 3-methylfluoranthene (3-MeFA) are active as tumor initiators on mouse skin. A comparative bioassay was performed to determine the relative tumorigenic activity of FA, 2-MeFA and 3-MeFA in newborn CD-1 mice. All three compounds were assayed at doses of 3.46 and 17.3 mumol. The bioassay was terminated when mice were 1 year old. At a dose of 17.3 mumol, FA and 2-MeFA induced a similar incidence of lung tumors (65-96%) in both male and female mice. However, tumor multiplicity in the lung was different between FA and 2-MeFA. At a dose of 17.3 mumol, the multiplicity of lung tumors observed for mice administered 2-MeFA ranged from 3.04 to 3.94 tumors per mouse. In contrast, animals treated with FA developed only an average of 1.12-2.45 tumors per mouse. 3-MeFA did not induce a statistically significant incidence of lung tumors in either male or female mice. All three compounds when administered to newborn mice did induce a significant incidence of liver tumors among male mice. The relative tumorigenic potency observed was FA > or = 2-MeFa >> 3-MeFA. Only 2-MeFA at a dose of 17.3 mumol was tumorigenic in the liver of female mice. These bioassay results are contrasted with prior studies on the in vitro genotoxic activity and metabolic activation pathways of FA, 2-MeFA and 3-MeFA.
Space‐in‐Time and Time‐in‐Space Self‐Organizing Maps for Exploring Spatiotemporal Patterns (2010)

Abstract Spatiotemporal data pose serious challenges to analysts in geographic and other domains. Owing to the complexity of the geospatial and temporal components, this kind of data cannot be analyzed by fully automatic methods but require the involvement of the human analyst's expertise. For a comprehensive analysis, the data need to be considered from two complementary perspectives: (1) as spatial distributions (situations) changing over time and (2) as profiles of local temporal variation distributed over space. In order to support the visual analysis of spatiotemporal data, we suggest a framework based on the “Self‐Organizing Map” (SOM) method combined with a set of interactive visual tools supporting both analytic perspectives. SOM can be considered as a combination of clustering and dimensionality reduction. In the first perspective, SOM is applied to the spatial situations at different time moments or intervals. In the other perspective, SOM is applied to the local temporal evolution profiles. The integrated visual analytics environment includes interactive coordinated displays enabling various transformations of spatiotemporal data and post‐processing of SOM results. The SOM matrix display offers an overview of the groupings of data objects and their two‐dimensional arrangement by similarity. This view is linked to a cartographic map display, a time series graph, and a periodic pattern view. The linkage of these views supports the analysis of SOM results in both the spatial and temporal contexts. The variable SOM grid coloring serves as an instrument for linking the SOM with the corresponding items in the other displays. The framework has been validated on a large dataset with real city traffic data, where expected spatiotemporal patterns have been successfully uncovered. We also describe the use of the framework for discovery of previously unknown patterns in 41‐years time series of 7 crime rate attributes in the states of the USA.
Expression des récepteurs somatostatinergiques SSTR2 et dopaminergiques D2 dans les adénomes somatotropes (1997)

peer reviewed
A Sperm Testing Device on a Liquid Crystal and Polymer Composite Film (2013)

Developing a handy sperm testing device is important since sperm quality is a significant factor for fertility potential.
Cationic aluminium hydrides: [H2AlL]+[AlH4]–, L =N,N,N′,N″,N″-pentamethyldiethylenetriamine and 1,4,8,11-tetramethyl-1,4,8,11-tetraazacyclotetradecane (1991)

Reaction of H3AlNMe3 with N,N,N′,N″,N″-pentamethyldiethylenetriamine (pmdien) in diethyl ether or 1,4,8,11-tetramethyl-1,4,8,11-tetraazacyclotetradecane (Me4cyclam) in tetrahydrofuran yields [H2Al(pmdien)]+[AlH4]–, which possesses a trigonal bipyramidal cation with the hydrides in the trigonal plane [Al–N′ 2.158(7), Al–N,N″ 2.01(1), Al–H 1.62 Å] or [H2Al(Me4 cyclam)]+[AlH4], where the metal centre in the cation is trans-octahedral [Al–N(mean) 2.13, Al–H 1.60, 1.64 Å].
Validity of Ligand Efficiency Metrics (2014)

A recent viewpoint article (Improving the plausibility of success with inefficient metrics. ACS Med. Chem. Lett. 2014, 5, 2-5) argued that the standard definition of ligand efficiency (LE) is mathematically invalid. In this viewpoint, we address this criticism and show categorically that the definition of LE is mathematically valid. LE and other metrics such as lipophilic ligand efficiency (LLE) can be useful during the multiparameter optimization challenge faced by medicinal chemists.
Ballistic Heat-Pulse Transport in Sb-Doped Ge under Magnetic Field (1984)

The magnetic field and the heater temperature dependence of the attenuation of ballistic heat-pulse with transverse polarization propagating along the [100] axis were measured in Sb (0.38 or 2.1 ×10 15 /cm 3 ) doped Ge at liquid He temperatures under the magnetic field up to 60 kG in the [100] direction. The experimental results show opposite trend to theoretical calculation of the phonon scattering based on the shrinkage effect of the donor wave function. On the other hand, a theoretical prediction which takes account of the scattering of the heat-pulse phonons by either polar or homo-polar pairs under the magnetic field in the [100] direction shows qualitative agreement with the experimental results.
Advanced Cell and Tissue Biomanufacturing (2018)

This position paper assesses state-of-the-art advanced biomanufacturing and identifies paths forward to advance this emerging field in biotechnology and biomedical engineering, including new research opportunities and translational and corporate activities. The vision for the field is to see advanced biomanufacturing emerge as a discipline in academic and industrial communities as well as a technological opportunity to spur research and industry growth. To navigate this vision, the paths to move forward and to identify major barriers were a focal point of discussions at a National Science Foundation-sponsored workshop focused on the topic. Some of the major needs include but are not limited to the integration of specific scientific and engineering disciplines and guidance from regulatory agencies, infrastructure requirements, and strategies for reliable systems integration. Some of the recommendations, major targets, and opportunities were also outlined, including some "grand challenges" to spur interest and progress in the field based on the participants at the workshop. Many of these recommendations have been expanded, materialized, and adopted by the field. For instance, the formation of an initial collaboration network in the community was established. This report provides suggestions for the opportunities and challenges to help move the field of advanced biomanufacturing forward. The field is in the early stages of effecting science and technology in biomanufacturing with a bright and important future impact evident based on the rapid scientific advances in recent years and industry progress.
Molecular mobility of free‐radical‐functionalized carbon‐nanotube/siloxane/poly(urea urethane) nanocomposites (2005)

Abstract Multiwalled carbon nanotubes (MWNTs) were functionalized by a free‐radical reaction of vinyltriethoxysilane and were blended with poly(urea urethane) (PUU) containing poly(dimethylsiloxane) as a soft segment. PUU was end‐capped with aminopropyltriethoxysilane (A‐silane) or phenyltriethoxysilane (P‐silane).A‐silane‐end‐capped PUU was covalently bonded to functionalized MWNTs, whereas P‐silane‐end‐capped PUU was noncovalently bonded to pristine MWNTs by a π–π interaction. Fourier transform infrared, Raman spectra, and thermogravimetric analysis confirmed the functionalization of MWNTs. The results showed that the optimal reaction time of the functionalization of MWNT was 8 h, and the organic content of the modified carbon nanotubes reached 35.22%. Solid‐state nuclear magnetic resonance and dynamic mechanical analysis were used to investigate the molecular structure and molecular mobility of the carbon‐nanotube/PUU nanocomposites. A‐silane PUU covalently bonded to MWNTs showed a considerable reduction in the molecular motion of the soft segment, which led to the glass‐transition temperature decreasing from −117 to −127 °C as MWNTs were incorporated. © 2005 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 43: 6084–6094, 2005
Reflection on the Last 17 Years (2004)

The <i>Journal of Micro/Nanopatterning, Materials, and Metrology</i> (JM3) publishes peer-reviewed papers on the core enabling technologies that address the patterning needs of the electronics industry.
Vote the OS off your Core (2011)

RecenttrendsinOSresearchhaveshownevidencethatthere areperformancebenefitstorunningOSservicesondifferent cores thantheuser applications that relyonthem. Wequantitatively evaluate this claim in terms of one of the most significant architectural constraints: memory performance. To this end, we have created CachEMU, an open-source memorytracegeneratorandcachesimulatorbuiltasanextension toQEMUforworkingwithsystemtraces. UsingCachEMU, we determined that for five common Linux test workloads, it was best to run the OS close, but not too close — on the samepackage, but not onthe samecore. 1.
High-resolution three-dimensional imaging of red blood cells parasitized by Plasmodium falciparum and in situ hemozoin crystals using optical diffraction tomography (2013)

We present high-resolution optical tomographic images of human red blood cells (RBC) parasitized by malaria-inducing Plasmodium falciparum (Pf)-RBCs. Three-dimensional (3-D) refractive index (RI) tomograms are reconstructed by recourse to a diffraction algorithm from multiple two-dimensional holograms with various angles of illumination. These 3-D RI tomograms of Pf-RBCs show cellular and subcellular structures of host RBCs and invaded parasites in fine detail. Full asexual intraerythrocytic stages of parasite maturation (ring to trophozoite to schizont stages) are then systematically investigated using optical diffraction tomography algorithms. These analyses provide quantitative information on the structural and chemical characteristics of individual host Pf-RBCs, parasitophorous vacuole, and cytoplasm. The in situ structural evolution and chemical characteristics of subcellular hemozoin crystals are also elucidated.
Nickel-Doped Sodium Cobaltite 2D Nanomaterials: Synthesis and Electrocatalytic Properties (2018)

In this work we report a synthetic pathway to two-dimensional nanostructures of high oxidation state lamellar cobalt oxides with thicknesses of only few atom layers, through the combined use of precipitation in basic water at room temperature and gentle solid state topotactic transformation at 120 °C. The 2D nanomaterials are characterized by X-ray diffraction, nitrogen porosimetry, scanning electron microscopy, transmission electron microscopy and especially scanning transmission electron microscopy coupled to energy dispersive X-ray analysis and electron energy loss spectroscopy to assess the composition of the nanosheets and the oxidation state of the transition metal species. We show that the nanosheets preserve high oxidation states Co3+ and Co4+ of high interest for electrocatalysis of the oxygen evolution reaction (OER). By combining high Co oxidation state, surface-to-volume ratio and optimized nickel substitution, the 2D nanomaterials produced in a simple way exhibit high OER electrocatalytic activity and stability in alkaline aqueous electrolyte comparable to standard materials obtained in harsh thermal conditions.
Overlay Networks for Media Delivery (2007)

This chapter contains sections titled: Introduction Why Media Delivery Support in the Network Infrastructure? Media Delivery Architecture Concept Evaluation and Demonstration Conclusion, Outlook and Further Work
Plasma sputtering deposition of Platinum into Anodic Alumina Oxide Membranes (2009)

International audience
Supplementary Figure S6 from <i>Nedd9</i> Restrains Autophagy to Limit Growth of Early Stage Non–Small Cell Lung Cancer (2023)

&lt;p&gt;Relation of NEDD9 mRNA expression and tumor stage in various cancers&lt;/p&gt;
Recognition of individual Escherichia coli transfer ribonucleic acids by 1-adenine-specific methyltransferase from rat liver (1978)

Purified 1-adenine-specific tRNA methyltransferase from rat liver preferentially methylated Escherichia coli tRNA species containing the target adenylate residue in a G-T-psi-C-G-A-A-U-C sequence. The results of methylation of various tRNA species are discussed.
dV/dteffect in high-voltage 4H-SiC thyristors (2005)

The switching of high-voltage (1.5 kV) 4H-SiC thyristors by the dV/dt effect has been investigated for the first time in the temperature range from 300 to 504 K. At a rise time of the forward bias V(t) equal to 30 ns, the characteristic bias at which the structure under investigation can be switched on by the dV/dt effect decreases steadily from 289 V at room temperature (dV/dt ~ 9.7 kV µs−1) to 137 V at T = 504 K. The characteristic value of the critical charge per unit area, Qcr, is ~1.9 × 10−7 C cm−2 at room temperature and also decreases steadily as the temperature increases.
A PIN diode controlled dual-tuned MRI RF coil and phased array for multi nuclear imaging (2010)

MR imaging of nuclei other than hydrogen has been used to investigate metabolism in humans and animals. However, MRI observable nuclei other than hydrogen are not as abundant and as a result the image SNR is lower. Dual-tuned radio frequency (RF) coils are developed for these studies in which high-resolution structural images are acquired using hydrogen and metabolic information is acquired by exciting the other nucleus. Using a dual-tuned coil, the experimenter avoids the inconvenience of moving the patient out and replacing the RF coil for imaging different nuclei. This also eliminates image registration problems. However, the common scheme of using trap circuits for dual-tuned operation results in increased coil losses as well as problems in obtaining optimal tuning and matching at both frequencies. Here, a new approach is presented using PIN diodes to switch the coil between two resonance frequencies. This design eliminates the need for the trap circuit and associated losses from the self-resistance of the trap circuit inductors. At the operating frequencies we used, the equivalent series resistance of an inductor is higher than that of the PIN diodes. In order to test the efficacy of this new approach, we first built two surface coils of identical geometry, one with the conventional trap circuits and one with the PIN diode switches. We also studied the performances of both coils when the coils are divided into shorter conductors segments by adding more tuning elements. It is known that dividing the coil into shorter conductor segments helps reduce radiation and electric field losses. We explored this effect for both coils at both operating frequencies. Finally, a dual-tuned receive-only phased array was designed and built with the PIN diode circuit to switch between two resonance frequencies. A conventional dual-tuned birdcage coil was designed and built to transmit RF power. A unique feature of this coil is that the RF power is fed through two separate sets of four ports for more uniform 1H and 23Na excitation. We demonstrated that the performance is significantly improved at both frequencies with the PIN diode switched dual-frequency operation compared to an identical coil with a trap circuit.
LaFA (2009)

Although Regular Expressions (RegExes) have been widely used in network security applications, their inherent complexity often limits the total number of RegExes that can be detected using a single chip for a reasonable throughput. This limit on the number of RegExes impairs the scalability of today's RegEx detection systems. The scalability of existing schemes is generally limited by the traditional per character state processing and state transition detection paradigm. The main focus of existing schemes is in optimizing the number of states and the required transitions, but not the suboptimal character-based detection method. Furthermore, the potential benefits of reduced number of operations and states using out-of-sequence detection methods have not been explored. In this paper, we propose Looka-head Finite Automata (LaFA) to perform scalable RegEx detection using very small amount of memory. LaFA's memory requirement is very small due to the following three areas of effort described in this paper: (1) Different parts of a RegEx, namely RegEx components, are detected using different detectors, each of which is specialized and optimized for the detection of a certain RegEx component. (2) We systematically reorder the RegEx component detection sequence, which provides us with new possibilities for memory optimization. (3) Many redundant states in classical finite automata are identified and eliminated in LaFA. Our simulations show that LaFA requires an order of magnitude less memory compared to today's state-of-the-art RegEx detection systems. A single commodity Field Programmable Gate Array (FPGA) chip can accommodate up to twenty-five thousand (25k) RegExes. Based on the throughput of our LaFA prototype on FPGA, we estimated that a 34-Gbps throughput can be achieved.
Thermally Stable Photopolymers for Electronics. Molecular Design and Performance of Photosensitive Polyimides. (1994)

Fig.1 Indirect patterning of polyimides (left) versus direct patterning with photosensitive polyimide precursor (right) 5).
Entropy label for SPRING tunnels (2018)

Segment Routing (SR) leverages the source routing paradigm. A node
steers a packet through an ordered list of instructions, called
segments. Segment Routing can be applied to the Multi Protocol Label
Switching (MPLS) data plane. Entropy label (EL) is a technique used in
MPLS to improve load-balancing. This document examines and describes
how ELs are to be applied to Segment Routing MPLS.