gebhart/patrepeval huggingface dataset:
Orally bioavailable glutamine antagonist prodrug JHU-083 penetrates mouse brain and suppresses the growth of MYC-driven medulloblastoma (2019)

A subset of poor-prognosis medulloblastoma has genomic amplification of MYC. MYC regulates glutamine metabolism in multiple cellular contexts. We modified the glutamine analog 6-diazo-5-oxo-l-norleucine (DON) to mask its carboxylate and amine functionalities, creating a prodrug termed JHU-083 with increased oral bioavailability. We hypothesized that this prodrug would kill MYC-expressing medulloblastoma. JHU-083 treatment caused decreased growth and increased apoptosis in human MYC-expressing medulloblastoma cell lines. We generated a mouse MYC-driven medulloblastoma model by transforming C57BL/6 mouse cerebellar stem and progenitor cells. When implanted into the brains of C57BL/6 mice, these cells formed large cell/anaplastic tumors that resembled aggressive medulloblastoma. A cell line derived from this model was sensitive to JHU-083 in vitro. Oral administration of JHU-038 led to the accumulation of micromolar concentrations of DON in the mouse brain. JHU-083 treatment significantly increased the survival of immune-competent animals bearing orthotopic tumors formed by the mouse cerebellar stem cell model as well as immune-deficient animals bearing orthotopic tumors formed by a human MYC-amplified medulloblastoma cell line. These data provide pre-clinical justification for the ongoing development and testing of orally bioavailable DON prodrugs for use in medulloblastoma patients.
Acoustic wave devices using periodical poled Z-cut LiTaO<inf>3</inf> plate (2009)

Though acoustic wave devices using a periodical poled Pb(Zi <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">x</sub> , Ti <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1-x</sub> )O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> (PZT) ceramic plate on Si substrate, a periodical poled Pb(Zr <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">0.2</sub> Ti <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">0.8</sub> )O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> thin film on (001)SrTiO <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> substrate, and a periodical poled Z-LiNbO <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> substrate have been reported, their frequency responses were very weak as 0.1 to 3 dB. It is considered that because their periodical poled devices have neither electrode fingers of intergidital transducers (IDTs) nor grating electrode reflectors, they do not have any effective reflection to realize a good frequency response, while conventional SAW devices have them. This time, authors have proposed an effective reflector for the periodical poled substrate device and applied it to a resonator and a resonator filter using a periodical poled Z-plane LiTaO <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> plate, which is different from previously reported substrates. As the result, authors realized the resonator and the resonator filter having good frequency characteristics such as an impedance ratio of 33 dB, and an insertion loss of 2.6 dB and a relative bandwidth of 2.2%, respectively, for the first time.
Performance Analysis of Solar Thermal Powered Supercritical Organic Rankine Cycle Assisted Low-Temperature Multi Effect Desalination Coupled With Mechanical Vapor Compression (2018)

Power and freshwater demand are increasing as populations around the world keep growing. Due to the environmental impact of using fossil fuels and limited resources, using solar thermal in desalination application is a valuable option. In this paper, an innovative new design of low temperature multi-effect desalination coupled with mechanical vapor compression (LT-MED-MVC) powered by supercritical organic Rankine cycle utilizing a low-grade solar heat source using evacuated tube collectors is analyzed. The proposed design has the potential to desalinate water of high salt concentrations or brine with high salinity more than 100,000 ppm or effluent streams from a power plant with low energy consumption and high efficiency when compared to the previously discussed systems. The performance of the LT-MED-MVC was found to be better than similar systems found in the literature. The specific power consumption for MVC is lower than 4 kWh/m3 for seawater feed salinity of 100,000 ppm, 14 forward feed effects, and a recovery rate of 50%. The overall system efficiency is about 14%. The impact of increasing the number of effects, motive steam temperature, pressure of supercritical-ORC and salt concentration on the specific power consumption, solar collector area, and the system efficiency are also analyzed.
Supplementary Table 6 from Comprehensive DNA Methylation Analysis Indicates That Pancreatic Intraepithelial Neoplasia Lesions Are Acinar-Derived and Epigenetically Primed for Carcinogenesis (2023)

&lt;p&gt;Pairwise jsDMRs&lt;/p&gt;
Random Sample From Keratinocytes, Fibroblasts And Melanocytes (2017)

From the ftp genboree.org. Subsample of publicly available data.
Theoretical Study of the Regiochemistry-Determining Step of the Pauson−Khand Reaction (2001)

International audience
Metallocene catalyst containing bulky organic group (2023)

An ionic metallocene catalyst for olefin polymerization which comprises: (1) a cyclopentadienyl-type ligand, a Group IVB transition metal, and alkyl, aryl, or hydride substituents, as a cation, and (2) a weakly coordinating anion comprising boron substituted with halogenated, such as tetra fluoro, aryl substituents preferably containing silylalkyl substitution, such as para-silyl t-butyldimethyl.
Correct Capsid Assembly Mediated by a Conserved YXXLGL Motif in Prototype Foamy Virus Gag Is Essential for Infectivity and Reverse Transcription of the Viral Genome (2007)

Unlike other retrovirus Gag proteins, the prototype foamy virus (PFV) p71(g)(ag) protein is not processed into mature matrix (MA), capsid (CA), and nucleocapsid (NC) subunits. Little information about sequence motifs involved in FV capsid assembly and release is available. The recent analysis of candidate L-domain motifs in PFV Gag identified an evolutionarily conserved YXXL sequence motif with a potential function in capsid assembly. Here we provide support for the hypothesis that this motif does not function like a conventional L domain, by demonstrating that, unlike the PFV Gag PSAP L-domain motif, it cannot be functionally replaced by heterologous L-domain sequences. Furthermore, mutation of individual amino acids Y(464), I(466), L(467), and L(469), but not E(465), to alanine led to reduced particle release and production of noninfectious, aberrant capsid structures, although relative structural protein incorporation and processing were not affected. In contrast, mutation of G(468) to alanine resulted in an intermediate, temperature-sensitive phenotype characterized by reduced particle release and reduced infectivity. Despite similar relative RNA genome incorporation for all mutants, analysis and quantification of particle-associated viral nucleic acids demonstrated defects in genomic reverse transcription for all the noninfectious mutants, a process that, unlike that of orthoretroviruses, in the case of FVs takes place in the virus-producing cell. In correlation with the reduced infectivity, the G(468)A mutant displayed an intermediate level of genomic reverse transcription. Taken together, these results demonstrate that the conserved YXXLGL motif in PFV Gag is involved in correct capsid assembly, which in turn is essential for reverse transcription of the FV genome.
<title>Unidirectional surface-normal waveguide grating couplers for wafer-scale MCM interconnect</title> (1997)

We report the fabrication of tilted gratings on polyimide waveguides. The reported gratings provide an effective unidirectional surface-normal optical couple-in and couple- out for polymer-based optoelectronic interconnects. Such a planarized grating is particularly suitable for wafer-scale MCM optoelectronic interconnects due to its unique non- blocking fanout feature. both surface-normal input and output grating couplers have been demonstrated for the first time on polyimide waveguides on silicon substrate.
Comparison of nBn and nBp mid-wave barrier infrared photodetectors. (2016)

Abstract not provided.
Neuritogenesis on collagen substrates. Involvement of integrin‐like matrix receptors in retinal fibre outgrowth on collagen (1992)

Extracellular matrix molecules such as laminin, fibronectin and collagen promote neurite outgrowth in vitro. We have investigated the capacity of hydrated gels of collagen types I-III and monomeric collagen types I-VI on plastic surfaces to support neuritogenesis. The attachment and survival of explants from the day 6 chick embryo were studied and neurite outgrowth measured as mean elongation rate and maximal neurite length. Collagen types I and III, both as three-dimensional gels or as native monomers supported neuritogenesis equal to or better than laminin. Collagen type V also supported neurite out-growth although less effectively. Collagen types II, IV and VI, as well as denatured collagens of all types tested, did not support outgrowth. The monoclonal anti-beta 1 integrin antibody (CSAT), as well as rabbit polyclonal antibodies directed to the integrin beta 1-chain, effectively inhibited neurite outgrowth on permissive collagenous substrata, indicating that collagen-binding integrins were involved in the neuritogenesis. These beta 1-integrins were independent of Arg-Gly-Asp (RGD) since neurite formation proceeded in the presence of synthetic RGD-containing peptides. Fluorescence immunohistochemistry revealed the presence of the integrin beta 1-chain on the outgrowing neurites. The results suggest a possible function of collagen and collagen-binding integrins in the development of the visual system.
Approaches to the neutralizing antibody problem in HIV vaccine design (2003)

The design of immunogens capable of eliciting broadly neutralizing anti-HIV-1 antibodies is proving difficult. Conserved sites on the envelope (Env) trimer on the surface of virions appear to be only weakly immunogenic. However, a small panel of human monoclonal antibodies (mAbs) that do recognize these sites and broadly neutralize HIV-1 has been identified. We are pursuing an understanding of the interaction of these mAbs with HIV-1 Env at the molecular level. This may promote the design of immunogens capable of eliciting antibodies similar to these mAbs i.e broadly cross-neutralizing. This abstract was published in Cancer Immunity, a Cancer Research Institute journal that ceased publication in 2013 and is now provided online in association with Cancer Immunology Research.
Negative-pressure-induced helimagnetism in ferromagnetic cubic perovskites Sr$_{1-x}$Ba$_{x}$CoO$_{3}$ (2018)

Helimagnetic materials are identified as promising for novel spintronic applications. Since helical spin order is manifested as a compromise of competing magnetic exchange interactions, its emergence is limited by unique constraints imposed by the crystalline lattice and the interaction geometries, as exemplified by the multiferroic perovskite manganites with large orthorhombic distortion. Here we show that a simple cubic perovskite SrCoO$_3$ with room-temperature ferromagnetism has the potential to host helimagnetic order upon isotropic lattice expansion. Increasing the Ba content $x$ in Sr$_{1-x}$Ba$_x$CoO$_3$ continuously expands the cubic lattice, eventually suppressing the ferromagnetic order near $x$=0.4, where helimagnetic correlations are observed as incommensurate diffuse magnetic scattering by neutron diffraction measurements. The emergence of helimagnetism is semi-quantitatively reproduced by first-principles calculations, leading to the conjecture that a simple cubic lattice with strong $d$-$p$ hybridisation can exhibit a variety of novel magnetic phases originating from competing exchange interactions.
Pneumatic Muscle Actuator for Resistive Exercise in Microgravity: Test with a Leg Model (2010)

This study presents a demonstration of a PMA device that can enhance exercise by providing a wide range of resistive loads.
Solution Behavior of Topological Isomers of Poly[11-(4‘-cyanophenyl-4‘ ‘-phenoxy)undecyl acrylate]s Prepared by Atom Transfer and Conventional Radical Polymerizations (2004)

The solution behavior of linear, three-arm star, and comb poly[11-(4‘-cyanophenyl-4‘ ‘-phenoxy)undecyl acrylate]s previously synthesized by atom transfer radical polymerization was investigated by gel permeation chromatography (GPCPSt) and light scattering measurements in CH2Cl2, THF, and CHCl3 in order to correlate their size and shape with their molecular architecture and in order to investigate the extent of branching in the corresponding polymer prepared by conventional radical polymerization. The inaccuracy of the GPCPSt molecular weights increases as the polymers become more branched: linear < three-arm star < comb; the discrepancy between the GPCPSt and absolute molecular weights of polymers fractionated from the conventional radical polymerization is between those of the three-arm star and comb polymers in all three solvents. Light scattering studies demonstrate that CH2Cl2 is the best solvent for all of the polymers, resulting in either no aggregation or an insignificant amount of aggregation, whereas all of the topologies except the comb polymers tend to aggregate in THF and CHCl3; nevertheless, the extent of aggregation is not great enough to be detected by variations in the average GPCLS-determined molecular weights measured in any of these solvents. The tendency to aggregate in all of the solvents and the radius of gyration in CH2Cl2 decrease as the branching increases: linear > three-arm star > comb, with the polymer prepared by conventional radical polymerization being similar to the branched polymers. The scaling coefficients (Rg = KMν) of all of the polymers are similar in CH2Cl2, with ν = 0.37 for the three-arm star polymers, ν = 0.39 for the comb polymers, and ν = 0.32 for the polymer prepared by conventional radical polymerization. The relative values of the contraction factors, g = 〈Rg2〉br/〈Rg2〉lin, decrease in the order gstar > gcomb > gradical for the three-arm star polymers, the comb polymers, and the polymer prepared by conventional radical polymerization, respectively, in CH2Cl2.
Disruption of the gene encoding the secreted acid protease (ACP) in the yeastCandida tropicalis (1992)

The gene for the secreted acid protease (ACP), a potential virulence factor of Candida species, was inactivated in Candida tropicalis by gene disruption. The disruption was performed by cotransformation of an ade2 C. tropicalis mutant with a linear DNA fragment carrying a deletion in ACP, and the replicative vector pMK16 which carries a selectable ADE2 gene marker. Few of the transformants exhibited lower protease secretion levels and were shown to have one deleted and one unaffected ACP copy, since C. tropicalis is a diploid yeast. These transformants were rendered homozygotic for this deletion by mild UV-treatment. One of the homozygotic acp deletion mutants obtained was completely devoid of extracellular protease activity and grew poorly on bovine serum albumin-containing medium. This mutant could be complemented by an ACP fragment inserted in pMK16, but also by an acid protease gene isolated from C. parapsilosis.
Pets as the main source of two zoonotic species of the Trichophyton mentagrophytes complex in Switzerland, Arthroderma vanbreuseghemii and Arthroderma benhamiae (2008)

In cases of highly inflammatory dermatophytosis in humans, it is important to identify the possible source of animal transmission in order to prevent recurrence, family outbreaks or rapidly progressing epidemics. A survey of dermatophytes in pets during a 14-month period in Switzerland revealed, in addition to Microsporum canis, two different species of the Trichophyton mentagrophytes complex, Arthroderma benhamiae and Arthroderma vanbreuseghemii, all causing inflammatory dermatophytoses. Arthroderma benhamiae was only and frequently isolated from guinea pigs. Arthroderma vanbreuseghemii was isolated mainly from European short hair cats, but also from dogs and in one case from a pure-bred cat. Ninety-three percent of the cats carrying A. vanbreuseghemii were hunters and all had skin lesions. In contrast, cats with skin lesions that were strictly indoors were found to be almost exclusively infected by M. canis. Therefore, it can be suspected that infection with A. vanbreuseghemii occurred during hunting and that the natural source of this dermatophyte is either soil or an animal other than the cat, most probably a rodent.
Measuring and Predicting the Extraction Behavior of Biogenic Formic Acid in Biphasic Aqueous/Organic Reaction Mixtures (2017)

The distribution coefficients and selectivities required for extraction purposes were predicted with a thermodynamic equation of state for the ternary system formic acid/water/extraction solvent. These predictions were validated with experimental data from the literature and experimental data from the oxidation of biomass to formic acid process measured in this work. Extraction solvents discussed in this work are 1-butanol, 1-pentanol, 1-hexanol, 1-heptanol, 1-octanol, 1-decanol, ethyl <i>n</i>-butyl ether, diisopropyl ether, di-<i>n</i>-butyl ether, benzyl formate, and heptyl formate. The considered temperature ranged from 273 to 363 K under atmospheric pressure. Perturbed-chain statistical associating fluid theory (PC-SAFT) was used for prediction purposes applying an approach as simple as possible and as complex as necessary to achieve trustworthy data for selecting the best extraction solvent. Using PC-SAFT allowed identifying 1-hexanol as the most promising solvent out of the 11 extraction agents. The predicted data were in good agreement with the experimental distribution coefficients and the selectivities, which are very sensitive to experimental uncertainties.
Beyond the AlGaN/GaN HEMT: new concepts for high‐speed transistors (2009)

Abstract Solid state power amplifiers operating at mm‐ and sub‐mm‐wave frequencies are key components of numerous communication, sensors and defense systems. Nitride semiconductors have the potential to provide unprecedented levels of power at these frequencies. However, a multidimensional design and optimization is required to achieve acceptable levels of power gain and efficiency at high frequencies. In this paper we discuss some of the main challenges to increase the operating frequency of nitride transistors. New solutions are proposed to increase the electron confinement, electron velocity and access resistances of deeply scaled devices (Abstract figure) and to unleash their great potential. (© 2009 WILEY‐VCH Verlag GmbH &amp; Co. KGaA, Weinheim)
Fiber frequency combs (2007)

Optical frequency comb systems have received much attention in recent years due to their enormous potential in optical frequency metrology and optical frequency synthesis applications. The expected transition to optical time standards, attosecond lasers and optical electron accelerators will all rely on the availability of rugged and stable frequency comb lasers, combining superior performance with utility. Fiber laser based frequency combs have a number of advantages over their Ti:sapphire cousins in that they are more compact, are capable of turnkey, long-term operation with power consumption, are compatible with existing fiber optics, and cover the telecommunication window. The first fiber-frequency comb systems showed excellent long-term performance but the short term performance was inferior to Ti:sapphire combs due to excess noise contribution. However, recently it was shown that the linewidth of the individual comb limes of a fiber frequency comb can reach the sub-Hertz level and fiber frequency combs are now approaching the performance of Ti:sapphire based systems.
A 13C NMR study of the interactions of Ag13CN and Ag(CN)2– with thiomalic acid, L‐methionine and DL‐selenomethionine (2005)

Complexation of Ag + as AgNO 3 , solid AgCN and Ag(CN) 2 – by labeled and unlabeled L‐methionine, DL‐selenomethionine and d,l‐thiomalate were studied by nuclear magnetic resonance methods. The 13 C NMR indicates that only Ag + react with the both L‐methionine, DL‐selenomethionine at neutral and higher pH via CO 2 – and S or Se atom forming a chelate. The Ag(CN) 2 – and AgCN do not bind to either of these two ligands at any pH. The Ag 13 CN, which is an insoluble polymer, can react with thiomalate to form chelate complexes at neutral pH. Various structures for the chelate formations are proposed.
Analysis and quantification of device spectral signatures observed using a spectroscopic photon emission microscope (2002)

Two normalisation methods have been introduced for the analysis and quantification of device spectral signatures obtained from the spectroscopic photon emission microscope (SPEMS). The parameter: /spl lambda//sub 1.0/ and /spl lambda//sub 50%/, having clear spectral distribution for different devices or mechanisms involved, were found to be useful in device failure analysis. It is also found that these wavelength parameters are dependent on the internal electric fields of the device. Hence, these can be used as an alternative method of monitoring electric fields in devices.
Cache Sensitive Instruction Scheduling (2001)

The processor speeds continue to improve at a faster rate than the memory&#13;\naccess times. The issue of data locality is still unsolved, and continues to&#13;\nbe a problem given the widening gap between processor speeds and memory&#13;\naccess times. Compiler research has chosen to address this problem in many&#13;\ndirections including source code transformations of loops, static data&#13;\nreorganization, dynamic data&#13;\nreorganization, and optimized instruction scheduling. This paper presents&#13;\nCache Sensitive Scheduling(CSS). CSS is an instruction scheduling algorithm&#13;\nthat relies on a rank function to choose operations in the proper order. The&#13;\nCSS rank function is built on the latency of the operation, the impact of&#13;\nthis operation on other&#13;\noperations in the program, and the latency of operations that this operation&#13;\nis dependent on in some way. Our premise is based on the hypothesis that&#13;\ncareful scheduling of load instructions can increase ILP and decrease&#13;\nexecution times by overlaying the latency of load instructions with other&#13;\nuseful instructions. This is particular useful on EPIC and VLIW types of&#13;\nmachines, where increased ILP is always a benefit. Our rank function is&#13;\ndesigned to find these opportunities and&#13;\nexploit them. We will show that these techniques can be used to improve the&#13;\nperformance of programs with a range of memory access patterns spanning the&#13;\nregular to irregular.
Supplementary Figure 2 from STC1 Expression By Cancer-Associated Fibroblasts Drives Metastasis of Colorectal Cancer (2023)

&lt;p&gt;PDF file - 1263K, PDGF-dependent stimulation by MEFs of colon cancer cell invasion. STC1-dependent stimulation by fibroblasts of colon cancer cell migration.&lt;/p&gt;