gebhart/patrepeval huggingface dataset:
Microfabrication and in Vivo Performance of a Microdialysis Probe with Embedded Membrane (2016)

Microdialysis sampling is an essential tool for in vivo neurochemical monitoring. Conventional dialysis probes are over 220 μm in diameter and have limited flexibility in design because they are made by assembly using preformed membranes. The probe size constrains spatial resolution and governs the amount of tissue damaged caused by probe insertion. To overcome these limitations, we have developed a method to microfabricate probes in Si that are 45 μm thick × 180 μm wide. The probes contain a buried, U-shaped channel that is 30 μm deep × 60 μm wide and terminates in ports for external connection. A 4 mm length of the probe is covered with a 5 μm thick nanoporous membrane. The membrane was microfabricated by deep reactive ion etching through a porous aluminum oxide layer. The microfabricated probe has cross-sectional area that is 79% less than that of the smallest conventional microdialysis probes. The probes yield 2-20% relative recovery at 100 nL/min perfusion rate for a variety of small molecules. The probe was successfully tested in vivo by sampling from the striatum of live rats. Fractions were collected at 20 min intervals (2 μL) before and after an intraperitoneal injection of 5 mg/kg amphetamine. Analysis of fractions by liquid chromatography-mass spectrometry revealed reliable detection of 14 neurochemicals, including dopamine and acetylcholine, at basal conditions. Amphetamine evoked a 43-fold rise in dopamine, a result nearly identical to a conventional dialysis probe in the same animal. The microfabricated probes have potential for sampling with higher spatial resolution and less tissue disruption than conventional probes. It may also be possible to add functionality to the probes by integrating other components, such as electrodes, optics, and additional channels.
Expression of transduced genes in mice generated by infecting blastocysts with avian leukosis virus-based retroviral vectors. (1996)

Transgenic mouse lines have been developed that express the tv-a receptor under the control of the chicken beta-actin promoter. These mice express the tv-a receptor in most or all tissues and in the early embryo. An avian leukosis virus (ALV)-based retroviral vector system was used for the efficient delivery of genes into preimplantation mouse embryos from these transgenic lines. Experimental animals could be generated quickly and easily by infecting susceptible blastocysts with ALV-based retroviral vectors. Expression of the delivered genes was controlled by either the constitutive viral promoter contained in the long terminal repeat or an internal nonviral tissue-specific promoter. Mating the infected founder chimeric animals produced animals that carry the ALV provirus as a transgene. A subset of the integrated proviruses expressed the chloramphenicol acetyltransferase reporter gene from either the promoter in the long terminal repeat or an internal promoter, which we believe indicates that many of the sites that are accessible to viral DNA insertion in preimplantation embryos are incompatible with expression in older animals. This approach should prove useful for studies on murine cell lineage and development, providing models for studying oncogenesis, and testing gene therapy strategies.
Resonator fiber optic gyro with high backscatter-error suppression using two independent phase-locked lasers (2015)

A resonator fiber optic gyro was constructed using separate lasers for counter-rotating waves to overcome interference between optical backscatter and signal light that causes dead-zone behavior and scale factor nonlinearity. This approach enabled a 2 MHz frequency separation between waves in the resonator; eliminating the intended backscatter error. The two lasers were phase-locked to prevent increased gyro noise due to laser frequency noise. Dead-band-free operation near zero-rate, scale factor linearity of 25 ppm and stability of 11 ppm were demonstrated ─ the closest results to navigation-grade performance reported to date. The approach is also free of impractical frequency shifter technology.
Prompt identification of weak transmission lines regarding voltage collapse (2002)

In this paper, a practical and simple approach for finding the weakest power transmission line in a power system is proposed to be used. This is the P-Q curve idea. One can create the P-Q curve for each transmission line. The minimal distance from the steady state point to the P-Q boundary curve may be treated as the degree of the voltage security at a given transmission line. Additionally, using the P-Q curves, one can calculate the probability of branch voltage collapse for uniformly distributed active and reactive powers.
Recent advances in erbium doped fiber amplifiers at 1.5 µm (1990)

Optical amplifiers will be key components for increasing the versatility of optical fiber communications as in-line multichannel repeaters and preamplifiers.1 Since the early investigation of Nd doped fiber amplifiers,2,3 developments in vapor-phase techniques for fiber fabrication4 led to a renewed interest in a large variety of rare earth doped fiber devices.5 In particular, Er doped fibers, amplifiers, and lasers operating around 1.54 µm (Ref. 6) gained increasing attention as new devices for optical communications in the 1.5-Mm communication window.7,8 Our purpose is to outline the state of the art of Er doped fiber amplifiers (EDFAs) and review the current device issues.
Photoinduced fluorination of hexafluoropropene trimers: synthesis of branched perfluoroalkanes (1990)

Hexafluoropropene trimers, perfluoro-3-ethyl-2,4-dimethylpent-2-ene (1) and perfluoro-3-isopropyl-4-methylpent-2-ene (2) reacted with fluorine under u.v. irradiation to give the new and highly branched perfluoroalkanes perfluoro-2,3,3,4-tetramethylpentane (7) and perfluoro-2,3,4- trimethylpentane (8) through a mechanism involving the elimination–readdition of CF3 groups. Compound (7), which is very bulky, can be easily cleaved at <200 °C to give two perfluoro radicals capable of initiating the polymerization of vinylic monomers.
Magnetic Surgical Instruments for Robotic Abdominal Surgery (2016)

This review looks at the implementation of magnetic-based approaches in surgical instruments for abdominal surgeries. As abdominal surgical techniques advance toward minimizing surgical trauma, surgical instruments are enhanced to support such an objective through the exploration of magnetic-based systems. With this design approach, surgical devices are given the capabilities to be fully inserted intraabdominally to achieve access to all abdominal quadrants, without the conventional rigid link connection with the external unit. The variety of intraabdominal surgical devices are anchored, guided, and actuated by external units, with power and torque transmitted across the abdominal wall through magnetic linkage. This addresses many constraints encountered by conventional laparoscopic tools, such as loss of triangulation, fulcrum effect, and loss/lack of dexterity for surgical tasks. Design requirements of clinical considerations to aid the successful development of magnetic surgical instruments, are also discussed.
Acoustic radiation stress in solids (1986)

It is shown that the radiation-induced static strains associated with acoustic waves propagating in solids are obtained directly from the virial theorem for an elastic continuum and that the radiation stresses result from combining the virial theorem with the Boltzmann-Ehrenfest principle of adiabatic invariance. The experimental confirmation of critical theoretical predictions in solids is reported. The implications of the results for the fundamental thermal properties of crystals are addressed.
Role of microRNA in CB1 antagonist–mediated regulation of adipose tissue macrophage polarization and chemotaxis during diet-induced obesity (2019)

Although cannabinoid receptor 1 (CB1) antagonists have been shown to attenuate diet-induced obesity (DIO) and associated inflammation, the precise molecular mechanisms involved are not clear. In the current study, we investigated the role of microRNA (miR) in the regulation of adipose tissue macrophage (ATM) phenotype following treatment of DIO mice with the CB1 antagonist SR141716A. DIO mice were fed high-fat diet (HFD) for 12 weeks and then treated daily with SR141716A (10 mg/kg) for 4 weeks while continuing HFD. Treated mice experienced weight loss, persistent reduction in fat mass, improvements in metabolic profile, and decreased adipose inflammation. CB1 blockade resulted in down-regulation of several miRs in ATMs, including the miR-466 family and miR-762. Reduced expression of the miR-466 family led to induction of anti-inflammatory M2 transcription factors KLF4 and STAT6, whereas down-regulation of miR-762 promoted induction of AGAP-2, a negative regulator of the neuroimmune retention cues, Netrin-1 and its coreceptor UNC5B. Furthermore, treatment of primary macrophages with SR141716A up-regulated KLF4 and STAT6, reduced secretion of Netrin-1, and increased migration toward the lymph node chemoattractant CCL19. These studies demonstrate for the first time that CB1 receptor blockade attenuates DIO-associated inflammation through alterations in ATM miR expression that promote M2 ATM polarization and macrophage egress from adipose tissue. The current study also identifies additional novel therapeutic targets for diet-induced obesity and metabolic disorder.
Identification of Monosaccharide Derivatives as Potent, Selective, and Orally Bioavailable Inhibitors of Human and Mouse Galectin-3 (2022)

Galectin-3 (Gal-3), a member of the β-galactoside-binding protein family, is implicated in a wide variety of human diseases. Identification of Gal-3 inhibitors with the right combination of potency (against both human and mouse Gal-3) and pharmacokinetic properties to fully evaluate the potential of Gal-3 for therapeutic intervention has been a major challenge due to the characteristics of its binding pocket: high hydrophilicity and key structural differences between human Gal-3 and the mouse ortholog. We report the discovery of a novel series of monosaccharide-based, highly potent, and orally bioavailable inhibitors of human and mouse Gal-3. The novel monosaccharide derivatives proved to be selective for Gal-3, the only member of the chimeric type of galectins, over Gal-1 and Gal-9, representative of the prototype and tandem-repeat type of galectins, respectively. The proposed binding mode for the newly identified ligands was confirmed by an X-ray cocrystal structure of a representative analogue bound to Gal-3 protein.
MAGfect: a novel liposome formulation for MRI labelling and visualization of cells (2006)

Cellular entry of imaging probes, such as contrast agents for magnetic resonance imaging (MRI), is a key requirement for many molecular imaging studies, particularly imaging intracellular events and cell tracking. Here, we describe the successful development and in vitro analysis of MAGfect, a novel liposome formulation containing a lipidic gadolinium contrast agent for MRI, Gd-DOTA-Chol , designed to enter and label cells. Liposome formulation and cell incubation time were optimised for maximum cellular uptake of the imaging probe in a variety of cell lines. MRI analysis of cells incubated with MAGfect showed them to be highly MRI active. This formulation was examined further for cytotoxicity, cell viability and mechanism of cell labelling. One of the key advantages of using MAGfect as a labelling vehicle arises from its potential for additional functions, such as concomitant drug or gene delivery and fluorescent labelling. The gadolinium liposome was found to be an effective vehicle for transport of plasmid DNA (pDNA) into cells and expression levels were comparable to the commercial transfection agent Trojene.
Graph theory-based feeder automation logic for low-end controller application (2009)

This paper presents a graph theory-based feeder automation logic that is applicable to the low-end feeder automation controller, including programmable logic controllers (PLCs) and intelligent electronic devices (IEDs). IEC 61131-3 standard PLC programming languages are used to implement the entire logic engine in SoftPLC programming environment. This logic engine can provide following functions required by the real-time feeder automation application: (1) a dynamic update of the system configuration and the load profile and (2) a generic logic for fault location detection, fault isolation, and power restoration after the occurrence of a permanent fault in the distribution network. The logic engine implemented using PLC languages enables the low-end controller to perform complex feeder automation functions and facilitates end users (usually field electrical engineers) to easily understand and customize the logic. In addition, the SoftPLC technique makes the logic engine development independent of any proprietary PLC or IED hardware. The proposed feeder automation logic is demonstrated by example distribution feeder systems.
Column parallel vision system (CPV) for high-speed 2D image analysis (2001)

In order to overcome the limitation of the image processing speed of the conventional video camera system, we have designed and constructed a column parallel vision (CPV) system. The CPV system realizes an intelligent and general purpose image processing capability with higher frame rate within 1 millisecond (i.e. 1000 frames/s). The system mainly consists of three parts; a sensing unit, a parallel processing unit and a control unit. The sensing unit has a 128x128 photodiode (PD) array, 128-column parallel amplifier array and A/D converter array to achieve high-speed frame rate and has been integrated in a CMOS chip. The parallel processing unit is composed of fully 128x128 processing elements (PEs) to perform a real-time image processing. The control unit has functions of PD/PE control and interface to the host computer. We have confirmed that the CPV system can process general image processing functions within a few ten microseconds. We have also demonstrated that the system can be worked as a tracking system with high-speed feedback loop and have evaluated the accuracy of the position calculation for the desired target.
Abstract 3253: Novel oxindole inhibitors of Aurora A kinase: Structure based hit-to-lead approach (2011)

Abstract The M-phase of cell division is controlled by phosphorylation events performed by several mitotic serine/threonine kinases. For example, the three human isoforms of Aurora kinase (A, B, and C) have been amply investigated as they are essential for the execution of numerous mitotic events and required for genome integrity and stability. Studies have shown that Aurora A and B are frequently over-expressed in various cancer cells. Aurora A also acts as an oncogene inducing malignant transformation when over-expressed. Since the discovery of the Aurora kinases and their association with cancer, there has been great interest in developing small molecule inhibitors of Aurora kinases as potential anticancer drugs.In-house screening campaign directed toward the discovery of novel Aurora A inhibitors, led to the identification of a new and potent class of oxindole derivatives as inhibitors of Aurora-A kinase. The initial hit HL1-058-1 was identified as an inhibitor of histone H3-Ser10 phosphorylation (IC50 1-5 μM). By using a Z’-lyte kinase assay kit, the inhibitory effect of HL1-058-1 was shown to be the direct consequence of the Aurora kinase inhibition (IC50 of 2.7 ± 0.3 µM). Based on the preliminary data, HL1-058-1 was selected for further study. Synthesis of a focused library of analogs based on this hit revealed RPM305 and RPM304 as potent inhibitors of Aurora A (IC50 0.020 ± 0.005 μM, and 0.038 ± 0.018 μM, respectively). Interestingly, compound RPM304 showed 26 fold selectivity over Aurora B (IC50 0.99 ± 0.08 μM). A coupled enzyme assay was also used to carry out further structure activity relationship studies of the most potent analogs. One of the lead compounds was co-crystallized with the kinase domain of Aurora A. The design and synthesis of further focused libraries of oxindoles, based on this X-ray structure will be described. Details of the cell activity of this class of compound to inhibit Aurora A activity and tumor cell growth will be described. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 102nd Annual Meeting of the American Association for Cancer Research; 2011 Apr 2-6; Orlando, FL. Philadelphia (PA): AACR; Cancer Res 2011;71(8 Suppl):Abstract nr 3253. doi:10.1158/1538-7445.AM2011-3253
Thirdhand smoke causes DNA damage in human cells (2013)

Exposure to thirdhand smoke (THS) is a newly described health risk. Evidence supports its widespread presence in indoor environments. However, its genotoxic potential, a critical aspect in risk assessment, is virtually untested. An important characteristic of THS is its ability to undergo chemical transformations during aging periods, as demonstrated in a recent study showing that sorbed nicotine reacts with the indoor pollutant nitrous acid (HONO) to form tobacco-specific nitrosamines (TSNAs) such as 4-(methylnitrosamino)-4-(3-pyridyl)butanal (NNA) and 4-(methylnitrosamino)-1-(3-pyridyl)-1-butanone (NNK). The goal of this study was to assess the genotoxicity of THS in human cell lines using two in vitro assays. THS was generated in laboratory systems that simulated short (acute)- and long (chronic)-term exposures. Analysis by liquid chromatography-tandem mass spectrometry quantified TSNAs and common tobacco alkaloids in extracts of THS that had sorbed onto cellulose substrates. Exposure of human HepG2 cells to either acute or chronic THS for 24h resulted in significant increases in DNA strand breaks in the alkaline Comet assay. Cell cultures exposed to NNA alone showed significantly higher levels of DNA damage in the same assay. NNA is absent in freshly emitted secondhand smoke, but it is the main TSNA formed in THS when nicotine reacts with HONO long after smoking takes place. The long amplicon-quantitative PCR assay quantified significantly higher levels of oxidative DNA damage in hypoxanthine phosphoribosyltransferase 1 (HPRT) and polymerase β (POLB) genes of cultured human cells exposed to chronic THS for 24h compared with untreated cells, suggesting that THS exposure is related to increased oxidative stress and could be an important contributing factor in THS-mediated toxicity. The findings of this study demonstrate for the first time that exposure to THS is genotoxic in human cell lines.
Optical evaluation of indium gallium arsenide phosphide double-heterostructure material for injection lasers (1983)

Optical methods used for evaluation of InGaAsP double-heterostructure (DH) material are described. The photoluminescence (PL) efficiency of the active layer in DH wafers and its spatial variation are shown to be correlated with the threshold current density of the broad area lasers processed from the corresponding wafers. The simultaneous measurement of the PL signal and the transmitted intensity of the excitation source through the active layer is a useful technique for monitoring imperfection in the active layer. The sheet conductivity of the epitaxial p layers and p-n junction misplacement can be determined from the variation of the PL signal as a function of the power of the optical pump source. In addition, conventional spectrally and spatially resolved PL indicates the compositional homogeneity and the doping concentration of the active layer. In general, we find the 1.06-μm yttrium aluminum garnet (YAG) laser to be a most convenient tool for evaluation of InGaAsP DH material.
Cloning allergen-specific antibody fragments (Fabs); tools for allergen standardization and therapy of type I allergy. (1997)

Recombinant allergens have made it possible to dissect the mechanisms of allergen-antibody interactions at a molecular level. It becomes clear that monoclonal human IgG antibodies as well as animal derived antibodies can block the interaction of specific IgE antibodies as well as the allergen induced allergic effector reaction. Using PCR technology and combinatorial plasmid vectors, recombinant antibody fragments can be produced and it has even become possible to isolate allergen-specific IgE Fabs out of combinatorial IgE libraries constructed from allergic patients lymphocytes. Recombinant Fabs will represent useful tools to study the IgE-allergen interaction as well as for the standardization of allergen extracts and quantitative allergen measurements. Moreover, allergen-specific recombinant Fabs which block the allergen-IgE interaction have to be considered as tools for local therapy in effector organs of allergic patients.
An Efficient Production Process for Extracting Salivary Glands from Mosquitoes (2019)

Malaria is the one of the leading causes of morbidity and mortality in many developing countries. The development of a highly effective and readily deployable vaccine represents a major goal for world health. There has been recent progress in developing a clinically effective vaccine manufactured using Plasmodium falciparum sporozoites (PfSPZ) extracted from the salivary glands of Anopheles sp. Mosquitoes. The harvesting of PfSPZ requires dissection of the mosquito and manual removal of the salivary glands from each mosquito by trained technicians. While PfSPZ-based vaccines have shown highly promising results, the process of dissection of salivary glands is tedious and labor intensive. We propose a mechanical device that will greatly increase the rate of mosquito dissection and deskill the process to make malaria vaccines more affordable and more readily available. This device consists of several components: a sorting stage in which the mosquitoes are sorted into slots, a cutting stage in which the heads are removed, and a squeezing stage in which the salivary glands are extracted and collected. This method allows mosquitoes to be dissected twenty at a time instead of one by one as previously done and significantly reduces the dissection time per mosquito.
A cluster of highly polymorphic dinucleotide repeats in intron 17b of the cystic fibrosis transmembrane conductance regulator (CFTR) gene. (1991)

A cluster of highly polymorphic dinucleotide repeats has been detected in intron 17b of the CFTR gene, 200 bp downstream from the preceding exon. At least 24 alleles, with sizes ranging from 7 to 56 units of a TA repeat, have been identified in a panel of 92 unrelated carriers of cystic fibrosis (CF). The common ones are those with 7, 30, and 31 dinucleotide units, with frequencies of .22, .19, and .12, respectively, among the non-CF chromosomes. Mendelian, codominant segregation of the alleles has been demonstrated in family studies, as expected. A less polymorphic dinucleotide (CA repeat) cluster has also been detected in a region 167 bp downstream from the TA repeat. The length of the CA repeat cluster varies from 11 to 17 dinucleotide units, and it appears to have an inverse relationship to that of the TA repeats. These dinucleotide repeats should be useful in genetic linkage studies, in counseling for CF families with unknown mutations, and in tracing the origins of the various mutant CF alleles.