gebhart/patrepeval huggingface dataset:
Single-Photon Avalanche Diode with Enhanced NIR-Sensitivity for Automotive LIDAR Systems (2016)

A single-photon avalanche diode (SPAD) with enhanced near-infrared (NIR) sensitivity has been developed, based on 0.18 μm CMOS technology, for use in future automotive light detection and ranging (LIDAR) systems. The newly proposed SPAD operating in Geiger mode achieves a high NIR photon detection efficiency (PDE) without compromising the fill factor (FF) and a low breakdown voltage of approximately 20.5 V. These properties are obtained by employing two custom layers that are designed to provide a full-depletion layer with a high electric field profile. Experimental evaluation of the proposed SPAD reveals an FF of 33.1% and a PDE of 19.4% at 870 nm, which is the laser wavelength of our LIDAR system. The dark count rate (DCR) measurements shows that DCR levels of the proposed SPAD have a small effect on the ranging performance, even if the worst DCR (12.7 kcps) SPAD among the test samples is used. Furthermore, with an eye toward vehicle installations, the DCR is measured over a wide temperature range of 25-132 °C. The ranging experiment demonstrates that target distances are successfully measured in the distance range of 50-180 cm.
The Relations Between Expiratory Chest CT Using Helical CT and Pulmonary Function Tests in Emphysema (1997)

Chest computed tomography (CT) and pulmonary function tests are usually used for the evaluation of emphysema. We performed the present study to evaluate more accurately the relationship between the degree of morphological change and the functional abnormality in emphysema. We used a helical CT apparatus to obtain the CT images both at full inspiration and full expiration. We classed the degree of emphysema into 5 grades (0-4) by visual observation on CT image obtained at the two levels, upper and lower fields, on each side. We assigned each of these grades a visual score. We also calculated the average ratio of CT numbers of each of the lung fields at full expiration to that at full inspiration for each level. We designated this the E/I ratio. We then examined the relationship between the findings acquired by each of these two methods and pulmonary function test results. The visual score showed correlations with FEV1(% predicted) (-0.592, p < 0.0001), RV/TLC(%)(0.425, p < 0.025), and DL(CO)/VA(% predicted)(-0.538, p < 0.0001). The E/I ratio showed correlations with FEV1(% predicted) (-0.620, p < 0.0001), RV/TLC(%)(0.661, p < 0.0001), and DL(CO)/VA(% predicted) (-0.299, p < 0.05). Compared with the E/I ratio, the visual score showed much higher correlation with DL(CO)/VA(% predicted), but the E/I ratio showed stronger correlation with RV/TLC(%) than did the visual score. The visual score may reflect the degree of emphysema, whereas the E/I ratio reflects the air trapping. These findings suggest that the helical CT is useful in the evaluation of emphysematous changes and that the E/I ratio reflects the air trapping.
PKCALC: A Basic Interactive Computer Program for Statistical and Pharmacokinetic Analysis of Data (1986)

PKCALC, an interactive computer program written in BASIC, facilitates: initial statistical analysis of multisubject data sets, pharmacokinetic analysis of experimental data, transfer of data between commercially available electronic spread-sheets (e.g., LOTUS 123) and the pharmacokinetic programs ESTRIP and PCNONLIN, and rapid preparation of graphs of data. Concentration versus time data can be entered into the program manually, from a data interchange format (DIF) file, or from a data file previously generated by PKCALC. The program has a main menu listing nine options. These include, but are not limited to, setting up a data file which can subsequently be read by PCNONLIN, chaining to a copy of ESTRIP augmented to read PKCALC data files, stripping curves manually, and utilizing the CRT and a line printer to graph polyexponential equations and/or subject data on linear or semilogarithmic axes. PKCALC runs on the IBM PC, IBM XT, IBM AT, and COMPAQ personal computers.
One-pot synthesis of monodisperse iron oxide nanoparticles for potential biomedical applications (2006)

Abstract One-pot reaction of iron(III) acetylacetonate, Fe(acac) 3 , [or Fe(acac) 3 and M(acac) 2 where M = Mn and Co], with 1,2-alkanediol, oleic acid, and oleylamine in high boiling organic solvent leads to monodisperse ferrite MFe 2 O 4 nanoparticles. Depending on the concentration of the metal precursors, surfactant-to-metal precursor ratio and the solvent used in the reaction, the particle size from this one-pot reaction can be tuned from 4 to 15 nm. The as-synthesized iron oxide nanoparticles have an inverse spinel structure, and their magnetic properties are controlled by particle size and M in the MFe 2 O 4 structure. The hydrophobic iron oxide nanoparticles are readily transformed into hydrophilic ones by functional phospholipid addition to the as-synthesized particles and as a result, the monodisperse nanoparticles are readily functionalized with biotin, -COOH, -SH, and -NH 2 , facilitating their link to biomolecules for biomedical applications.
Studies on semi-synthetic 7.ALPHA.-formamidocephalosporins. III. Synthesis and antibacterial activity of some 7.BETA.-(D-2-(aryl)-2-((4-ethyl-2,3-dioxopiperazin-1-yl)-carbonylamino)acetamido)-7.ALPHA.-formamido-ceph-3-em-4-carboxylate derivatives. (1987)

The synthesis and antibacterial activity of 7 beta-[D-2-(aryl)-2-[(4-ethyl-2,3-dioxopiperazin-1-yl) carbonylamino] acetamido]-7 alpha-formamidocephalosporins with various substituents at the C-3 position of the cephalosporin nucleus is described. Inhibition of Gram-positive and Gram-negative bacteria including beta-lactamase producing strains was observed with phenyl as the aryl residue. The 3,4-dihydroxyphenyl group further enhanced the activity against Gram-negative organisms; in this series, the 3-[(1-methyl-1H-tetrazol-5-yl)thiomethyl] and 3-[(1-carboxymethyl-1H-tetrazol-5-yl)thiomethyl] analogues (2 and 12b) exhibited exceptional activity against Gram-negative bacteria, including Pseudomonas aeruginosa.
Angiogenesis defects and mesenchymal apoptosis in mice lacking SMAD5 (1999)

The transforming growth factor-beta (TGF-beta) signals are mediated by a family of at least nine SMAD proteins, of which SMAD5 is thought to relay signals of the bone morphogenetic protein (BMP) pathway. To investigate the role of SMAD5 during vertebrate development and tumorigenesis, we disrupted the Smad5 gene by homologous recombination. We showed that Smad5 was expressed predominantly in mesenchyme and somites during embryogenesis, and in many tissues of the adult. Mice homozygous for the mutation died between days 10.5 and 11.5 of gestation due to defects in angiogenesis. The mutant yolk sacs lacked normal vasculature and had irregularly distributed blood cells, although they contained hematopoietic precursors capable of erythroid differentiation. Smad5 mutant embryos had enlarged blood vessels surrounded by decreased numbers of vascular smooth muscle cells, suffered massive apoptosis of mesenchymal cells, and were unable to direct angiogenesis in vitro. These data suggest that SMAD5 may regulate endothelium-mesenchyme interactions during angiogenesis and that it is essential for mesenchymal survival.
Complex piezoelectric, elastic, and dielectric coefficients of La-DOPED 0.93 Pb(Mg1/3Nb2/3)O3:0.07 PbTiO3under DC bias (1990)

Abstract Complex material parameters (piezoelectric coefficient d31, elastic s11 E, and the dielectric constant K33) of the relaxor ferroelectric ceramic (1−x) Pb(Mg1/3Nb2/3)O3-xPbTiO3(x =.07) with 1% La (lanthanum) were measured as a function of bias field using a bar resonator. The values of the dielectric and piezoelectric phase angles are found to be comparable (i.e., around 0.04 for a d.c. bias field of 2.5 kV/cm), while the elastic phase angle is an order of magnitude smaller (0.001 for the same d.c. bias). For comparison of complex material parameters found from bar resonators, a sample in the form of a small disk is used to measure Poisson's ratio as well as the real components of the piezoelectric and elastic coefficients as a function of bias field.
Differential gene expression profiling of adult murine hematopoietic stem cells (2002)

Hematopoietic stem cells (HSCs) have self-renewal capacity and multilineage developmental potentials. The molecular mechanisms that control the self-renewal of HSCs are still largely unknown. Here, a systematic approach using bioinformatics and array hybridization techniques to analyze gene expression profiles in HSCs is described. To enrich mRNAs predominantly expressed in uncommitted cell lineages, 54 000 cDNA clones generated from a highly enriched population of HSCs and a mixed population of stem and early multipotent progenitor (MPP) cells were arrayed on nylon membranes (macroarray or high-density array), and subtracted with cDNA probes derived from mature lineage cells including spleen, thymus, and bone marrow. Five thousand cDNA clones with very low hybridization signals were selected for sequencing and further analysis using microarrays on glass slides. Two populations of cells, HSCs and MPP cells, were compared for differential gene expression using microarray analysis. HSCs have the ability to self-renew, while MPP cells have lost the capacity for self-renewal. A large number of genes that were differentially expressed by enriched populations of HSCs and MPP cells were identified. These included transcription factors, signaling molecules, and previously unknown genes.
Gelatine-embedded electrodes—a novel biocompatible vehicle allowing implantation of highly flexible microelectrodes (2010)

Chronic neural interfaces that are both structurally and functionally stable inside the brain over years or decades hold great promise to become an invaluable clinical tool in the near future. A key flaw in the current electrode interfaces is that their recording capabilities deteriorate over time, possibly due to the lack of flexibility, which causes movements in relation to the neural tissue that result in small inflammations and loss of electrode function. We have developed a new neural probe using the stabilizing property of gelatine that allows the implantation of ultra-thin and flexible electrodes into the central nervous system. The microglial and astrocytic reactions evoked by implanted gelatine needles, as well as the wire bundles in combination with gelatine, were investigated using immunohistochemistry and fluorescence microscopy up to 12 weeks after implantation. The results indicate that pure gelatine needles were stiff enough to penetrate the brain tissue on their own, and evoked a significantly smaller chronic scar than stab wounds. Moreover, gelatine embedding appeared to reduce the acute reactions caused by the implants and we found no adverse effects of gelatine or gelatine-embedded electrodes. Successful electrophysiological recordings were made from very thin electrodes implanted in this fashion.
Transcriptional Regulation of the Antioxidant Protein 2 Gene, a Thiol-specific Antioxidant, by Lens Epithelium-derived Growth Factor to Protect Cells from Oxidative Stress (2001)

Antioxidant protein 2 (AOP2), a member of the newly defined family of thiol-specific antioxidant proteins, has been shown to remove H(2)O(2) and protect proteins and DNA from oxidative stress. Here we report that LEDGF is one of the regulatory factors for the AOP2 gene. We found that LEDGF bound to the heat shock element and to stress-related elements in the AOP2 promoter. It trans-activated expression of AOP2-CAT in COS-7 cells and lens epithelial cells overexpressing LEDGF. Mutations in the heat shock element and stress-related elements of the AOP2 promoter reduced LEDGF-dependent trans-activation. Lens epithelial cells showed a higher level of AOP2 mRNA in the presence of LEDGF. Cells overexpressing LEDGF exhibited a higher level of AOP2 protein, the level of which was directly related to the increase in cellular protection. Thus, LEDGF, by activating the AOP2 gene, protected and enhanced the survival of cells under oxidative stress.
Quantitative aspects of the mutant analysis by PCR and restriction enzyme cleavage (MAPREC). (1993)

Quantitation of virus revertants by PCR and restriction enzyme cleavage may give nonlinear results and, in some cases, produce artifacts caused by nucleotide misincorporation and heteroduplex formation, occurring during PCR. Modifications of the procedure allowed us to overcome these problems and develop a highly sensitive and reliable method of mutant quantitation. This procedure can be used to assess the quality of live vaccines and to study heterogeneity of viral and bacterial populations.
Body-wide gene therapy of Duchenne muscular dystrophy in the mdx mouse model (2006)

Duchenne muscular dystrophy is an X-linked muscle disease characterized by mutations in the dystrophin gene. Many of these can be corrected at the posttranscriptional level by skipping the mutated exon. We have obtained persistent exon skipping in mdx mice by tail vein injection with an adeno-associated viral (AAV) vector expressing antisense sequences as part of the stable cellular U1 small nuclear RNA. Systemic delivery of the AAV construct resulted in effective body-wide colonization, significant recovery of the functional properties in vivo, and lower creatine kinase serum levels, suggesting an overall decrease in muscle wasting. The transduced muscles rescued dystrophin expression and displayed a significant recovery of function toward the normal values at single muscle fiber level. This approach provides solid bases for a systemic use of AAV-mediated antisense-U1 small nuclear RNA expression for the therapeutic treatment of Duchenne muscular dystrophy.
A paradigm shift in therapeutic vaccination of cancer patients: the need to apply therapeutic vaccination strategies in the preventive setting (2008)

An extraordinary variety of potential therapeutic vaccine strategies directed against a wide variety of tumor antigens has been explored in clinical trials. To date, none of these cancer immunotherapies have been approved by the Food and Drug Administration for use in humans. A significant problem is that the vast majority of such clinical trials are carried out in patients with advanced or metastatic cancer. The immune systems of these patients are considerably compromised as a result of tumor- and treatment-mediated immunosuppression. Even in cases where patients are immunized in the adjuvant setting, where there is minimal residual disease, vaccines directed against tumor-associated antigens have failed to mediate eradication of tumors in the overwhelming majority of cases. Recently, we and others have experimented with administering therapeutic cancer vaccines in the preventive setting. This is achieved by vaccinating at the earliest possible stage of carcinogenesis. These studies have demonstrated that early vaccination is extremely effective in eliciting an anti-tumor immune response that leads to unprecedented improvements in the survival of mice that spontaneously develop cancer. Certain human cancers, notably prostate adenocarcinoma and cervical cancer, can currently be detected at very early stages of carcinogenesis. Therapeutic vaccines are available for these diseases, opening up the possibility of administering vaccinations early to patients diagnosed with pre-malignant lesions to halt disease progression. In addition, new technologies have become available in the past decade that will soon yield very sensitive and specific diagnostic tests for a plethora of other cancers. Earlier detection of these cancers, combined with existing vaccines directed against them, will soon make them targets for therapeutic vaccination in the preventive setting. The ability to immunize patients at the very earliest stages of carcinogenesis, when they have fully competent immune systems, has the potential to cause a paradigm shift in how therapeutic cancer vaccines are tested and used clinically.
Quantification of a radical beam source for methyl radicals (2001)

A radical beam source for methyl radicals (CH3) was characterized applying ionization-threshold mass spectrometry. The beam source is based on thermal dissociation of methane (CH4) or azomethane (N2(CH3)2) in a heated tungsten capillary. A flux of (3±1)×1013 cm−2 s−1 CH3 radicals is produced using methane as precursor gas and a capillary temperature of 1650 K. Alternatively, a flux of (3±1)×1014 cm−2 s−1 CH3 is produced using azomethane as precursor gas and a capillary temperature of 1150 K. The dominant production of methyl from the precursor methane occurs due to reaction 2 CH4+M→2 CH3+H2+M at the hot tungsten surface. The dominant production of methyl from azomethane occurs due to the reaction N2(CH3)2→2 CH3+N2. Besides methyl radicals, only stable molecules contribute to the emitted flux; within the detection limit, no atomic hydrogen is observed. From the comparison of ionization-threshold mass spectrometry and standard mass spectrometry, it is concluded that the cracking pattern of methane varies with the methane gas temperature. This is explained by the vibrational assisted dissociation of methane.
Diode protection of GMR sensors (2011)

Magnetoresistive (MR) sensors are damaged by pulses of the order of a few Volts with a few ns duration. The forward recovery time of diodes used to protect MR sensors can dramatically diminish the protection efficiency of diodes. This paper addresses the short time response of diodes.
Simulation of hot-carrier reliability in MOS integrated circuits (2002)

A software package interfacing to SPICE is developed based on several new or revised models for hot electron studies. For substrate current generation, we present a new model for the characterizing the width of impact ionization region which is channel length and bias dependent. For modeling the hot electron injection into the gate oxide, a revised thermionic emission model is developed. For hot electron induced degradation, previously developed generation-trapping models are used. Good correlations with the experimental and simulation results are obtained. The program can be used to analyze the reliability and the biasing stability of MOS circuits.
Palladium-Catalyzed Asymmetric Synthesis of Allylic Fluorides (2010)

The enantioselective fluorination of readily available cyclic allylic chlorides with AgF has been accomplished using a Pd(0) catalyst and Trost bisphosphine ligand. The reactions proceed with unprecedented ease of operation for Pd-mediated nucleophilic fluorination, allowing access to highly enantioenriched cyclic allylic fluorides that bear diverse functional groups. Evidence that supports a mechanism in which C-F bond formation occurs by an S(N)2-type attack of fluoride on a Pd(II)-allyl intermediate is presented.
Methylation Status of Genes in Papillary Thyroid Carcinoma (2007)

Promoter methylation may be a marker for malignancy in thyroid carcinoma. Furthermore, methylation status of tumors as determined by methylation-specific polymerase chain reaction may help in determining patient prognosis.
The Antioxidant Edaravone Attenuates Pressure Overload–Induced Left Ventricular Hypertrophy (2005)

The free radical scavenger 3-methyl-1-phenyl-2-pyrazolin-5-one (edaravone) is used to treat patients with ischemic brain damage. We and others reported previously that in vitro and in vivo reactive oxygen species (ROS) act as second messengers to develop cardiac hypertrophy. In this study, we used an in vivo murine model of pressure overload-induced cardiac hypertrophy to examine the effects of edaravone on left ventricular hypertrophy. The animals were subjected to the transverse thoracic aorta constriction, and edaravone (10 mg/kg) was infused intraperitoneally twice daily. Seven days after the operation, we observed a significant increase in ROS production in hearts, which was eliminated by the treatment with edaravone. Pressure-overloaded hearts showed a significant increase in left ventricular weight/body weight ratio and the expression level of atrial natriuretic factor mRNA, which were attenuated by edaravone. It also reduced perivascular and intermuscular fibrosis and inhibited pressure overload-induced activation of apoptosis signal-regulating kinase 1 (ASK1) and its downstream kinases of c-Jun N-terminal protein kinase and p38 mitogen-activated protein kinase. Edaravone attenuated the hypertrophic response even when the treatment was started after the onset of cardiac hypertrophic response. These findings indicate that edaravone significantly attenuates pressure overload-induced cardiac hypertrophy mediated through its antioxidative function and subsequent inhibition of ASK1 signaling pathway.
Robust remote data checking (2008)

Remote data checking protocols, such as provable data possession (PDP) [1], allow clients that outsource data to untrusted servers to verify that the server continues to correctly store the data. Through the careful integration of forward error-correcting codes and remote data checking, a system can prove possession with arbitrarily high probability. We formalize this notion in the robust data possession guarantee. We distill the key performance and security requirements for integrating forward error-correcting codes into PDP and describe an encoding scheme and file organization for robust data possession that meets these requirements. We give a detailed analysis of this scheme and build a Monte-Carlo simulation to evaluate tradeoffs in reliability, space overhead, and performance. A practical way to evaluate these tradeoffs is an essential input to system design, allowing the designer to choose the encoding and data checking protocol parameters that realize robust data possession.
Development and Characterization of Tissue-Engineered Aortic Valves (2001)

Tissue-engineered aortic valves, known as recellularized heart valves, were developed by seeding human neonatal fibroblasts onto decellularized, porcine aortic valves. Recellularized heart valves were cultured up to 8 weeks in a novel bioreactor that imposed dynamic pulsatile fluid flow to expose the dermal fibroblasts to mechanical forces. Our data showed that, under static or dynamic flow conditions, dermal fibroblasts attached to and migrated into the decellularized, porcine valve scaffolding. The human cells remained viable as indicated by MTT viability staining. Gradual colonization of the decellularized porcine scaffolding by the human dermal fibroblasts was shown histologically by hematoxylin & eosin staining, immunocytochemically using a monoclonal antibody directed against prolyl-4-hydroxylase (an intracellular enzyme expressed by human fibroblasts synthesizing collagen), and quantitative digital image analyses. Thymidine and proline radiolabeled analog studies at 1, 2 and 4 weeks of individual leaflets cultured statically demonstrated that the human fibroblasts were mitotic and synthesized human extracellular matrix proteins, thereby supplementing the existing porcine matrix. The overall approach results in a heart valve populated with viable human cells. In the development of valves that perform in a similar manner as natural biological structures, this approach may present some unique benefits over current medical therapies.