gebhart/patrepeval huggingface dataset:
Surface enhanced Raman spectroscopy distinguishes amyloid Β‐protein isoforms and conformational states (2018)

Abstract Amyloid β‐protein (Aβ) self‐association is one process linked to the development of Alzheimer's disease (AD). Aβ peptides, including its most abundant forms, Aβ40 and Aβ42, are associated with the two predominant neuropathologic findings in AD, vascular and parenchymal amyloidosis, respectively. Efforts to develop therapies for AD often have focused on understanding and controlling the assembly of these two peptides. An obligate step in these efforts is the monitoring of assembly state. We show here that surface‐enhanced Raman spectroscopy (SERS) coupled with principal component analysis (PCA) readily distinguishes Aβ40 and Aβ42. We show further, through comparison of assembly dependent changes in secondary structure and morphology, that the SERS/PCA approach unambiguously differentiates closely related assembly stages not readily differentiable by circular dichroism spectroscopy, electron microscopy, or other techniques. The high discriminating power of SERS/PCA is based on the rich structural information present in its spectra, which comprises not only on interatomic resonances between covalently associated atoms and hydrogen bond interactions important in controlling secondary structure, but effects of protein orientation relative to the substrate surface. Coupled with the label‐free, single molecule sensitivity of SERS, the approach should prove useful for determining structure activity relationships, suggesting target sites for drug development, and for testing the effects of such drugs on the assembly process. The approach also could be of value in other systems in which assembly dependent changes in protein structure correlate with the formation of toxic peptide assemblies.
Effective Area of a Receiving Antenna in a Lossy Medium (2009)

The effective area for a receiving antenna in a lossy medium is derived by solving a receiving problem of an insulated Hertzian dipole with its gain obtained beforehand. As a result, the effective area in a general medium is found to be the product of the gain and pi/Re[omegaradic{epsivmu*}] <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> . The latter term becomes same as the previous formula, pi/Re[omegaradic{epsivmu}] <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> =4pi/lambda <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> when the medium is only electrically or magnetically lossy. A simulation result of power transmission between two insulated small dipoles validates the theory.
Revisiting Crohn's disease as a primary immunodeficiency of macrophages (2009)

Despite two decades of mouse immunology and human genetics studies, the pathogenesis of Crohn's disease (CD) remains elusive. New clinical investigations suggest that CD may be caused by inborn errors of macrophages. These errors may result in impaired attraction of granulocytes to the gut wall, causing impaired clearance of intruding bacteria, thereby precipitating the formation of granulomas. This theory paves the way for a macrophage-based Mendelian genetic dissection of CD.
Low-power CMOS digital design (1992)

Motivated by emerging battery-operated applications that demand intensive computation in portable environments, techniques are investigated which reduce power consumption in CMOS digital circuits while maintaining computational throughput. Techniques for low-power operation are shown which use the lowest possible supply voltage coupled with architectural, logic style, circuit, and technology optimizations. An architecturally based scaling strategy is presented which indicates that the optimum voltage is much lower than that determined by other scaling considerations. This optimum is achieved by trading increased silicon area for reduced power consumption.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Social content authoring with no &#x201C;social traps&#x201D; (2013)

We are currently building a content authoring system, and we present in this paper some preliminary ideas based on which the system is being developed. The proposed system takes advantages of key aspects that made online content platforms succeed (such as Wikipedia). These aspects, such as immediacy of positive outcome, are then combined with social motivators and social organization enablers via a digital social networking framework. The resulting environment enables, encourages and rewards authoring of higher quality content in academic institutions.
Pylorus-Preserving Total Pancreatectomy (2001)

Total pancreatectomy with preservation of the pylorus is a feasible type of resection for all types of pancreatic or ampullary tumors, which shows a similar morbidity and long-term survival but improved nutritional recovery compared with standard total pancreatectomy.
Wavelength-stabilized Laser Source For Dense Wavelength-division Multiplexing (2005)

Dense wavelength-division multiplexing (WDM.) systems with channel spacings of 100 GHz require laser sources with wavelength stability better than 10 Ghz over a 20-year useful equipment life.
Environmental remediation of heavy metal ions from aqueous solution through hydrogel adsorption: a critical review (2015)

Heavy metal ions such as Cd(2+), Pb(2+), Cu(2+), Mg(2+), and Hg(2+) from industrial waste water constitute a major cause of pollution for ground water sources. These ions are toxic to man and aquatic life as well, and should be removed from wastewater before disposal. Various treatment technologies have been reported to remediate the potential toxic elements from aqueous media, such as adsorption, precipitation and coagulation. Most of these technologies are associated with some shortcomings, and challenges in terms of applicability, effectiveness and cost. However, adsorption techniques have the capability of effectively removing heavy metals at very low concentration (1-100 mg/L). Various adsorbents have been reported in the literature for this purpose, including, to a lesser extent, the use of hydrogel adsorbents for heavy metal removal in aqueous phase. Here, we provide an in-depth perspective on the design, application and efficiency of hydrogel systems as adsorbents.
Therapeutic genome engineering via <scp>CRISPR</scp>‐Cas systems (2017)

Differences in genomes underlie most organismal diversity, and aberrations in genomes underlie many disease states. With the growing knowledge of the genetic and pathogenic basis of human disease, development of safe and efficient platforms for genome and epigenome engineering will transform our ability to therapeutically target human diseases and also potentially engineer disease resistance. In this regard, the recent advent of clustered regularly interspaced short palindromic repeats (CRISPR)-CRISPR-associated (Cas) RNA-guided nuclease systems have transformed our ability to target nucleic acids. Here we review therapeutic genome engineering applications with a specific focus on the CRISPR-Cas toolsets. We summarize past and current work, and also outline key challenges and future directions. WIREs Syst Biol Med 2017, 9:e1380. doi: 10.1002/wsbm.1380 For further resources related to this article, please visit the WIREs website.
Retrovirus mediated in vivo gene transfer to synovium in bacterial cell wall-induced arthritis in rats. (1995)

Gene therapy may provide an effective alternative to conventional approaches for treating rheumatoid arthritis. Direct in vivo gene delivery to synovium has a distinct advantage with respect to clinical use. To date, retroviral vectors are the best studied constructs for gene delivery, and almost all approved gene therapy trials in humans rely on retroviral vectors. However, the applicability of retroviral transduction is limited by requirement for cell division, and attempts to transduce normal synovium in situ using retroviral vectors are reported to fail. The present study was undertaken in order to investigate susceptibility of inflamed synovium to retroviral infection in vivo. Using an experimental model of bacterial cell wall (BCW)-induced arthritis in rats, we attempted two approaches for delivery of retroviral vectors to synovium. In the first approach, recombinant retroviral vectors carrying reporter genes lacZ and neo were directly injected into inflamed rat ankle joints. Alternatively, inflamed joints were inoculated with gamma-irradiated murine retroviral vector-producing packaging cells. We found that about 1% of cells in explants from joints inoculated with packaging cells were lacZ-neo-positive. The lacZ+ neo+ cells in joint explants proliferated in culture and were of rat origin as determined using species-specific polymerase chain reaction (PCR) analysis. There was no evidence of transduction in explants from joints directly injected with retroviral vectors or from contralateral, control joints. These findings show that arthritic joints have a population of cells susceptible to retroviral infection in situ and demonstrate the possibility of using retroviral vectors for direct gene delivery to inflamed synovium.
Cell Population Kinetics of the Rhabdomyosarcoma R1H of the Rat after Single Doses of X-rays (1990)

The kinetics of depopulation and repopulation of the solid transplantable rhabdomyosarcoma R1H of the rat following local irradiation with single subcurative X-ray doses of 7.5, 15 and 30 Gy was studied. Several parameters were sequentially measured over a time interval of 4 weeks after irradiation: the ratio of the number of tumour to host cells, and the cellular DNA content of tumour and host cells, were determined by flow cytometry; the amount of DNA per gram of tumour tissue was determined biochemically; the clonogenic fraction of tumour cells was obtained from in vitro colony assay; and the tumour volume was assessed by in situ caliper measurements. From the amount of DNA per gram and the average DNA content per cell, the total number of cells per gram of tumour tissue was obtained. From this and the other parameters measured, the number of clonogenic tumour cells, non-clonogenic tumour cells and nucleated host cells per tumour, as well as their variation with time and dose, could be derived. The results showed that there was a lag period prior to depopulation amounting to 3.8 +/- 1.4, 1.4 +/- 0.8 or 0 +/- 0.7 days for 7.5, 15 or 30 Gy, respectively. The rate of depopulation of non-clonogenic tumour cells increased with dose; the halving times of non-clonogens were 4.7 +/- 1.8, 2.6 +/- 0.7 or 2.1 +/- 0.4 days for the three doses applied. There were no indications that proliferation of doomed cells contributed significantly to tumour growth after irradiation. After lag periods that were similar in length to those prior to depopulation, a massive immigration of host cells was observed. Under certain conditions more than 97 per cent of the cells present in irradiated tumours were found to be of host origin. There was a lag period before the onset of repopulation by clonogenic tumour cells, the length of which increased from 2.7 +/- 0.7 to 5.0 +/- 0.8 or 6.3 +/- 1.0 days for 7.5, 15 or 30 Gy, respectively. The initial rate of repopulation increased with radiation dose; after the end of the lag period the doubling time of clonogenic tumour cells (in controls amounting to 3.7 +/- 0.2 days) was 3.1 +/- 0.1, 2.1 +/- 0.1 and 1.1 +/- 0.1 days for the three doses applied.(ABSTRACT TRUNCATED AT 400 WORDS)
Optimizing the Compound-Reflector Framing Spotlight (1978)

For many years, framing spotlights have been designed following a tradition of using elliptical-reflector systems. The deficiencies of such light-collecting systems have been analyzed, as have those of the lens systems used, the framing shutters, and the useful life span of color media exposed to the high radiant-energy concentrations in those spotlights. A compound reflector is described which far surpasses the light collecting efficiency of the earlier designs. Also, a vari-focal lens system has been incorporated, permitting variable field coverage with a single lighting unit. An improved framing shutter and its design, construction materials and location are described. To protect the color media used with this spotlight, the distribution of the radiant energy has been evened out over the area of the color gel. The harmful infrared radiation is kept away from the fragile filter material and it is directed toward a heat sink through the use of a hot mirror. Methods for measuring the deterioration speed of a color gel exposed to a high-intensity source have been developed and are described. In the new design, the useful life span of the color media employed is greatly increased. A complete description of the design of the new framing spotlight and of the action of its compound reflector is given.
The regulation of the ADAMTS4 and ADAMTS5 aggrecanases in osteoarthritis: a review. (2008)

Destruction of articular cartilage is a key feature of a number of arthritides, osteoarthritis prominent among them. Aggrecan degradation, caused by increased activity of proteolytic enzymes that degrade macromolecules in the cartilage extracellular matrix, is followed by irreversible collagen degradation. The degradation of aggrecan is mediated by various matrix proteinases, mainly the aggrecanases, multidomain metalloproteinases belonging to the ADAMTS (a disintegrin and metalloproteinase with thrombospondin motifs) family. There has been much interest in the possible role of these aggrecanases, mainly ADAMTS4 and ADAMTS5, as therapeutic targets in osteoarthritis. There is still debate which of them is the major aggrecanase in osteoarthritis, however, as well as major issues concerning how they are regulated, with possible discrepancies between murine models and results obtained using human osteoarthritis tissue. This review discusses some recent data regarding the regulation of ADAMTS4 and ADAMTS5 gene expression in osteoarthritis, with emphasis on the role of proinflammatory cytokines in driving these enzymes, and of the transcription factor NFkappaB in mediating their expression.
Nitrone Oder Anile? (1957)

Abstract Die Einwirkung von p ‐Nitroso‐dialkylanilin auf 2‐ und 4‐Picolin‐jodmethylat ist grundsätzlich verschieden von der Nitron‐Bildung aus N ‐Methylen‐pyridini‐umsalzen. Sie führt, wie eine einfache Methode der Abtrennung von Nitronen in Anil/Nitron‐Gemischen zeigt, überwiegend zu Anilen, auch wenn man die Nitron‐Bildung begünstigt.
Calculating potentials of mean force and diffusion coefficients from nonequilibrium processes without Jarzynski’s equality (2006)

In general, the direct application of the Jarzynski equality (JE) to reconstruct potentials of mean force (PMFs) from a small number of nonequilibrium unidirectional steered molecular-dynamics (SMD) paths is hindered by the lack of sampling of extremely rare paths with negative dissipative work. Such trajectories that transiently violate the second law of thermodynamics are crucial for the validity of JE. As a solution to this daunting problem, we propose a simple and efficient method, referred to as the FR method, for calculating simultaneously both the PMF U(z) and the corresponding diffusion coefficient D(z) along a reaction coordinate z for a classical many-particle system by employing a small number of fast SMD pullings in both forward (F) and time reverse (R) directions, without invoking JE. By employing Crooks [Phys. Rev. E 61, 2361 (2000)] transient fluctuation theorem (that is more general than JE) and the stiff-spring approximation, we show that (i) the mean dissipative work W(d) in the F and R pullings is the same, (ii) both U(z) and W(d) can be expressed in terms of the easily calculable mean work of the F and R processes, and (iii) D(z) can be expressed in terms of the slope of W(d). To test its viability, the FR method is applied to determine U(z) and D(z) of single-file water molecules in single-walled carbon nanotubes (SWNTs). The obtained U(z) is found to be in very good agreement with the results from other PMF calculation methods, e.g., umbrella sampling. Finally, U(z) and D(z) are used as input in a stochastic model, based on the Fokker-Planck equation, for describing water transport through SWNTs on a mesoscopic time scale that in general is inaccessible to MD simulations.
Electron beam characteristics of the 50-MeV racetrack microtron (1992)

Electron beams in the MM50 racetrack microtron are generated by computer controlled scanning of a well-focused electron pencil beam. The treatment head is optimized to give a minimum of scatter between the source position and the collimator plane by a general minimization of all scattering material in the beam and by replacement of the air in the treatment head by helium, which has a much lower linear scattering power than air. A double-focused multileaf collimator with a 31-cm collimator to patient distance is used both for electron and photon collimation. In general, no extra electron collimation is needed for the standard SSD of 100 cm. To make irregular field collimation at a distance this far from the patient possible, a number of requirements have to be fulfilled regarding the virtual source position and the spatial and angular distribution of the initial electron beam. The virtual source position has been found to be at a fixed position for different irradiation parameters. This is important for the use of the light field in electron beam treatment but also for achieving a high degree of accuracy in the dosimetry. Scatter from the multileaf collimator has not been found to give any significant contribution to the radiation field or to the monitor output factor of the MM50. Experimental dose distribution data on the MM50 have been compared to data both from other types of treatment units and to Monte Carlo simulations.
Sorting cells by their density (2017)

Sorting cells by their type is an important capability in biological research and medical diagnostics. However, most cell sorting techniques rely on labels or tags, which may have limited availability and specificity. Sorting different cell types by their different physical properties is an attractive alternative to labels because all cells intrinsically have these physical properties. But some physical properties, like cell size, vary significantly from cell to cell within a cell type; this makes it difficult to identify and sort cells based on their sizes alone. In this work we continuously sort different cells types by their density, a physical property with much lower cell-to-cell variation within a cell type (and therefore greater potential to discriminate different cell types) than other physical properties. We accomplish this using a 3D-printed microfluidic chip containing a horizontal flowing micron-scale density gradient. As cells flow through the chip, Earth's gravity makes each cell move vertically to the point where the cell's density matches the surrounding fluid's density. When the horizontal channel then splits, cells with different densities are routed to different outlets. As a proof of concept, we use our density sorter chip to sort polymer microbeads by their material (polyethylene and polystyrene) and blood cells by their type (white blood cells and red blood cells). The chip enriches the fraction of white blood cells in a blood sample from 0.1% (in whole blood) to nearly 98% (in the output of the chip), a 1000x enrichment. Any researcher with access to a 3D printer can easily replicate our density sorter chip and use it in their own research using the design files provided as online Supporting Information. Additionally, researchers can simulate the performance of a density sorter chip in their own applications using the Python-based simulation software that accompanies this work. The simplicity, resolution, and throughput of this technique make it suitable for isolating even rare cell types in complex biological samples, in a wide variety of different research and clinical applications.
Catalytic Hydrogenation of Esters. Development of an Efficient Catalyst and Processes for Synthesising (<i>R</i>)-1,2-Propanediol and 2-(<i>l</i>-Menthoxy)ethanol (2011)

A ruthenium catalyst for the reduction of esters by hydrogenation has been developed. Processes for the hydrogenation of esters have also been developed for (R)-1,2-propanediol and 2-(l-menthoxy)ethanol. The catalyst shows good catalytic activity for the hydrogenation of esters in methanol. Methyl lactate was reduced at 30 °C and gave turnover numbers (TON) up to 4000. The optical purity of the (R)-1,2-propanediol made by the hydrogenation of methyl (R)-lactate was higher than that via the asymmetric hydrogenation of hydroxyacetone. A hydrogenation process to replace the lithium aluminum hydride (LAH) reduction used in the production of 2-(l-menthoxy)ethanol was developed.
Sexual desirability and sexual performance: Does exercise and fitness really matter? (2004)

Both DDx systems IsabelHealth and Memem7 provided substantial help in finding a helpful list of differential diagnoses or identifying the target diagnosis either in standard cases or complicated and rare cases. Our pilot study highlights the need for different levels of complexity and types of real-world medical test cases, as there are significant differences between DDx generators away from traditional case reports. Combining different results from DDx generators seems to be a possible approach for future review and use of the systems.
Process Intensification in Ammonia Synthesis Using Novel Coassembled Supported Microporous Catalysts Promoted by Nonthermal Plasma (2016)

The Integrated Process Intensification approach is used for the synthesis of ammonia using novel coassembled microporous silica supported nickel catalysts and nonthermal plasma reactors operating at ca. 140 ± 10 °C and ambient pressure. The conversion levels of nitrogen and hydrogen to ammonia are similar to that achieved by the current industrial best practice which is, however, carried out at 100–250 bar and the temperatures 350–550 °C. In order to achieve continuous plasma generation, a novel catalyst, which has a surface area of ca. 200 m2/g in the form of lamellae with ca. 2 nm thick plates of nickel catalyst sandwiched between the silica support, has been used in the presence of plasma catalysis promoters in the form of spheres made from high permittivity material. In addition to process variables (flow rate, feed composition, and plasma power input), the effect of the electrode configuration on conversion was investigated. It is shown that the catalyst activity remained constant over a continuous period of 72 h when the reaction was terminated.