gebhart/patrepeval huggingface dataset:
<i>Aspergillus calidoustus</i> sp. nov., Causative Agent of Human Infections Previously Assigned to <i>Aspergillus ustus</i> (2008)

Aspergillus ustus is a relatively rare human pathogen causing invasive infections in immunocompromised hosts. In this study isolates originating from clinical and other sources have been examined using molecular, morphological, and physiological approaches to clarify their species assignment. Phylogenetic analysis of partial beta-tubulin, calmodulin, actin, and intergenic transcribed spacer sequences indicated that none of the clinical isolates recognized previously as A. ustus belongs to this species. All but two of these isolates formed a well-defined clade related to A. pseudodeflectus based on sequence analysis of protein-coding regions. Morphological and physiological examination of these isolates indicated that they are able to grow above 37 degrees C, in contrast with A. ustus isolates, and give a positive Ehrlich reaction, in contrast with related species including A. granulosus, A. ustus, and A. pseudodeflectus. These isolates are proposed as a new species, A. calidoustus. Antifungal susceptibility testing showed that this species has decreased susceptibilities to several antifungal drugs. The triazoles are inactive in vitro, including the new azole posaconazole.
Autonomous Locator of Thermals (ALOFT) Autonomous Soaring Algorithm (2015)

Abstract : The Autonomous Locator of Thermals (ALOFT) algorithm goal was to develop an algorithm which could exploit naturally occurring convective thermal updrafts for extending the endurance of an unmanned aerial vehicle (UAV). A commercial off-the-shelf SBXC sailplane was outfitted as a UAV and used for more than 100 test flights of the ALOFT algorithm, with a nominal endurance of 3 minutes after a winch-launch to 100 meters. A notable success was unofficially breaking the cross-country soaring goal-and-return world record by flying 60.4 total miles over approximately 4.55 hours. Best endurance demonstrated by the algorithm was 5.3 hours and best range demonstrated by the algorithm was 70.47 miles. This report documents the final ALOFT software algorithms developed, to capture the most important implementation details and mathematical formulas. Specifically, the soaring algorithm is divided into four major functions: reading state data from the autopilot, identifying the position and other characteristics of a nearby thermal, making soaring behavioral decisions, and sending soaring commands to the autopilot.
Automated segmentation of recuts abdominis muscle using shape model in X-ray CT images (2011)

Our purpose in this study is to segment the rectus abdominis muscle region in X-ray CT images, and we propose a novel recognition method based on the shape model. In this method, three steps are included in the segmentation process. The first is to generate a shape model for the rectus abdominis muscle. The second is to recognize anatomical feature points corresponding to the origin and insertion of the muscle, and the third is to segment the rectus abdominis muscles based on the shape model. We generated the shape model from 20 CT cases and tested the model to recognize the muscle in 20 other CT cases. The average values for the Jaccard similarity coefficient (JSC) and true segmentation coefficient (TSC) were 0.841 and 0.863, respectively. The results suggest the validity of the model-based segmentation for the rectus abdominis muscle.
On a wold-like decomposition of 2-D discrete random fields (2002)

Imposing a total-order on a two-dimensional discrete homogeneous random field induces an orthogonal decomposition of the random field into two components: a purely indeterministic field and a deterministic one. The purely indeterministic component is shown to have a two-dimensional white-innovations driven MA representation. The two-dimensional deterministic random field can be perfectly predicted from the field's past samples. This field is further orthogonally decomposed into a purely deterministic field that represents the remote past of the field and can thus be perfectly predicted given enough arbitrarily located data samples, and an evanescent component. The evanescent component can be further decomposed into a remote columnwise past component and a column-to-column renewal field.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Coarse grained reconfigurable architectures in the past 25 years: Overview and classification (2016)

Reconfigurable architectures become more popular now general purpose compute performance does not increase as rapidly as before. Field programmable gate arrays are slowly moving into the direction of Coarse Grain Reconfigurable Architectures (CGRA) by adding DSP and other coarse grained IP blocks, general purpose processors become more heterogeneous and include sub-word parallelism and even some reconfigurable logic. In the past 25 years, several CGRAs have been published. In this paper an overview and classification of these architectures is presented. This work also provides a clear definition of CGRAs and identifies topics for future research which are key to unlock the full potential of CGRAs.
Technical Change and the Aggregate Production Function (1957)

В статье производится анализ агрегированной производственной функции, вводится аппарат, позволяющий различать движение вдоль такой функции от ее сдвигов. На основании сделанных в статье предположений делаются выводы о характере технического прогресса и технологических изменений. Существенное внимание уделяется вариантам применения концепции агрегированной производственной функции.
Prolonged release of iloprost enhances pulpal blood flow and dentin bridge formation in a rat model of mechanical tooth pulp exposure (2019)

The aim of this study was to investigate the effect of prolonged release of iloprost, a prostacyclin analog, on angiogenesis and dental pulp healing in a rat model of mechanical pulp exposure. The profile of iloprost release from poly (lactic-co-glycolic) acid (PLGA) microspheres was evaluated, and expression of vascular endothelial growth factor (VEGF) mRNA was determined. The molars of rats were subjected to mechanical pulp exposure and 5 different forms of treatment: Ca(OH)<sub>2</sub>, PLGA (blank), iloprost, and iloprost/PLGA. Blood flow was determined at 0, 3, and 7 days using laser Doppler flowmetry. After 30 days, the tooth specimens were collected, and subjected to micro-CT and immunohistological analysis. The results showed that iloprost release from the microspheres was prolonged for 4 days, and that the treatment increased tooth blood flow for up to 7 days. At 30 days, an increase of mineralized tissue formation and dentin bridge formation was observed in the iloprost and iloprost/PLGA microsphere groups. VEGF expression was significantly increased in the iloprost/PLGA microsphere group relative to the other groups. In conclusion, this PLGA microsphere iloprost delivery system significantly increased dental pulp blood flow in a prolonged manner and increased tertiary dentin formation in this rat pulp injury model. Prolonged prostacyclin release could be a potentially useful approach for regeneration of dental pulp.
Evidence that the novel microorganism 'Z' may belong to a new genus in the family Chlamydiaceae (1995)

The purpose of this study was to investigate possible phylogenetic relationships of a new microorganism called 'Z'.The organism was previously shown to be similar to chiamydia in its growth cycle and some of its metabolic requirements, but different in others and in its major outer membrane protein.In this study we report the sequencing of 'Z"s 16s ribosomal DNA and comparison of the sequence with that of other microorganisms, including chlamydia and rickettsiae.While chlamydial species have 95.5% sequence identity among themselves, 'Z' had 83% identity with them, and 73% identity with certain rickettsia-like organisms.Based on the sequence analyses and taking into account physiologic considerations, we believe that 'Z' may belong to a novel genus in the family Chlamydiaceae.
A Dual Needle Piezoelectric Micromanipulator for the Scanning Electron Microscope (1972)

A three-stage micromanipulator for the scanning electron microscope (SEM) is described incorporating coarse and fine mechanical drives and a very fine piezoelectric drive which can independently position two separate probes. Each piezoelectric drive has an accuracy of 0.1 μ over a range of 100 μ in each of three directions and a very rapid response. They are mounted near the specimen on a 9.5 mm diam rod the position of which is controlled by the mechanical drives which operate outside the vacuum. The rod and piezoelectric drives can be retracted into the airlock for easy removal. The fine mechanical drive is composed of three feedback-controlled motor-driven differential screws which have a range of 1.25 mm and an accuracy of 3 μ. The coarse drives are manually driven and have a range of 1 cm and an accuracy of 0.1 mm. Joysticks control coordinated motions in the plane of the SEM image for both the piezoelectric drives and the fine mechanical drive. Preliminary results in the microdissection of biological tissue are described.
Microbiological Synthesis of Carotenoids: Pathways and Regulation (2018)

Carotenoids are naturally produced by plants, algae, and some bacteria and fungi, fulfilling functions as accessory photosynthetic pigments and antioxidants. Among carotenoids, the xanthophyll astaxanthin stands out for its antioxidant and nutraceutical properties, which are beneficial to human health, and also for its use in the aquaculture industry as nutritional supplement of salmonid fish. Many studies have focused on the search of natural sources of astaxanthin as an alternative production that guarantees the beneficial properties of this compound. In nature, few astaxanthin-producing organisms are known, being the microalgae Haematococcus pluvialis and the yeast Xanthophyllomyces dendrorhous the most promising microbiological systems for the biotechnological production of this carotenoid. In this chapter, we describe the carotenogenic pathways in these microorganisms and the proposed carotenogenesis regulation mechanisms. As an example, the influence of the carbon source, the regulation by catabolic repression and by sterols in the carotenogenesis in the yeast X. dendrorhous is described.
Mobility, Miscibility, and Microdomain Structure in Nanostructured Thermoset Blends of Epoxy Resin and Amphiphilic Poly(ethylene oxide)-<i>b</i><i>lock</i>-poly(propylene oxide)-<i>b</i><i>lock</i>-poly(ethylene oxide) Triblock Copolymers Characterized by Solid-State NMR (2005)

Solid-state NMR methods were used to characterize the heterogeneous dynamics, miscibility, and microdomain structure in nanostructured thermoset blends of epoxy resin (ER) and amphiphilic poly(ethylene oxide)-block-poly(propylene oxide)-block-poly(ethylene oxide) triblock copolymers (PEO−PPO−PEO). NMR experiments show that there is a distinct dynamic difference between the block copolymer (both PEO and PPO) and cured-ER matrix indicating the presence of phase separation, which also confirms the existence of the interphase region including a considerable amount of immobilized PEO and mobilized partially cured ER. An improved method based on spin-diffusion experiments enabled a quantitative determination of the interphase thickness. It is shown that a large percentage of PEO were intimately mixed with ER in the interphase region of the blends, while the rest mobile PEO and all PPO segregated from the ER network. It is observed that the domain size and long period depend strongly on the PEO fraction in the copolymers, whereas the interphase thickness of the blends is not sensitive to the PEO fraction. These NMR results unambiguously demonstrated that PEO blocks were only partially miscible with cured-ER network. Upon curing, the cross-linked rigid ER formed a separated microphase, while some PEO were locally expelled out of the cured-ER network and forms another microphase with PPO. The residual immobilized PEO were intimately mixed with some partially cured-ER matrix and formed the interphase region.
Attenuation of the programmed cell death-1 pathway increases the M1 polarization of macrophages induced by zymosan (2016)

Programmed cell death-1 (PD-1) is a member of the CD28 superfamily that delivers negative signals on interaction with its 2 ligands, PD-L1 and PD-L2. We assessed the contribution of the PD-1 pathway to regulating the polarization of macrophages that promote inflammation induced by zymosan. We found that PD-1(-/-) mice developed robust peritonitis with more abundant infiltration of M1 macrophages, accompanied by higher levels of pro-inflammation factors, especially monocyte chemotactic protein-1 (MCP-1) compared with wild-type controls ex vivo and in vitro. Our results indicated that PD-1 deficiency promotes M1 rather than M2 polarization of macrophages by enhancing the expression of p-STAT1/p-NF-κB p65 and downregulating p-STAT6. We found that PD-1 engagement followed by zymosan stimulation might primarily attenuate the phosphorylation of tyrosine residue in PD-1 receptor/ligand and the recruitment of SHP-2 to PD-1 receptor/ligand, leading to the reduction of M1 type cytokine production.
High acetylene/ethylene separation in a microporous zinc(<scp>ii</scp>) metal–organic framework with low binding energy (2015)

A novel zinc(II) metal-organic framework UTSA-67a with narrow one-dimensional (1D) pore channels and inner cages of moderate size has been developed for highly selective separation of C2H2/C2H4 mixtures at room temperature.
Novel inhibitors of prolyl 4-hydroxylase (1992)

A series of 5-acyl sulfonamides derived from pyridine-2,5-dicarboxylic acid (15) has been prepared and several members of this series have been shown to be more potent, in vitro, as inhibitors of prolyl 4-hydroxylase than 15. Several chain-extended pyridinedicarboxylic acids have also been prepared and shown to be potent inhibitors of prolyl 4-hydroxylase. The structure-activity in both these series is discussed. The results indicate that the 5-carboxylic acid binding site, in the enzyme, can accept a carboxylic acid or an acyl sulfonamide equally well. This indicates a much greater degree of freedom in this distal carboxylic acid binding site than is predicted by the current theoretical model of the active site.
Energy Efficient Exact Matching for Flow Identification with Cuckoo Affinity Hashing (2014)

Energy efficiency has become an important design goal for networking equipment. Traditionally routers and switches have been designed to minimize peak power consumption but they operate most of the time with settings and traffic that is far from that peak. Therefore, many elements and functions of networking equipment are being redesigned to improve energy efficiency. A common functionality in networking is flow identification that is needed in many applications. Flow identification can be implemented with Content Addressable Memories (CAMs) or alternatively with several data structures. Among those, one efficient option is Cuckoo hashing that enables fast searches and high memory utilization at the cost of complicating the insertion procedure. In this letter, first the energy efficiency of exact matching using Cuckoo hashing is analyzed and then a technique is presented to improve the energy efficiency of Cuckoo hashing. The proposed scheme is evaluated using a traffic monitoring application and compared with the traditional Cuckoo hashing. The results show that significant energy savings can be obtained by using the proposed technique.
Automated tutoring dialogues for training in shipboard damage control (2001)

This paper describes an application of state-of-the-art spoken language technology (OAA/Gemini/Nuance) to a new problem domain: engaging students in automated tutorial dialogues in order to evaluate and improve their performance in a training simulator.
Beta lactam antibiotic monotherapy versus beta lactam-aminoglycoside antibiotic combination therapy for sepsis (2014)

The addition of an aminoglycoside to beta lactams for sepsis should be discouraged. All-cause mortality rates are unchanged. Combination treatment carries a significant risk of nephrotoxicity.
Differential responses of Coffea arabica L. leaves and roots to chemically induced systemic acquired resistance (2006)

Coffea arabica is susceptible to several pests and diseases, some of which affect the leaves and roots. Systemic acquired resistance (SAR) is the main defence mechanism activated in plants in response to pathogen attack. Here, we report the effects of benzo(1,2,3)thiadiazole-7-carbothioic acid-S-methyl ester (BTH), a SAR chemical inducer, on the expression profile of C. arabica. Two cDNA libraries were constructed from the mRNA isolated from leaves and embryonic roots to create 1587 nonredundant expressed sequence tags (ESTs). We developed a cDNA microarray containing 1506 ESTs from the leaves and embryonic roots, and 48 NBS-LRR (nucleotide-binding site leucine-rich repeat) gene fragments derived from 2 specific genomic libraries. Competitive hybridization between untreated and BTH-treated leaves resulted in 55 genes that were significantly overexpressed and 16 genes that were significantly underexpressed. In the roots, 37 and 42 genes were over and underexpressed, respectively. A general shift in metabolism from housekeeping to defence occurred in the leaves and roots after BTH treatment. We observed a systemic increase in pathogenesis-related protein synthesis, in the oxidative burst, and in the cell wall strengthening processes. Moreover, responses in the roots and leaves varied significantly.
Neuropsychiatric Manifestations of Human Leukocyte Interferon Therapy in Patients With Cancer (1984)

The conditions of ten patients with metastatic renal cell carcinoma were serially evaluated by neuropsychiatric examination to determine the nature of the fatigue-asthenia symptoms resulting from human leukocyte interferon alpha therapy. The majority of the patients had moderate to severe behavioral changes and mild to moderate cognitive, affective, and personality changes within the first week of daily intramuscular administration of 3 X 10(6) units of interferon. This descriptive clinical study suggests that the intense fatigue may be a manifestation of a complex neurotoxicity, most suggestive of frontal lobe changes, and resulting in neurasthenia syndrome with reversible impairment of some higher mental functions.
Detection and Classification of Volatile Organic Amines and Carboxylic Acids Using Arrays of Carbon Black-Dendrimer Composite Vapor Detectors (2005)

Carbon black-insulator composite chemiresistive vapor detectors have been prepared using dendrimers as the polymeric constituent of the composite. Amino-terminated dendrimer-carbon black composites exhibited an enhancement in detection sensitivity of ∼103 for volatile carboxylic acids as compared to nondendrimeric insulating polymer-carbon black composites. Similarly, protonated carboxylato-terminated and protonated amino-terminated dendrimer-carbon black composites showed an ∼103−104 increase in sensitivity for detection of volatile amines relative to the response of nondendrimeric insulating polymer-carbon black composites. The protonated amino-terminated dendrimer carbon black composite detectors exhibited a signal-to-noise ratio (S/N) of 22.4 ± 0.9 upon exposure to 2.7 ppb of butylamine in air, whereas poly(ethylene oxide)-carbon black composites exhibited a S/N of 3.5 ± 1.2 at 54 ppm of butylamine. The protonated amino-terminated dendrimer-carbon black detectors additionally exhibited relatively small responses to water vapor. Compositional diversity in an array of protonated amino-terminated dendrimeric vapor detectors was obtained by varying the type and generation of the dendrimer, and the type and concentration of the acid dopant. Fifteen analytes chosen from primary amines, branched amines, anilines, and non-amine organic analyte vapors were all robustly discriminated from each other by their different response patterns on the dendrimer-containing detector array. The signals produced by these 15 analytes additionally clustered into groups based on the chemical class of the analyte.
Altered distribution of plectin/HD1 in dystrophinopathies. (1997)

Plectin/HD1 is a high molecular weight protein (approximately 500 kDa) that has been proposed to act as an important and versatile cytoskeletal cross-linker molecule. Mutations of the human plectin gene have recently been associated with the autosomal recessive disorder epidermolysis bullosa simplex with muscular dystrophy. We studied the expression of plectin/HD1 in various neuromuscular disorders by indirect immunofluorescence. In cross sections of normal human muscle, plectin/HD1 showed a checkerboard-like distribution with moderate to intense cytoplasmic and sarcolemmal staining in type 1 fibers and a faint staining of the sarcolemma in type 2 fibers. In longitudinal sections of plectin/HD1-positive fibers a cross-striation staining pattern was noted. This fiber type-related expression was significantly altered in the group of dystrophinopathies, whereas it was maintained in all other myopathies and denervating disorders. In seven dystrophinopathies studied, a markedly increased plectin/HD1 immunoreactivity at the sarcolemmal level of type 2 fibers was observed. Confocal laser microscopy of normal skeletal muscle revealed a colocalization of desmin and plectin/HD1 at the level of the sarcolemma. This suggests that plectin/HD1- in analogy to its demonstrated involvement in cytokeratin-hemidesmosome linkage in epidermis-may mediate the anchorage of desmin to the sarcolemma (i.e. to costameres).
Protein clustering in chemically stressed HeLa cells studied by infrared nanospectroscopy (2016)

Photo-Thermal Induced Resonance (PTIR) nanospectroscopy, tuned towards amide-I absorption, was used to study the distribution of proteic material in 34 different HeLa cells, of which 18 were chemically stressed by oxidative stress with Na<sub>3</sub>AsO<sub>3</sub>. The cell nucleus was found to provide a weaker amide-I signal than the surrounding cytoplasm, while the strongest PTIR signal comes from the perinuclear region. AFM topography shows that the cells exposed to oxidative stress undergo a volume reduction with respect to the control cells, through an accumulation of the proteic material around and above the nucleus. This is confirmed by the PTIR maps of the cytoplasm, where the pixels providing a high amide-I signal were identified with a space resolution of ∼300 × 300 nm. By analyzing their distribution with two different statistical procedures we found that the probability to find protein clusters smaller than 0.6 μm in the cytoplasm of stressed HeLa cells is higher by 35% than in the control cells. These results indicate that it is possible to study proteic clustering within single cells by label-free optical nanospectroscopy.