gebhart/patrepeval huggingface dataset:
Genome Sequencing and Comparative Transcriptomics of the Model Entomopathogenic Fungi Metarhizium anisopliae and M. acridum (2011)

Metarhizium spp. are being used as environmentally friendly alternatives to chemical insecticides, as model systems for studying insect-fungus interactions, and as a resource of genes for biotechnology. We present a comparative analysis of the genome sequences of the broad-spectrum insect pathogen Metarhizium anisopliae and the acridid-specific M. acridum. Whole-genome analyses indicate that the genome structures of these two species are highly syntenic and suggest that the genus Metarhizium evolved from plant endophytes or pathogens. Both M. anisopliae and M. acridum have a strikingly larger proportion of genes encoding secreted proteins than other fungi, while ~30% of these have no functionally characterized homologs, suggesting hitherto unsuspected interactions between fungal pathogens and insects. The analysis of transposase genes provided evidence of repeat-induced point mutations occurring in M. acridum but not in M. anisopliae. With the help of pathogen-host interaction gene database, ~16% of Metarhizium genes were identified that are similar to experimentally verified genes involved in pathogenicity in other fungi, particularly plant pathogens. However, relative to M. acridum, M. anisopliae has evolved with many expanded gene families of proteases, chitinases, cytochrome P450s, polyketide synthases, and nonribosomal peptide synthetases for cuticle-degradation, detoxification, and toxin biosynthesis that may facilitate its ability to adapt to heterogeneous environments. Transcriptional analysis of both fungi during early infection processes provided further insights into the genes and pathways involved in infectivity and specificity. Of particular note, M. acridum transcribed distinct G-protein coupled receptors on cuticles from locusts (the natural hosts) and cockroaches, whereas M. anisopliae transcribed the same receptor on both hosts. This study will facilitate the identification of virulence genes and the development of improved biocontrol strains with customized properties.
Instance Digests in HTTP (2002)

HTTP/1.1 defines a Content-MD5 header that allows a server to include a digest of the response body. However, this is specifically defined to cover the body of the actual message, not the contents of the full file (which might be quite different, if the response is a Content- Range, or uses a delta encoding). Also, the Content-MD5 is limited to one specific digest algorithm; other algorithms, such as SHA-1 (Secure Hash Standard), may be more appropriate in some circumstances. Finally, HTTP/1.1 provides no explicit mechanism by which a client may request a digest. This document proposes HTTP extensions that solve these problems.
A monomolecular pseudostationary phase for micellar electrokinetic capillary chromatography (1992)

Abstract A highly stable pseudostationary phase has been synthesized and evaluated for use in micellar electrokinetic capillary chromatography (MECC). Sodium 10‐undecylenate has been oligomerized to form a micelle‐like structure following the procedure of Durairaj et al. [1].The stability of this structure renders it suitable for use with mobile phases containing relatively high percentages of organic modifiers, enabling the separation and detection of hydrophobic analytes such as alkyl phthalates and polynuclear aromatic hydrocarbons (PAHs) which are difficult to analyze by conventional micellar electrokinetic chromatography. In addition to demonstrating the utility of this structure for the analysis of hydrophobic analytes, the electrophoretic and chromatographic properties of the new phase have been investigated.
Object Partitioning Using Local Convexity (2014)

The problem of how to arrive at an appropriate 3D-segmentation of a scene remains difficult. While current state-of-the-art methods continue to gradually improve in benchmark performance, they also grow more and more complex, for example by incorporating chains of classifiers, which require training on large manually annotated data-sets. As an alternative to this, we present a new, efficient learning- and model-free approach for the segmentation of 3D point clouds into object parts. The algorithm begins by decomposing the scene into an adjacency-graph of surface patches based on a voxel grid. Edges in the graph are then classified as either convex or concave using a novel combination of simple criteria which operate on the local geometry of these patches. This way the graph is divided into locally convex connected subgraphs, which -- with high accuracy -- represent object parts. Additionally, we propose a novel depth dependent voxel grid to deal with the decreasing point-density at far distances in the point clouds. This improves segmentation, allowing the use of fixed parameters for vastly different scenes. The algorithm is straightforward to implement and requires no training data, while nevertheless producing results that are comparable to state-of-the-art methods which incorporate high-level concepts involving classification, learning and model fitting.
Germ tube and chlamydospore formation by Candida albicans on a new medium (1975)

A new medium composed of "cream of rice" infusion, oxgall, Tween 80, and agar is described for the sequential development of germ tubes and chlamydospores by Candida albicans. The procedure used (Dalmau's technique) is an improvement over the fluid substrate procedures previously advocated for germ tube formation. That the same preparation is then used for chlamydospore production is of practical importance for the clinical mycology laboratory.
Identification of genes involved in the activation of the Bacillus thuringiensis inhA metalloprotease gene at the onset of sporulation The GenBank/EMBL/DDBJ accession number for the sequence reported in this paper is AF287346. (2001)

The immune inhibitor A (InhA) metalloprotease from Bacillus thuringiensis specifically cleaves antibacterial proteins produced by the insect host, suggesting that it may contribute to the overall virulence of B. thuringiensis. The transcriptional regulation of the inhA gene in both B. thuringiensis and Bacillus subtilis was investigated. Using a transcriptional inhA'-lacZ fusion, it was shown that inhA expression is activated at the onset of sporulation. However, the transcriptional start site of inhA is similar to sigma(A)-dependent promoters, and deletion of the sporulation-specific sigma factors sigma(F) or sigma(E) had no effect on inhA expression in B. subtilis. The DNA region upstream from inhA contains two genes encoding polypeptides similar to the SinI and SinR regulators of B. subtilis. SinR is a DNA-binding protein regulating gene expression and SinI inhibits SinR activity. Overexpression of the sin genes affects the expression of the inhA'-lacZ transcriptional fusion in B. thuringiensis: early induction of inhA expression was observed when sinI was overexpressed, whereas inhA expression was reduced in a strain overexpressing sinR, suggesting that inhA transcription is repressed, directly or indirectly, by SinR. inhA transcription was greatly reduced in B. thuringiensis and B. subtilis spo0A mutants. Analysis of the inhA'-lacZ expression in abrB and abrB-spo0A mutants of B. subtilis indicates that the Spo0A-dependent regulation of inhA expression depends on AbrB, which is known to regulate expression of transition state and sporulation genes in B. subtilis.
Real-time sensor validation for autonomous flight control (1997)

Real-time validation of rocket engine sensor data improves mission safety and reduces flight operations and ground test costs. NASA Lewis Research Center, in partnership with Expert Microsystems, Inc., and Intelligent Software Associates, Inc., has developed an innovative sensor validation system enabling real-time, automated sensor failure detection for all types of mission critical systems. Testing performed by Boeing Space and Defense Group in partnership with NASA Marshall Space Flight Center has verified that these sensor validation algorithms enable highly reliable realtime data validation for critical Space Shuttle Main Engine performance sensors, including the turbine discharge temperatures on both turbopumps. A prototype sensor validation software module, designed to validate 22 SSME flight sensors, was demonstrated by real-time embedded system testing in a Boeing fault tolerant flight computer within the NASA Marshall Avionics System Testbed. The excellent results obtained in this testing demonstrate the real-time performance and high reliability of the sensor data validation software module.
Integrated Membrane Filters for Minimizing Hydrodynamic Flow and Filtering in Microfluidic Devices (2007)

Microfluidic devices have gained significant scientific interest due to the potential to develop portable, inexpensive analytical tools capable of quick analyses with low sample consumption. These qualities make microfluidic devices attractive for point-of-use measurements where traditional techniques have limited functionality. Many samples of interest in biological and environmental analysis, however, contain insoluble particles that can block microchannels, and manual filtration prior to analysis is not desirable for point-of-use applications. Similarly, some situations involve limited control of the sample volume, potentially causing unwanted hydrodynamic flow due to differential fluid heads. Here, we present the successful inclusion of track-etched polycarbonate membrane filters into the reservoirs of poly(dimethylsiloxane) capillary electrophoresis microchips. The membranes were shown to filter insoluble particles with selectivity based on the membrane pore diameter. Electrophoretic separations with membrane-containing microchips were performed on cations, anions, and amino acids and monitored using conductivity and fluorescence detection. The dependence of peak areas on head pressure in gated injection was shown to be reduced by up to 92%. Results indicate that separation performance is not hindered by the addition of membranes. Incorporating membranes into the reservoirs of microfluidic devices will allow for improved analysis of complex solutions and samples with poorly controlled volume.
Combined micro- and nano-scale surface textures for enhanced near-infrared light harvesting in silicon photovoltaics (2011)

As silicon photovoltaics evolve towards thin-wafer technologies, efficient optical absorption for the near-infrared wavelengths has become particularly challenging. In this work, we present a solution that employs combined micro- and nano-scale surface textures to increase light harvesting in the near-infrared for crystalline silicon photovoltaics, and discuss the associated antireflection and scattering mechanisms. The surface textures are achieved by uniformly depositing a layer of indium-tin-oxide nanowhiskers on micro-grooved silicon substrates using electron-beam evaporation. The nanowhiskers facilitate optical transmission in the near-infrared by functioning as impedance matching layers with effective refractive indices gradually varying from 1 to 1.3. Materials with such unique refractive index characteristics are not readily available in nature. As a result, the solar cell with combined textures achieves over 90% external quantum efficiencies for a broad wavelength range of 460-980 nm, which is crucial to the development of advanced thin-substrate silicon solar cells.
Positron emission tomography imaging of tumor angiogenesis and monitoring of antiangiogenic efficacy using the novel tetrameric peptide probe 64Cu-cyclam-RAFT-c(-RGDfK-)4 (2012)

64Cu-cyclam-RAFT-c(-RGDfK-)4 is a novel multimeric positron emission tomography (PET) probe for αVβ3 integrin imaging. Its uptake and αVβ3 expression in tumors showed a linear correlation. Since αVβ3 integrin is strongly expressed on activated endothelial cells during angiogenesis, we aimed to determine whether 64Cu-cyclam-RAFT-c(-RGDfK-)4 PET can be used to image tumor angiogenesis and monitor the antiangiogenic effect of a novel multi-targeted tyrosine kinase inhibitor, TSU-68. Athymic nude mice bearing human hepatocellular carcinoma HuH-7 xenografts, which expressed negligible αVβ3 levels on the tumor cells, received intraperitoneal injections of TSU-68 or the vehicle for 14 days. Antiangiogenic effects were determined at the end of therapy in terms of 64Cu-cyclam-RAFT-c(-RGDfK-)4 uptake evaluated using PET, biodistribution assay, and autoradiography, and they were compared with microvessel density (MVD) determined by CD31 immunostaining. 64Cu-cyclam-RAFT-c(-RGDfK-)4 PET enabled clear tumor visualization by targeting the vasculature, and the biodistribution assay indicated high tumor-to-blood and tumor-to-muscle ratios of 31.6 ± 6.3 and 6.7 ± 1.1, respectively, 3 h after probe injection. TSU-68 significantly slowed tumor growth and reduced MVD; these findings were consistent with a significant reduction in the tumor 64Cu-cyclam-RAFT-c(-RGDfK-)4 uptake. Moreover, a linear correlation was observed between tumor MVD and the corresponding standardized uptake value (SUV) (r = 0.829, P = 0.011 for SUV(mean); r = 0.776, P = 0.024 for SUV(max)) determined by quantitative PET. Autoradiography and immunostaining showed that the distribution of intratumoral radioactivity and tumor vasculature corresponded. We concluded that 64Cu-cyclam-RAFT-c(-RGDfK-)4 PET can be used for in vivo angiogenesis imaging and monitoring of tumor response to antiangiogenic therapy.
DEVELOPING MARKETING STRATEGY IN THE NOT‐FOR‐PROFIT SECTOR (1992)

Examines the role of strategic marketing in public sector services. Looks at the strategic marketing planning process and identifies the barriers which hinder the utilization of synoptic marketing planning in library services. Concludes by putting forward an incremental model of marketing planning which it proposes is more applicable to this sector.
Determinants for intracellular sorting of cytoplasmic and nuclear intermediate filaments. (1994)

The mechanism by which nuclear and cytoplasmic filaments are sorted in vivo was studied by examining which lamin sequences are required to target an otherwise cytoplasmic IF protein, the small neurofilament subunit (NF-L), to the nuclear lamina. By swapping corresponding domains between NF-L and lamin A, nuclear envelope targeting of NF-L was shown to require the presence of the "head" domain, a 42-amino acid sequence unique to lamin rod domains, a nuclear localization signal and the CAAX motif. Replacement of the entire COOH-terminal tail of lamin A with that of NF-L had no discernible effect on nuclear localization of lamin A, provided the substituted NF-L tail contained a NLS and a CAAX motif. This chimeric protein exhibited characteristics more typical of lamin B than that of the parental lamin A. With regard to cytoplasmic assembly properties, substitution of the head domain of lamin A for that of NF-L did not substantially affect the ability of NF-L to coassemble with vimentin in the cytoplasm. In contrast, insertion of a 42-amino acid sequence unique to lamin rod domains into NF-L profoundly affected NF-L coassembly with vimentin indicating that the 42-amino acid insertion in lamins may be important for sorting lamins from cytoplasmic IF proteins.
A weight-based map-matching algorithm for vehicle navigation in complex urban networks (2016)

A map-matching algorithm is an integral part of every navigation system and reconciles raw and inaccurate positional data (usually from a global positioning system [GPS]) with digital road network data. Since both performance (speed) and accuracy are equally important in real-time map-matching, an accurate and efficient map-matching algorithm is presented in this article. The proposed algorithm has three steps: initialization, same-segment, and next-segment. Distance between the GPS point and road segments, difference between the heading of the GPS point and direction of road segments, and difference between the direction of consecutive GPS points and direction of road segments are used to identify the best segment among candidates near intersections. In contrast to constant weights applied in existing algorithms, the weight of each criterion in this algorithm is dynamic. The weights of criteria are calculated for each GPS point based on its: (a) positional accuracy, (b) speed, and (c) traveled distance from previous GPS point. The algorithm considers a confidence level on the assigned segment to each GPS point, which is calculated based on the density and complexity of roads around the GPS point. The evaluation results indicate 95.34% correct segment identification and 92.19% correct segment assignment. The most important feature of our algorithm is that the high correct segment identification percentage achieved in urban areas is through a simple and efficient weight-based method that does not depend on any additional data or positioning sensors other than digital road network and GPS.
Direct growth of 2D and 3D graphene nano-structures over large glass substrates by tuning a sacrificial Cu-template layer (2017)

We demonstrate direct growth of two-dimensional (2D) and three-dimensional (3D) graphene structures on glass substrates. By starting from catalytic copper nanoparticles of different densities and using chemical vapour deposition (CVD) techniques, different 2D and 3D morphologies can be obtained, including graphene sponge-like, nano-ball and conformal graphene structures. More important, we show that the initial copper template can be completely removed via sublimation during CVD and, if need be, subsequent metal etching. This allows optical transmissions close to the bare substrate, which, combined with electrical conductivity make the proposed technique very attractive for creating graphene with high surface to volume ratio for a wide variety of applications, including antiglare display screens, solar cells, light-emitting diodes, gas and biological plasmonic sensors.
Functional proteomics of resveratrol‐induced colon cancer cell apoptosis: Caspase‐6‐mediated cleavage of lamin A is a major signaling loop (2006)

The study investigated the molecular basis of resveratrol (RSV)-evoked apoptosis in four (Bax+/-, Bax-/-, p53+/+, and p53-/-) HCT116 colon cancer cell lines. RSV induced apoptosis in all the cells in a dose-dependent manner; however, Bax+/- and p53+/+ cells were more susceptible than their knockout counterparts (Bax-/- and p53-/-, respectively). Using Bax+/- cells as a model, proteomic analysis revealed four RSV-responsive events: fragmentation of lamin A/C protein; increase in concentration of a more basic isoelectric variant of the ribosomal protein P0; and decrease in concentration of dUTPase as well as stathmin 1. Lamin A cleavage in response to RSV treatment was confirmed using Western blot analysis. Caspase-6 was activated, which was evidenced by cleavage and accumulation in active form of caspase-6 as well as upregulation of the protease activity. RSV-elicited lamin A cleavage and apoptosis were entirely abrogated by the peptide inhibitors of caspase-6. Likewise, partial knockdown of caspase-6 expression using small interfering RNA resulted in significant inhibition of RSV-elicited lamin A cleavage and apoptosis. Furthermore, the lower apoptosis sensitivity of the knockout cells (Bax-/- and p53-/-) correlated with the relatively reduced processing of caspase-6 and lamin A cleavage. Taken together, these data highlight the critical role of caspase-6 and its cleavage of lamin A in apoptotic signaling triggered by RSV in the colon carcinoma cells, which can be activated in the absence of Bax or p53.
Osteogenic potentialin vitro of human bone marrow cells cultured on macroporous biphasic calcium phosphate ceramic (1999)

Calcium phosphate ceramics are synthetic bone substitutes that promote bone formation by osteoconduction. However, they have shown an osteogenic potential in vivo in animal models when associated with bone marrow cells. In order to develop an osteogenic human "hybrid material," we studied the in vitro osteogenic potential of human bone marrow cells cultured on macroporous biphasic calcium phosphate (BCP) pellets in the presence of dexamethasone with or without 1alpha,25 dihydroxyvitamin D3. We were examining, in particular, their mesenchymal stem cell proliferation and hematopoietic potential. Osteogenic differentiation was evaluated in terms of alkaline phosphatase activity and immunological characterization of the extracellular matrix formed by these cells. The specimens were observed by scanning and transmission electron microscopy. Human mesenchymal stem cells proliferated on macroporous BCP ceramic, with a doubling time delayed at the beginning of the culture as compared to the cultures realized on plastic. These cells maintained a hematopoietic activity identical to that of cultures performed in plastic wells. The proliferating mesenchymal stem cells expressed an osteoblastic phenotype, as shown by alkaline phosphatase activity and the synthesis in ceramic macropores of an extracellular matrix composed of fibronectin, osteocalcin, and collagen I (but not collagen III). In addition, numerous microcrystals of apatite precipitated on the extracellular matrix, producing a mineralized fibrillar network within the ceramic not observed with cell cultures realized on plastic. These results demonstrate that human mesenchymal stem cells cultured on macroporous BCP ceramic express and conserve their osteoblastic phenotype even after one month of culture and that these osteogenic cells are able to form new bone matrix in a BCP ceramic in vitro.
Liberals in Power (1994)

The crisis of liberal reforms in postcommunist Russia has again awakened interest in the historical fate of Russian liberalism and in those periods of our national history when this trend played, or tried to play, a decisive role in the country's political life. This is understandable. Politicians, publicists, and historians turn to the past to try to find out the reasons for the liberal idea's inability to take deep root in Russian soil and transform it. It seems to me that the period from February through October 1917 provides rich food for thought on this subject.
Polymer Mass Loading of CMOS/MEMS Microslot Cantilever for Gravimetric Sensing (2007)

A post CMOS/MEMS fabrication method using inkjet printing of mass sensitive polymer into slotted microcantilevers is explored with the goal of increasing the polymer to cantilever mass ratio. This method involves wicking the dissolved polymer, poly(butyl methacrylate) (PBMA), into a microslot cantilever via a capillary slot running its length using surface tension forces. This is done by jetting into a target well paced at the base of the cantilever. By this method, inkjet printing is made compatible with device scaling to achieve higher mass sensitivities for gravimetric sensing applications and small electrostatic gaps for low noise capacitive actuation and detection. Also, we are able to achieve repeatable sub-nanogram dosing of material onto suspended devices with only a few microns in dimensional widths. Limits of this wicking method are explored on gravimetric arrays with varying microslot aspect ratios. The vertical resonant mode shows higher mass sensitivity than the lateral resonant mode.
436. Autoxidation of α-phellandrene (1949)

A. Blumann and L. Ryder, J. Chem. Soc., 1949, 2040 DOI: 10.1039/JR9490002040