gebhart/patrepeval huggingface dataset:
RNKP-1, a novel natural killer-associated serine protease gene cloned from RNK-16 cytotoxic lymphocytes. (1990)

From an RNK-16 lambda-gt11 library, we have isolated and sequenced a novel cDNA rat NK cell protease 1 (RNKP-1) that has characteristics unique to serine proteases. The cDNA clone is 1102 bp and contains a complete open reading frame with an AUG start codon and a TAA stop codon. The open reading frame translates into a protein of 248 amino acids that has one glycosylation site. The characteristic N-terminal Ile-Ile-Gly-Gly and the His, Asp, and Ser amino acid residues that form the catalytic triad of serine proteases are present. The nucleotide and amino acid sequences have 87 and 80% identity, respectively, with the murine CTL-specific serine protease CCPI. However, there are extensive differences in the substrate binding regions of these proteases. Comparison of hydropathic profiles and amino acid sequences of other proteases indicate that RNKP-1 is distinct and belongs to the subfamily of serine proteases of bone marrow origin. Northern blot analysis of poly A+ RNA from rat splenocytes cultured with Con A showed 1000 and 1400 nucleotide mRNA are detected with RNKP-1 after 1 day of Con A-stimulation. The expression of the two mRNA bands continues through day 5 of culture with the lectin and may represent RNKP-1 mRNA plus related sequences due to cross-hybridization. RNKP-1 is also expressed in RNK-16 cells, but is not expressed in freshly isolated rat splenocytes, brain, lung, or lymph node tissues. The induction of RNKP-1 expression in the Con A-cultured spleen cells is accompanied by increases in both NK and lymphokine-activated killer lymphocyte activities. These data indicate that RNKP-1 is a unique serine protease that may be preferentially expressed in NK cells.
High-efficiency transformation of Saccharomyces cerevisiae cells by bacterial minicell protoplast fusion. (1986)

After a new transformation procedure, 10% of Saccharomyces cerevisiae cells were found to contain transforming DNA sequences. We used direct transfer of plasmid molecules by fusing bacterial minicell protoplasts to yeast protoplasts. Since the procedure significantly reduces the toxic effect of procaryotic protoplasm on the eucaryotic organism, it might be generally applicable in other systems in which transformation is inefficient or impossible.
Development of auxiliary line loss management system in Hebei grid (2010)

The auxiliary line loss management system in Hebei grid is developed. The data of system are taken from EMS. After getting data from EMS, state estimation will be carried out periodically. The ground state of power flow is from the results of state estimation. The hardware configuration of system is introduced. A data receiving server is configured to receive model, graphic and data in auxiliary line loss management system in Hebei grid. It can integrate province dispatching center's model and six area dispatching centers' model to integral model in this server. And the integral model can be imported into PSASP system. The data receiving server can offer data storage for line loss management system. Seven servers are configured for saving the data of province and six area dispatching centers. A workstation is configured for power system condition monitoring. And it can carry out relevant analysis and calculation of power system planning. The workstation can log in any calculating server and view the calculation results of line loss. The auxiliary line loss management system in Hebei grid contains six subsystems. The subsystem of line loss calculation and subsystem of integral calculation and historical data storage for line loss is background calculation module. The other four subsystems offer interface for users to create, maintain and use the line loss analysis system. The modeling of power system planning subsystem provides the user interface to establish and maintain the power system planning model. The line loss query and analysis tool provides line loss modeling and maintenance functions. And it provides line loss query and analysis functions also.
El espacio mitológico en la primera poesía de Diana Bellessi (2011)

En el año 2002 Diana Bellessi publicó La rebelión del instante, un libro en el que se escuchan los primeros pasos de su ya larga andanza poética. La contemplación mística del detalle, la mirada al pasado del mito y su vocación trascendente conforman el primer polo de la obra de esta poeta argentina, una obra que deja asomar en su segundo extremo –dialogante y contradictorio– una pulsión de cambio, una inquietud histórica, un nervio político que todo lo anima.Impulsado por esa lógica bicéfala, Crucero ecuatorial (1980) traza un largo viaje iniciático, que busca devolver el rostro a lo borrado (indígenas, inmigrantes, miserables de América) y se encuentra, al final de la ruta, con el Mito: “Paso por un pueblo borroso de arena. / Un resplandor fogoso lo detiene” (Bellessi, 1980: 11). Un viaje en cuyo transcurso se llegará al reconocimiento y, más aún, a la asimilación del Otro. Por medio de la destrucción de fronteras en un fresco fluir de lugares, símbolos, voces y épocas, Crucero construye una utopía de ecos martianos: la de la América mestiza
Afferent and motoneuron activity in response to single neuromast stimulation in the posterior lateral line of larval zebrafish (2014)

The lateral line system of fishes contains mechanosensory receptors along the body surface called neuromasts, which can detect water motion relative to the body. The ability to sense flow informs many behaviors, such as schooling, predator avoidance, and rheotaxis. Here, we developed a new approach to stimulate individual neuromasts while either recording primary sensory afferent neuron activity or swimming motoneuron activity in larval zebrafish (Danio rerio). Our results allowed us to characterize the transfer functions between a controlled lateral line stimulus, its representation by primary sensory neurons, and its subsequent behavioral output. When we deflected the cupula of a neuromast with a ramp command, we found that the connected afferent neuron exhibited an adapting response which was proportional in strength to deflection velocity. The maximum spike rate of afferent neurons increased sigmoidally with deflection velocity, with a linear range between 0.1 and 1.0 μm/ms. However, spike rate did not change when the cupula was deflected below 8 μm, regardless of deflection velocity. Our findings also reveal an unexpected sensitivity in the larval lateral line system: stimulation of a single neuromast could elicit a swimming response which increased in reliability with increasing deflection velocities. At high deflection velocities, we observed that lateral line evoked swimming has intermediate values of burst frequency and duty cycle that fall between electrically evoked and spontaneous swimming. An understanding of the sensory capabilities of a single neuromast will help to build a better picture of how stimuli are encoded at the systems level and ultimately translated into behavior.
Enzyme‐generated intracellular fluorescence for single‐cell reporter gene analysis utilizing Escherichia coli β‐glucuronidase (1996)

We report the development of a new fluorescence-activated cell sorter (FACS)-based reporter gene system utilizing the enzymatic activity of the E. coli β-glucuronidase (gus) gene. When loaded with the Gus substrate fluorescein-di-β-D-glucuronide (FDGlcu), individual mammalian cells expressing and translating gus mRNA liberate sufficient levels of intracellular fluorescein for quantitative analysis by flow cytometry. This assay can be used to FACS sort viable cells based on Gus enzymatic activity, and the efficacy of the assay can be measured independently by using a fluorometric lysate assay. Furthermore, both the β-glucuronidase and the previously described E. coli β-galactosidase enzymes have high specificities for their cognate substrates, allowing each reporter gene to be measured by FACS independently. © 1996 Wiley-Liss, Inc.
Strong conformational propensities enhance T cell antigenicity. (1987)

The ability to predict T cell antigenic peptides would have important implications for the development of artificial vaccines. As a first step towards prediction, this report uses a new statistical technique to discover and evaluate peptide properties correlating with T cell antigenicity. This technique employs Monte Carlo computer experiments and is applicable to many problems involving protein or DNA. The technique is used to evaluate the contribution of various peptide properties to helper T cell antigenicity. The properties investigated include amphipathicities (alpha and beta), conformational propensities (alpha, beta, turn and coil), and the correlates of alpha-helices, such as the absence of helix-breakers and the positioning of the residues which stabilize alpha-helical dipoles. We also investigate segmental amphipathicity. (A peptide has this property when it contains at least two disjoint subpeptides, one hydrophobic, one hydrophilic.) Statistical correlations and stratifications assessed independent contributions to T cell antigenicity. The findings presented here have important implications for the manufacture of peptide vaccines. These implications are as follows: if possible, peptide vaccines should probably be those protein segments which have a propensity to form amphipathic alpha-helices, which do not have regions with a propensity to coil conformations, and which have a lysine at their COOH-terminus. The last two observations are of particular use in manufacturing peptides vaccines: they indicate where the synthetic peptides should be terminated. These implications are supported by the findings given below. The significances (p values) support the following statistical generalites about antigenic conformations: most helper T cell antigenic sites are amphipathic alpha-helices; alpha-helical amphipathicity and propensity to an alpha-helical conformation contribute independently to T cell antigenicity; there is evidence that some T cell antigenic sites are beta conformations instead of alpha-helices; T cell antigenic sites avoid random coiled conformations; and T cell antigenic sites are usually not segmentally amphipathic. alpha-Helical amphipathicity was significant, but segmental amphipathicity was not. This has implications for the dimensions of the structure interacting with the hydrophobic portion of an amphipathic T cell antigenic site. Lysines are unusually frequent at the COOH-terminal of T cell antigenic sites, even after accounting for tryptic digests. These lysines can stabilize alpha-helical peptides by a favorable interaction with alpha-helical dipoles.(ABSTRACT TRUNCATED AT 400 WORDS)
Optimized intensity‐modulated arc therapy for prostate cancer treatment (2001)

We recently implemented intensity-modulated arc therapy (IMAT) at our institution. In this study, we evaluate the dosimetric merits of the application of this technique to the treatment of prostate cancer. Each IMAT treatment plan incorporated bilateral overlapping arcs. The dose from each beam segment was computed using the three-dimensional dose model of a clinical treatment planning system (Render Plan 3.5, Precision Therapy). The weights assigned to the individual arc segments were optimized using a gradient search method. For 12 patients, comparisons were made between the IMAT treatment plans and corresponding plans using fixed cone-beam intensity-modulated radiotherapy (IMRT) from a commercial inverse planning system (CORVUS, NOMOS Corp.). We found that the optimized IMAT treatments produced similar dose distributions to the IMRT deliveries. Compared with the IMRT treatments, the IMAT treatments produced slightly less target dose homogeneity with consistently greater sparing of the rectum in regions of lower dose. The trade-off between target dose conformity and rectum sparing can be adjusted in both optimization procedures. Because the total beam-on time for IMAT delivery is 1 to 2 minutes with approximately 5-6 minutes of patient setup time, the delivery efficiency of the IMAT treatment was significantly better than the multiple-beam IMRT treatment.
Continuous amperometric monitoring of glucose in a brittle diabetic chimpanzee with a miniature subcutaneous electrode (1998)

The performance of an amperometric biosensor, consisting of a subcutaneously implanted miniature (0.29 mm diameter, 5 x 10(-4) cm2 mass transporting area), 90 s 10-90% rise/decay time glucose electrode, and an on-the-skin electrocardiogram Ag/AgCl electrode was tested in an unconstrained, naturally diabetic, brittle, type I, insulin-dependent chimpanzee. The chimpanzee was trained to wear on her wrist a small electronic package and to present her heel for capillary blood samples. In five sets of measurements, averaging 5 h each, 82 capillary blood samples were assayed, their concentrations ranging from 35 to 400 mg/dl. The current readings were translated to blood glucose concentration by assaying, at t = 1 h, one blood sample for each implanted sensor. The rms error in the correlation between the sensor-measured glucose concentration and that in capillary blood was 17.2%, 4.9% above the intrinsic 12.3% rms error of the Accu-Chek II reference, through which the illness of the chimpanzee was routinely managed. Linear regression analysis of the data points taken at t>1 h yielded the relationship (Accu-Chek) = 0. 98 x (implanted sensor) + 4.2 mg/dl, r2 = 0.94. The capillary blood and the subcutaneous glucose concentrations were statistically indistinguishable when the rate of change was less than 1 mg/(dl. min). However, when the rate of decline exceeded 1.8 mg/(dl.min) after insulin injection, the subcutaneous glucose concentration was transiently higher.
PacBio Sequencing and its Applications (2015)

Single-molecule, real-time sequencing developed by Pacific BioSciences offers longer read lengths than the second-generation sequencing (SGS) technologies, making it well-suited for unsolved problems in genome, transcriptome, and epigenetics research. The highly-contiguous de novo assemblies using PacBio sequencing can close gaps in current reference assemblies and characterize structural variation (SV) in personal genomes. With longer reads, we can sequence through extended repetitive regions and detect mutations, many of which are associated with diseases. Moreover, PacBio transcriptome sequencing is advantageous for the identification of gene isoforms and facilitates reliable discoveries of novel genes and novel isoforms of annotated genes, due to its ability to sequence full-length transcripts or fragments with significant lengths. Additionally, PacBio's sequencing technique provides information that is useful for the direct detection of base modifications, such as methylation. In addition to using PacBio sequencing alone, many hybrid sequencing strategies have been developed to make use of more accurate short reads in conjunction with PacBio long reads. In general, hybrid sequencing strategies are more affordable and scalable especially for small-size laboratories than using PacBio Sequencing alone. The advent of PacBio sequencing has made available much information that could not be obtained via SGS alone.
A Highly Tunable Stereoselective Olefination of Semistabilized Triphenylphosphonium Ylides withN-Sulfonyl Imines (2010)

The Wittig reaction involving direct olefination of triphenylphosphonium ylides (Ph(3)P horizontal lineCHR) with aldehydes is arguably the most often used method for alkene synthesis, but in general it yields mixtures of Z- and E-alkenes for semistabilized triphenylphosphonium ylides (R = aryl or vinyl). We have developed a simple and efficient protocol to improve the stereoselectivity significantly by replacing the aldehydes used in the Wittig reaction with N-sulfonyl imines, which possess distinct electronic and steric properties relative to aldehydes. A broad range of aromatic, alpha,beta-unsaturated, and aliphatic imines bearing appropriate N-sulfonyl groups smoothly undergo olefination reaction with various benzylidenetriphenylphosphoranes or allylidenetriphenylphosphoranes under mild reaction conditions to afford an array of both Z- and E-isomers of conjugated alkenes in good to excellent yields and with greater than 99:1 stereoselectivity. Moreover, this tunable protocol has been successfully applied to the highly stereoselective synthesis of two anticancer agents, DMU-212 and its Z-isomer.
Application of the Princen-Bradley filter bank to speech and image compression (1990)

The authors provide an efficient fast Fourier transform implementation, a set of optimal windows, and a new proof of the perfect reconstruction property for a critically sampled filter bank introduced by Princen and Bradley. Based on the new proof, necessary conditions for perfect reconstruction are also derived for the oversampled case. This filter bank is well suited to compression of speech and images due to its good frequency resolution, overlapped output, computational efficiency, and low delay. The authors evaluated its performance in a 32 band, 16-kb/s adaptive speech compression system, and found both its objective and subjective performance to be comparable to a more complex quadrature mirror filter bank. In image coding experiments, the Princen-Bradley filter bank demonstrated quality similar to DCT-based systems at high rates and reduced blocking artifacts at rates of 0.25-0.5 bpp. A psychophysically based bit allocation algorithm that provides a significant perceptual improvement over a related algorithm that seeks to minimize the mean-square error is introduced.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Colloidal Inks for Directed Assembly of 3-D Periodic Structures (2002)

Mesoscale periodic structures have been fabricated via directed assembly of colloidal inks. Concentrated colloidal gels with tailored viscoelastic properties were designed to form self-supporting features. The inks were deposited in a layer-by-layer sequence to directly write the desired 3-D pattern. Periodic structures with spanning features that vary between ∼100 μm and 1 mm were assembled. Shear rate profiles were calculated on the basis of the measured rheological properties of the inks under slip and no-slip boundary conditions during flow through a cylindrical deposition nozzle. Deflection measurements of spanning elements were used to probe the relationship between gel strength, deposition speed, and shear rate profiles in the nozzle. These observations revealed that the ink adopted a rigid (gel) core−fluid shell architecture during assembly, which simultaneously facilitated bonding and shape retention of the deposited elements.
Simulating occupant presence and behaviour in buildings (2007)

Various factors play a part in the energy consumption of a building : its physical properties, the equipment installed for its functioning (the heating, ventilation and air-conditioning system, auxiliary production of electricity or hot water), the outdoor environment and the behaviour of its occupants. While software tool designers have made great progress in the simulation of the first three factors, for the latter they have generally relied on fixed profiles of typical occupant presence and associated implications of their presence. As a result the randomness linked to occupants, i.e. the differences in behaviour between occupants and the variation in time of each behaviour, plays an ever more important role in the discrepancy between the simulated and real performances of buildings. This is most relevant in estimating the peak demand of energy (for heating, cooling, electrical appliances, etc.) which in turn influences the choice of technology and the size of the equipment installed to service the building. To fill this gap we have developed a family of stochastic models able to simulate the presence of occupants and their interactions with the building and the equipment present. A central model of occupant presence, based on an inhomogeneous Markov chain, produces a time series of the number of occupants within a predefined zone of a building. Given a weekly profile of the probability of presence, simplified parameters relating to the periods of long absence and the mobility of the person to be simulated, it has proven itself capable of reproducing that person's patterns of occupancy (times of first arrival, of last departure and periods of intermediate absence and presence) to a good degree of accuracy. Its output is used as an input for models for the simulation of the behaviour of occupants regarding the use of appliances in general, the use of lighting devices, the opening of windows and the production of waste. The appliance model adopts a detailed bottom-up approach, simulating each appliance with a black-box algorithm based on the probability of switching it on and the distribution of the duration and power of its use, whereas the interaction of the occupant with windows is determined by randomly changing environmental stimuli and the related thresholds of comfort randomly selected for each occupant. When integrated within a building simulation tool, these stochastic models will provide realistic profiles of the electricity and water consumed, the wastewater and solid waste produced and the heat emitted or rejected, both directly or indirectly by the occupant.
Inflammatory mediators as therapeutic targets in acute pancreatitis. (2001)

Multi-organ dysfunction syndrome (MODS) is the primary cause of morbidity and mortality in acute pancreatitis. Recent studies have established the critical role played by inflammatory mediators such as TNFalpha, IL-1beta, IL-6, IL-8, CINC/GROalpha, PAF, IL-10, C5a, ICAM-1 and substance P in acute pancreatitis and the resultant MODS. Potentially, there is a therapeutic window between symptom onset and the development of distant organ damage, when anti-inflammatory therapy may be of use. Elucidation of the key mediators in acute pancreatitis coupled with the discovery of specific inhibitors may make it possible to develop clinically effective anti-inflammatory therapy.
Pharmacological Inhibition of Glucosylceramide Synthase Enhances Insulin Sensitivity (2007)

A growing body of evidence implicates ceramide and/or its glycosphingolipid metabolites in the pathogenesis of insulin resistance. We have developed a highly specific small molecule inhibitor of glucosylceramide synthase, an enzyme that catalyzes a necessary step in the conversion of ceramide to glycosphingolipids. In cultured 3T3-L1 adipocytes, the iminosugar derivative N-(5'-adamantane-1'-yl-methoxy)-pentyl-1-deoxynojirimycin (AMP-DNM) counteracted tumor necrosis factor-alpha-induced abnormalities in glycosphingolipid concentrations and concomitantly reversed abnormalities in insulin signal transduction. When administered to mice and rats, AMP-DNM significantly reduced glycosphingolipid but not ceramide concentrations in various tissues. Treatment of ob/ob mice with AMP-DNM normalized their elevated tissue glucosylceramide levels, markedly lowered circulating glucose levels, improved oral glucose tolerance, reduced A1C, and improved insulin sensitivity in muscle and liver. Similarly beneficial metabolic effects were seen in high fat-fed mice and ZDF rats. These findings provide further evidence that glycosphingolipid metabolites of ceramide may be involved in mediating the link between obesity and insulin resistance and that interference with glycosphingolipid biosynthesis might present a novel approach to the therapy of states of impaired insulin action such as type 2 diabetes.