gebhart/patrepeval huggingface dataset:
It Ain't Necessarily So: Checking Charts for Robustness (2014)

Figure 1: Checking how bin offset influences the shape of a histogram for a small data set. Histograms for ten offset values are combined on the main chart using translucent overlay; the user has also steered the dashed-red probe region to display this part of the respective charts in a small-multiples view. On the far right we show how mousing over one of the small-multiples panes highlights the corresponding histogram on the main chart, and also shows the outline of that histogram on the other panes. Graphics such as statistical charts are crucial tools for communicat-ing the essence of data, but require care in their construction: a chart for a given data set could appear to tell a range of stories, depending just on parameter values used in generating the chart. We are in-vestigating how providing an interactive history of chart-parameter manipulations could encourage people to check the robustness of any story a chart appears to show. Our hope is that this work will be of value to chart creators and consumers alike.
An Automation PCI Allocation Method for eNodeB and Home eNodeB Cell (2010)

How to use self-management techniques to reduce the cost of operation and maintenance for LTE Network has become a main challenge for telecommunication operators. In this paper, the allocation method of physical cell identifier (PCI) in LTE Network is analyzed, and an automation PCI allocation system (ACPIAS) framework is proposed. In addition, we propose a policy-based automation PCI allocation method which can modify the policy according to the PCI utilization and the scale of base station. Through this allocation method, the validity of PCI can be guaranteed and the frequency of conflict detection, repair and re-allocation process is reduced. The method can assign PCI not only for eNodeB cells but also for Home eNodeB (HeNB) cells in LTE Network. Finally, a simulation is proposed to validate the correctness of the allocation method.
Genomic Sequence Analysis of the Mouse Naip Gene Array (2000)

A mouse locus called Lgn1 determines differences in macrophage permissiveness for the intracellular replication of Legionella pneumophila. The only regional candidate genes for this phenotype difference lie within a cluster of closely linked paralogs of the Neuronal Apoptosis Inhibitory Protein (Naip) gene. Previous genetic and physical mapping of the Lgn1 phenotype narrowed it to an interval containing only Naip2 and Naip5, suggesting that there is not complete functional overlap among the mouse Naip loci. In order to gather more information about polymorphisms among the Naip genes of the 129 mouse haplotype, we have determined the genomic sequence of a substantial portion of the 129 Naip gene array. We have constructed an evolutionary model for the expansion of the Naip gene array from a single progenitor Naip gene. This model predicts the presence of two distinct families of Naip paralogs: Naip1/2/3 and Naip4/5/6/7. Unlike the divergences among all the other Naip paralogs, the splits among Naip4, Naip5, Naip6, and Naip7 occurred relatively recently. The high degree of sequence conservation within the Naip4/5/6/7 family increases the likelihood of functional overlap among these genes.
<title>Image classification and segmentation using multichannel fractal modeling</title> (1992)

Multichannel fractal modelling of the color images is proposed in this paper as an efficient tool for image classification and segmentation. An extension of the fractal dimension to appropriate matrix forms is used for this purpose, showing that it leads to more accurate representations of the original images. Various factors affecting these representations are investigated while artificial neural networks are used to classify the derived feature sets and segment the images.
Enhanced Resistance toSpodoptera liturain Endophyte Infected Cauliflower Plants (2013)

Endophytic fungi, which live within host plant tissues without causing any visible symptom of disease, are important mediators of plant-herbivore interactions. These endophytes enhance resistance of host plant against insect herbivores mainly by productions of various alkaloid based defensive compounds in the plant tissue or through alterations of plant nutritional quality. Two endophytic fungi, i.e., Nigrospora sp. and Cladosporium sp., were isolated from Tinospora cordifolia (Thunb.) Miers, a traditional indian medicinal plant. Cauliflower (Brassica oleracea L.) plants were inoculated with these two endophytic fungi. The effect of endophyte infected and uninfected cauliflower plants were measured on the survival and development of Spodoptera litura (Fab.), a polyphagous pest. Endophyte infected cauliflower plants showed resistance to S. litura in the form of significant increase in larval and pupal mortality in both the fungi. Inhibitory effects of endophytic fungi also were observed on adult emergence, longevity, reproductive potential, as well as hatchability of eggs. Thus, it is concluded that antibiosis to S. litura could be imparted by artificial inoculation of endophytes and this could be used to develop alternative ecologically safe control strategies.
Label-Free Electrochemical Detection for Aptamer-Based Array Electrodes (2005)

An electrochemical impedance spectroscopy method of detection for aptamer-based array electrodes is reported in which the binding of aptamers immobilized on gold electrodes leads to impedance changes associated with target protein binding events. Human IgE was used as a model target protein and incubated with the aptamer-based array consisting of single-stranded DNA containing a hairpin loop. To increase the binding efficiency for proteins, a hybrid modified layer containing aptamers and cysteamine was fabricated on the photolithographic gold surface through molecular self-assembly. Atomic force microscopy analysis demonstrated that human IgE could be specifically captured by the aptamer and stand well above the self-assembled monolayer (SAM) surface. Compared to immunosensing methods using anti-human IgE antibody as the recognition element, impedance spectroscopy detection could provide higher sensitivity and better selectivity for aptamer-modified electrodes. The results of this method show good correlation for human IgE in the range of 2.5-100 nM. A detection limit of 0.1 nM (5 fmol in a 50-microL sample) was obtained, and an average of the relative standard deviation was <10%. The method herein describes the first label-free detection for arrayed electrodes utilizing electrochemical impedance spectroscopy.
Differences in constitutive and post-methotrexate folylpolyglutamate synthetase activity in B-lineage and T-lineage leukemia (1994)

Folylpolyglutamate synthetase (FPGS) is responsible for the metabolism of natural folates and a broad range of folate antagonists to polyglutamate derivatives. Recent studies indicated increased accumulation of methotrexate (MTX) polyglutamates (MTX-PG) in blast cells as a predictor of favorable treatment outcome in childhood acute lymphoblastic leukemia (ALL). We determined the expression of FPGS activity in blasts from children with ALL at diagnosis and after treatment with MTX as a single agent, before conventional remission induction therapy. The levels of enzyme activity in ALL blasts at diagnosis (median of 689 pmol/h/mg protein) were significantly higher (P = .003) than those found in acute nonlymphoblastic leukemia (ANLL) blasts (median of 181 pmol/h/mg protein). Comparable lineage differences in normal lymphoid versus nonlymphoid cells suggest a lineage-specific control of FPGS expression, FPGS activity increased in ALL blasts after in vivo exposure to MTX. The median increase in FPGS activity was significantly higher (P = .003) in B-lineage ALL (188%) than in T-lineage ALL (37%). Likewise, the percentage of intracellular long chain MTX-PG (Glu3-6) was significantly higher (P = .02) in B-lineage ALL (92%) than in T-lineage ALL (65%), consistent with higher FPGS activity in B-lineage blasts. This finding could explain, at least in part, the superior outcome in children with B-lineage ALL treated with antimetabolite therapy.
Effect on sleep ??? but not on blood pressure ??? of nocturnal non-invasive blood pressure monitoring (1992)

The results of this study show that non-invasive ambulatory blood pressure monitoring during sleep accurately records basal blood pressure and can distinguish blood pressure during superficial sleep from blood pressure during deep sleep. Sleep is often disturbed by blood pressure monitoring but, irrespective of whether recording provokes arousal, monitored blood pressure is the same.
Carbon nanotube/polysulfone composite screen-printed electrochemical enzyme biosensors (2006)

The fabrication, evaluation and attractive performance of multiwall carbon nanotube(MWCNT)/polysulfone biocomposite membrane modified thick-film screen-printed electrochemical biosensors are reported. The fabricated carbon nanotube/polysulfone (CNT/PS) strips combine the attractive advantages of carbon nanotube materials, polysulfone matrix and disposable screen-printed electrodes. Such thick-film carbon nanotubes/polysulfone sensors have a well defined performance, are mechanically stable, and exhibit high electrochemical activity. Furthermore, biocompatibility of CNT/PS composite allows easy incorporation of biological functional moiety of horseradish peroxidase by phase inversion technique. The comparison of graphite with MWCNT as conductor material is described in this paper. The proposed H(2)O(2) biosensor exhibited a linear range (applied potential, -0.2 V) from 0.02 to 0.5 mM and a K(M)(app) of 0.71 mM.
Inhibition of hamster mesothelioma tumorigenesis by an antisense expression plasmid to the insulin-like growth factor-1 receptor. (1996)

We evaluated the effect of antisense insulin-like growth factor (IGF) receptor transcripts on the proliferation and tumorigenicity in an SV40-induced, immunocompetent hamster mesothelioma model (H9A). Expression of IGF-1 and IGF-1 receptor (IGF-1R) genes was identified from H9A RNA using reverse transcription-PCR and Northern analysis. H9A cells were electroporated with inducible expression vectors (under the transcriptional control of heat shock promoter HSP70) containing a cDNA fragment corresponding to base pairs 1-309 of IGF-1R in the sense or antisense orientation to generate the respective clones A3 sense or B9 antisense. The expression vector in genomic DNA was detected with PCR analysis as a 173-bp fragment on ethidium bromide gels. The effects of the expression vectors were then evaluated in vitro under active (at 39 degrees C) or inactive (at 34 degrees C) conditions. At 39 degrees C, the B9 antisense transfectants demonstrated significantly less proliferation than A3 sense transfectants (P2 < 0.02). At 34 degrees C, cell growth of A3 sense- and B9 antisense-transfected cells was not significantly different. In vivo tumorigenicity was evaluated in hamsters inoculated with 10(5) A3 sense- or B9 antisense-transfected cells. The A3 sense clones resulted in greater numbers of tumors in vivo compared to the B9 antisense clone (P2 = 0.0001). When genomic DNA from tumors that developed in A3 sense and B9 antisense animals was analyzed for the expression vectors, a 173-bp fragment amplified from the expression vector was identified in the sense tumors but not in antisense B9 or wild-type H9A tumors, indicating a loss of the vector from the antisense clones that proliferated in vivo. The inhibitory effect of IGF-1R antisense transcripts on hamster mesothelioma demonstrated in this study by decreased growth and tumorigenicity in vitro and in vivo may have implications for the therapy of human mesothelioma.
Regulation of the Bacterial Cell Wall: Analysis of a Mutant of Bacillus subtilis Defective in Biosynthesis of Teichoic Acid (1972)

Bacillus subtilis 168ts-200B is a temperature-sensitive mutant of B. subtilis 168 which grows as rods at 30 C but as irregular spheres at 45 C. Growth at the nonpermissive temperature resulted in a deficiency of teichoic acid in the cell wall. A decrease in teichoic acid synthesis coupled with the rapid turnover of this polymer led to a progressive loss until less than 20% of the level found in wild-type rods remained in spheres. Extracts of cells grown at 45 C contained amounts of the enzymes involved in the biosynthesis and glucosylation of teichoic acids that were equal to or greater than those found in normal rods. Cell walls of the spheres were deficient also in the endogenous autolytic enzyme (N-acyl muramyl-l-alanine amidase). Genetic analysis of the mutant by PBS1-mediated transduction and deoxyribonucleic acid-mediated transformation demonstrated that the lesion responsible for these effects (tag-1) is tightly linked to the genes which regulate the glucosylation of teichoic acid in the mid-portion of the chromosome of B. subtilis.
Generation and Characterization of a Recombinant Human CCR5-specific Antibody (2000)

We describe the isolation of a CCR5-specific antibody, ST6, from an antibody phage display library generated from an immune rabbit. ST6 was previously shown to efficiently prevent the surface expression of CCR5 when expressed intracellularly (Steinberger, P., Andris-Widhopf, J., Buhler, B., Torbett, B. E., and Barbas, C. F., III (2000) Proc. Natl. Acad. Sci. U. S. A. 97, 805-810). Because ST6 has therapeutic potential in human immunodeficiency virus, type 1 disease, its humanization was desired to minimize the potential for immunogenicity. ST6 was humanized using a phage display-based approach. Like the parental rabbit clone, the humanized version ST6/34 efficiently prevented the surface expression of CCR5. The conserved linear peptide epitope bound by these antibodies was mapped using phage display. Both ST6 as well as the humanized anti-CCR5 antibody ST6/34 were produced as complete IgG antibodies and shown to bind to cell surface CCR5.
Scheduling start-up and close-down periods of dual-armed cluster tools with wafer delay regulation (2011)

Cluster tools have been increasingly used for semiconductor manufacturing. While there have been many studies on cluster tool scheduling, most of them have focused on full work cycles in which identical work cycles are repeated. However, in reality, there are significant transient periods during which an empty tool begins to process new wafers or finishes processing and becomes empty. We should minimise the lengths of transient periods, so that a cluster tool quickly enters a desirable steady schedule for full work cycles or finishes operations quickly. We should also regulate wafer delays within chambers, because they cause wafer quality variation or failures. In this paper, we propose scheduling strategies for transient periods to meet those requirements. We prove that for the close-down period, the earliest starting policy that starts each operation as soon as the preceding operations complete minimises the close-down period while regulating the wafer delays. We also show that for the start-up period, the latest starting policy that starts each operation as late as possible while meeting the deadlines specified by the starting times of the given steady schedule minimises the start-up period. Finally, we suggest a way of minimising the total makespan by optimising the steady schedule.
A family of conserved bacterial effectors inhibits salicylic acid-mediated basal immunity and promotes disease necrosis in plants (2004)

Salicylic acid (SA)-mediated host immunity plays a central role in combating microbial pathogens in plants. Inactivation of SA-mediated immunity, therefore, would be a critical step in the evolution of a successful plant pathogen. It is known that mutations in conserved effector loci (CEL) in the plant pathogens Pseudomonas syringae (the Delta CEL mutation), Erwinia amylovora (the dspA/E mutation), and Pantoea stewartii subsp. stewartii (the wtsE mutation) exert particularly strong negative effects on bacterial virulence in their host plants by unknown mechanisms. We found that the loss of virulence in Delta CEL and dspA/E mutants was linked to their inability to suppress cell wall-based defenses and to cause normal disease necrosis in Arabidopsis and apple host plants. The Delta CEL mutant activated SA-dependent callose deposition in wild-type Arabidopsis but failed to elicit high levels of callose-associated defense in Arabidopsis plants blocked in SA accumulation or synthesis. This mutant also multiplied more aggressively in SA-deficient plants than in wild-type plants. The hopPtoM and avrE genes in the CEL of P. syringae were found to encode suppressors of this SA-dependent basal defense. The widespread conservation of the HopPtoM and AvrE families of effectors in various bacteria suggests that suppression of SA-dependent basal immunity and promotion of host cell death are important virulence strategies for bacterial infection of plants.
The pharmacokinetics of 4-acetyl tritium vinblastine in two patients. (1975)

Vinblastine, labeled with tritium in the 4-acetyl group, was given to two patients with malignant disease, and the pharmacokinetic behavior of the drug was determined. Clearance of radioactivity from the blood was biphasic, with t1/2 values for a first rapid phase of 4.25 and 4.78 min, and for a slower phase of 185 and 195 min. The volume of the central compartment was calculated as 29.7 and 39.4 liters, while the total fictive volume of distribution was 86.4 and 111.4 liters. Binding to blood components occurred in the order: plasma greater than platelets greater than red blood cells greater than white blood cells. Excretion of radiolabel occurred via the stool and the urine so that, after 72 hr, 25 and 41% of the total dose had appeared in the former and 19 a nd 23% had appeared in the latter. Appreciable amounts of unchanged drug appeared in the urine, while very little appeared in the stool, suggesting hepatic metabolism, consistent with prior animal studies.
New Water Soluble Anionic NVP Acrylamide Terpolymers for Use in Harsh EOR Conditions (2014)

Abstract Water soluble anionic polymers are widely used as Mobility Control agents in EOR. However, their shear, salt, free radical and thermal stability limit their domain of application. A joint industrial effort has led to new optimized polymer compositions. The chemical structure has been designed to improve long term thermal and salt stability. The functional groups on the polymer chain are acrylamide (AM), sodium acrylate (AA), sodium acrylamido-tertiary-butyl sulfonate (ATBS) and N-vinyl pyrrolidone (NVP). The composition of the different groups was varied to produce different polymer prototypes. The bulk gel polymerization process used to produce at industrial scale EOR polymers has been fine-tuned using NMR structural analysis at different conversion rates. The best polymer candidates were submitted to stability tests. Thermal stability was investigated with residual oxygen between 0 and 200ppb at temperature up to 120°C and salinity up to 70 g/L TDS with high hardness. Results show that the joint presence of NVP and ATBS in specific amounts in the polymer structure improves thermal and salt stability. Some of the polymers, whose chemical structure was optimized to maximize stability, could withstand harsh reservoir conditions with little loss of viscosity for an aging time of at least 1 year. These species were then submitted to coreflood experiments and showed good propagation properties in a 100-150 mD carbonate rock. Results show that polymer flooding can be successful in reservoirs with high temperature and harsh salinity conditions. The thermal resistant polymers can be used for polymer, surfactant polymer floods and are promising for alkaline surfactant polymer systems as well. They may be beneficial to other oil and gas applications where heat and salt stability are needed. With this technology, polymer viscosity is stable while it propagates through the reservoir and a favorable mobility ratio is maintained from injectors to producers.
Enhancing Similarity Matrices for Music Audio Analysis (2006)

Similarity matrices have become an important tool in music audio analysis. However, the quadratic time and space complexity as well as the intricacy of extracting the desired structural information from these matrices are often prohibitive with regard to real-world applications. In this paper, we describe an approach for enhancing the structural properties of similarity matrices based on two concepts: first, we introduce a new class of robust and scalable audio features which absorb local temporal variations. As a second contribution, we then incorporate contextual information into the local similarity measure. The resulting enhancement leads to significant reduction in matrix size and also eases the structure extraction step. As an example, we sketch the application of our techniques to the problems of audio summarization and audio synchronization, obtaining effective and computationally feasible algorithms
Selective Removal of DNA from Dead Cells of Mixed Bacterial Communities by Use of Ethidium Monoazide (2006)

The distinction between viable and dead bacterial cells poses a major challenge in microbial diagnostics. Due to the persistence of DNA in the environment after cells have lost viability, DNA-based quantification methods overestimate the number of viable cells in mixed populations or even lead to false-positive results in the absence of viable cells. On the other hand, RNA-based diagnostic methods, which circumvent this problem, are technically demanding and suffer from some drawbacks. A promising and easy-to-use alternative utilizing the DNA-intercalating dye ethidium monoazide bromide (EMA) was published recently. This chemical is known to penetrate only into "dead" cells with compromised cell membrane integrity. Subsequent photoinduced cross-linking was reported to inhibit PCR amplification of DNA from dead cells. We provide evidence here that in addition to inhibition of amplification, most of the DNA from dead cells is actually lost during the DNA extraction procedure, probably together with cell debris which goes into the pellet fraction. Exposure of bacteria to increasing stress and higher proportions of dead cells in defined populations led to increasing loss of genomic DNA. Experiments were performed using Escherichia coli O157:H7 and Salmonella enterica serovar Typhimurium as model pathogens and using real-time PCR for their quantification. Results showed that EMA treatment of mixed populations of these two species provides a valuable tool for selective removal of DNA of nonviable cells by using conventional extraction protocols. Furthermore, we provide evidence that prior to denaturing gradient gel electrophoresis, EMA treatment of a mature mixed-population drinking-water biofilm containing a substantial proportion of dead cells can result in community fingerprints dramatically different from those for an untreated biofilm. The interpretation of such fingerprints can have important implications in the field of microbial ecology.
Concept and performance of a field-effect amorphous silicon solar cell (2003)

We propose a novel solar cell structure based on the concept of forming p or n window layers by the field effect instead of impurity doping, and we verify its performance experimentally. The device, a field-effect amorphous silicon solar cell (FESC), was designed with the aid of a device simulator and fabricated by a plasma chemical vapour deposition system. We have verified that the output current of the FESC was amplified by the field-effect bias application to the gate electrode. The fundamental properties of this new type of amorphous silicon solar cell are demonstrated for the first time.