gebhart/patrepeval huggingface dataset:
BestRec: A Behavior Similarity Based Approach to Services Recommendation (2009)

Development efficiency is an important factor for the Internet-scale software produced through services composition. In this paper, we aim at improving development efficiency from two aspects. One is to improve services discovery efficiency through recommendation, and the other is to provide a mechanism to reuse an existing composite service. We propose BestRec, a behavior similarity based approach to services recommendation. With BestRec, the behavior captured by a composite service is described by a DFA-based service model. Based on the service model derived from the developing context of services composition and the existing composite services in the services repository, we calculate the behavioral similarity according to the relations between states of each existing service model and that of the developing service model. Through this approach we can automatically model the request of services discovery and recommend the most suitable composite services to developers in the light of their behavioral similarity. Finally, we illustrate the effectiveness of BestRec with a case study and experimental evaluation in the area of Web services testing applications.
A Critical Review of Shunt Tube Deployed Open Hole Gravel Pack Completions Pumped with no Positive Surface Pressure (2022)

Abstract Shunt tube deployed Open Hole Gravel Pack (OHGP) completions have been installed in the industry for about 25 years and have become widely recognized as a very reliable sand control completion technique. Some of these shunt tube gravel pack operations, are pumped with no positive surface treating pressure for a long duration of the packing operation. This paper will discuss in detail the system hydraulics and shunt tube packing process in these types of operation. The paper will review the surface and down hole gauge pumping data from a suite of shunt tube gravel packs which were pumped for sustained periods with no positive surface treating pressure. It will identify and discuss gravel packing signatures and trends that are unique to these types of operations including detailed analysis of down hole gauge data. Additionally, the paper will discuss the challenges and potential issues that can occur when executing this type of gravel pack and potential mitigation measures. Shunt tube deployed OHGP systems are designed to function in wells with small fluid weight to fracture pressure windows and as such are pumped at low rate with a viscous carrier fluid. Consequently, many of these gravel packs are pumped with no positive pump pressure as the positive u-tube pressure of the additional hydrostatic weight of the slurry in the work string is higher than the overall friction pressure in the system. This effect can have a significant impact on the job execution in several ways if not fully understood and appropriately incorporated into the pumping plan. The potential impacts which are discussed in the paper, include: Inability to monitor the downhole packing process and bottom hole circulating pressure which can result in fracturing the formation while still with no positive surface pressure. Apparent increases and decreases to the return rate which can potentially be misinterpreted as losses or gains and subsequently drive detrimental changes to the execution plan including early termination of the operation and large reductions in pump rate. Stalling of the down hole packing process when there is inadequate pressure differential to drive flow through the shunt tubes The mechanics of pumping shunt tube OHGPs without positive surface pressure has not been previously studied in depth or documented. Given the challenges with real time pumping diagnostics and post job analysis of the packing process of these jobs and the potential for misinterpretation of the data, the paper will provide a comprehensive review of this issue that can be used as a basis for designing and executed future operations.
Effects of thoracic irradiation on pulmonary endothelial compared to alveolar type-II cells in fibrosis-prone C57BL/6NTac mice. (2013)

These studies should facilitate identification of potential new drug targets for ameliorating irradiation-induced pulmonary fibrosis.
Solubility, Density and Solution Thermodynamics of NaI in Different Pure Solvents and Binary Mixtures (2012)

Solubility of NaI in water, methanol, ethanol, propan-2-ol, and also in water + methanol, water + ethanol, and water + propan-2-ol binary mixtures have been experimentally measured using a gravimetric method at temperatures (298.15.303.15, 308.15, and 313.15) K. The combined NIBS (nearly ideal binary solvent)–Redlic–Kister equation is used to fit experimental solubility data at constant temperature. The densities of the saturated solutions are also reported in pure and binary solvent mixtures at temperatures mentioned above. Thermodynamic functions including ΔHsoln0, ΔGsoln0, and ΔSsoln0 of solution of NaI are obtained from the modified van’t Hoff equation. A comparison of the relative contributions by enthalpy (ζH) and entropy (ζTS) is made which indicated that the main contributor to the positive standard molar Gibbs energy of solution of NaI is the entropy for solution of NaI in water + methanol having xC0 < 0.5 and for all other solutions it is enthalpy.
Heterogeneous Survival Rates for Isolated Skeletal Metastases From Melanoma (1996)

In this study, the authors examine the survivorship of individuals who constitute the small subset of patients with Stage IV melanoma who present with their first and only detectable metastasis to the skeleton. One thousand two hundred six patients were identified with primary melanoma at the authors' institution since 1962. There were 14 patients with isolated (solitary) skeletal metastases. Survival was calculated by Kaplan-Meier technique. The survival rate for any individual with an isolated metastasis to the axial skeleton was 0. Three of 8 patients with melanoma metastases to the appendicular skeleton are alive at 18, 25, and 52 months after Stage IV detection. A statistically significant prolonged latency period (initial diagnosis to Stage IV) in the appendicular group compared with the axial group contributed to their significant survival rate advantage. The melanoma literature strongly supports the complete resection of soft tissue metastatic foci. These data support this concept and extend it to include isolated skeletal metastases. The mechanisms by which axial and appendicular skeletal metastases occur are significantly different. This difference manifests itself as a survival advantage for the appendicular group and warrants an aggressive surgical approach for these individuals.
Hypernode reduction modulo scheduling (1995)

Software pipelining is a loop scheduling technique that extracts parallelism from loops by overlapping the execution of several consecutive iterations. Most prior scheduling research has focused on achieving minimum execution time, without regarding register requirements. Most strategies tend to stretch operand lifetimes because they schedule some operations too early or too late. The paper presents a novel strategy that simultaneously schedules some operations late and other operations early, minimizing all the stretchable dependencies and therefore reducing the registers required by the loop. The key of this strategy is a pre-ordering that selects the order in which the operations will be scheduled. The results show that the method described in this paper performs better than other heuristic methods and almost as well as a linear programming method but requiring much less time to produce the schedules.
ChemInform Abstract: SYNTHESIS OF 1,2,6‐TRIHYDROXY‐7,8‐DIMETHOXY‐3‐METHYLANTHRAQUINONE (1982)

Abstract Aus dem 2ms Gallussäure (I) zugänglichen Anhydrid (II) und dem Methylbrenzczatechin (III) wird das Anthrachinon (IV) hergestellt.
Study of Human Orexin-1 and -2 G-Protein-Coupled Receptors with Novel and Published Antagonists by Modeling, Molecular Dynamics Simulations, and Site-Directed Mutagenesis (2012)

The class A G-protein-coupled receptors (GPCRs) Orexin-1 (OX1) and Orexin-2 (OX2) are located predominantly in the brain and are linked to a range of different physiological functions, including the control of feeding, energy metabolism, modulation of neuro-endocrine function, and regulation of the sleep-wake cycle. Site-directed mutagenesis (SDM) and domain exchange (chimera) studies have provided important insight into key features of the OX1 and OX2 binding sites. However, the precise determinants of antagonist binding and selectivity are still not fully known. In this work, we used homology modeling of OX receptors to direct further SDM studies. These SDM studies were followed by molecular dynamics (MD) simulations to rationalize the full scope of the SDM data and to explain the role of each mutated residue in the binding and selectivity of a set of OX antagonists: Almorexant (dual OX1 and OX2 antagonist), SB-674042 (OX1 selective antagonist), EMPA (OX2 selective antagonist), and others. Our primary interest was focused on transmembrane helix 3 (TM3), which is identified as being of great importance for the selectivity of OX antagonists. These studies revealed conformational differences between the TM3 helices of OX1 and OX2, resulting from differences in amino acid sequences of the OX receptors that affect key interhelical interactions formed between TM3 and neighboring TM domains. The MD simulation protocol used here, which was followed by flexible docking studies, went beyond the use of static models and allowed for a more detailed exploration of the OX structures. In this work, we have demonstrated how even small differences in the amino acid sequences of GPCRs can lead to significant differences in structure, antagonist binding affinity, and selectivity of these receptors. The MD simulations allowed refinement of the OX receptor models to a degree that was not possible with static homology modeling alone and provided a deeper rationalization of the SDM data obtained. To validate these findings and to demonstrate that they can be usefully applied to the design of novel, very selective OX antagonists, we show here two examples of antagonists designed in house: EP-109-0092 (OX1 selective) and EP-009-0513 (OX2 selective).
Isolation and Characterization of a New Peroxisome Deficient CHO Mutant Cell Belonging to Complementation Group 12 (2009)

We searched for novel Chinese hamster ovary (CHO) cell mutants defective in peroxisome biogenesis by an improved method using peroxisome targeting sequence (PTS) of Pex3p (amino acid residues 1–40)-fused enhanced green fluorescent protein (EGFP). From mutagenized TKaEG3(1–40) cells, the wild-type CHO-K1 stably expressing rat Pex2p and of rat Pex3p(1–40)-EGFP, numerous cell colonies resistant to the 9-(10-pyrene) nonanol/ultraviolet treatment were grown. These colonies were examined for intracellular location of Pex3p(1–40)-EGFP. By this method, we have isolated one CHO cell mutant, ZPEG403, which was found to belong to complementation group G (CG-G). Expression of the human peroxin, Pex3p cDNA encoding a 373-amino-acid peroxisomal membrane protein morphologically and biochemically restored peroxisome biogenesis, including peroxisomal membrane assembly, in ZPEG403 cells. Mutation and genomic DNA PCR analyses showed that, the dysfunction of Pex3p in ZPEG403, was due to one base (A) substitution in place of (G) in the first base of splicing site at the boundary of exon 6 and intron 6 of PEX3 gene, giving rise to remaining of all of intron 6, thereby inducing 81 bp insertion between positions 523–524 of PEX3 ORF, resulting in deletion of 200 amino acid residues from the C-terminus of Pex3p and a frame shift inducing both 18-amino-acid substitution and an early termination codon.
Preferential localization of varying forms of photoactive 1,8-naphthalimide compounds within the atheromatous arterial wall (2000)

These results extend our knowledge and permit a more practical approach to potential vascular applications using these photoactivated compounds for tissue bonding.
13C‐NMR Study of Anomalous Linkages in Polyurethane (1992)

Abstract Several kinds of model compounds for anomalous linkages in polyurethanes (branching or crosslinking; allophanate and biuret) were prepared. The phenylisocyanate (PHI) based models were identified by IR and NMR. The 13 C‐NMR chemical shifts effects due to the anomalous linkages were determined. The 4,4′‐diphenylmethane diisocyanate (MDI) based models were purified incompletely but the characteristic signals of the aromatic carbons were nevertheless found in their spectra. Two types of segmented polyurethane (SPU) were prepared and the anomalous linkages were investigated by 13 C‐NMR. The signals due to the allophanate (Al) and the triphenylbiuret (TB) linkages were observed in the spectra of the SPU prepared at high temperature (&gt;80°C) or prepolymer gels yielded by abnormal reaction. A small signal due to a phenyl carbon of biuret (Bi) linkage was observed even in a normally prepared SPU (polyetherurethane‐urea). Employing the phenyl carbon signals was advantageous for the determination of anomalous linkages because of their larger intensities.
Mining customer preference ratings for product recommendation using the support vector machine and the latent class model (2000)

As Internet commerce becomes more popular, customers' preferences on various products can now be readily acquired on-line via various e-commerce systems. Properly mining this extracted data can generate useful knowledge for providing personalized product recommendation services. In general, recommender systems use two complementary techniques. Content-based systems match customer interests with products attributes, while collaborative filtering systems utilize preference ratings from other customers. In this paper, we address some problems faced by these two systems, and study how machine learning techniques, namely the support vector machine and the latent class model, can be used to alleviated them.
Detection of novel genes that are up-regulated (Di12) or down-regulated (T1A12) with disease progression in breast cancer (1998)

Carcinogenesis is a multistep process and it is believed that seven to ten alterations are needed to convert a normal cell into a maligant one. Thus, identification of these specific genetic lesions and their role in the progression of cancer will lead to more effective methods for early diagnosis, as well as provide targets for treatment and therapeutic intervention. To isolate a number of genes that are differentially expressed in human breast carcinomas we used subtractive hybridization and differential display cloning techniques. By using these methods we obtained 952 clones, characterized 288 clones by restriction mapping, and 105 by Northern blotting and DNA sequencing. Twenty-four clones were found to be previously unidentified, unique genes. Full-length complementary (c)DNA was isolated from clone T1A12 and Di12, and further characterized by computer data search. Polyclonal antibodies were generated against N- and/or C-terminal peptides of the predicted T1A12 and Di12 amino acid sequences and immunohistochemistry was used to delineate gene function in breast cancers. We found that T1A12 is a novel member of the insulin-like growth factor binding protein family and that its expression decreases with disease progression. In 60 primary breast tissues examined, strong T1A12-specific immunoperoxidase staining was observed in luminal epithelial cells of normal lobules or ducts, and in blood vessels. Moderate protein expression was detected in hyperplastic and ductal carcinoma in situ (DCIS) cells, but no staining was found in invasive ductal carcinoma (IDC) cells. On the contrary, by using the same primary breast specimen Di12, a gene which shares no sequence homology with any protein, was found to be overexpressed in IDC cells but was not detectable in normal breast tissues. Specific strong Di12 staining was seen in the cytoplasm, with a slight increase in perinuclear regions of less well differentiated cells similar to those present in ductal carcinomas with poor prognosis. Both the T1A12 and Di12 genes, studied alone or in combination, could prove valuable for understanding the biology of breast cancer, detecting early and late stage disease, and for selecting appropriate treatments.
Can Ferroelectricity Improve Organic Solar Cells? (2020)

Blends of semiconducting (SC) and ferroelectric (FE) polymers have been proposed for applications in resistive memories and organic photovoltaics (OPV). For OPV, the rationale is that the local electric field associated with the dipoles in a blend could aid exciton dissociation, thus improving power conversion efficiency. However, FE polymers either require solvents or processing steps that are incompatible with those required for SC polymers. To overcome this limitation, SC (poly(3-hexylthiophene)) and FE (poly(vinylidene fluoride-trifluoroethylene)) components are incorporated into a block copolymer and thus a path to a facile fabrication of smooth thin films from suitably chosen solvents is achieved. In this work, the photophysical properties and device performance of organic solar cells containing the aforementioned block copolymer consisting of poly(vinylidene fluoride-trifluoroethylene): P(VDF-TrFE), poly(3-hexylthiophene): P3HT and the electron acceptor phenyl-C<sub>61</sub> -butyric acid methyl ester: [60]PCBM are explored. A decrease in photovoltaic performance is observed in blends of the copolymer with P3HT:[60]PCBM, which is attributed to a less favorable nanomorphology upon addition of the copolymer. The role of lithium fluoride (the cathode modification layer) is also clarified in devices containing the copolymer, and it is demonstrated that ferroelectric compensation prevents the ferroelectricity of the copolymer from improving photovoltaic performance in SC-FE blends.
VIM‐1 carbapenemase‐producing Escherichia coli in gulls from southern France (2017)

Acquired carbapenemases currently pose one of the most worrying public health threats related to antimicrobial resistance. A NDM-1-producing <i>Salmonella</i> Corvallis was reported in 2013 in a wild raptor. Further research was needed to understand the role of wild birds in the transmission of bacteria resistant to carbapenems. Our aim was to investigate the presence of carbapenem-resistant <i>Escherichia coli</i> in gulls from southern France. In 2012, we collected 158 cloacal swabs samples from two gull species: yellow-legged gulls (<i>Larus michahellis)</i> that live in close contact with humans and slender-billed gulls (<i>Chroicocephalus genei</i>) that feed at sea. We molecularly compared the carbapenem-resistant bacteria we isolated through culture on selective media with the carbapenem-susceptible strains sampled from both gull species and from stool samples of humans hospitalized in the study area. The genes coding for carbapenemases were tested by multiplex PCR. We isolated 22 carbapenem-resistant <i>E. coli</i> strains from yellow-legged gulls while none were isolated from slender-billed gulls. All carbapenem-resistant isolates were positive for <i>bla</i><sub>VIM</sub><sub>-1</sub> gene. VIM-1-producing <i>E. coli</i> were closely related to carbapenem-susceptible strains isolated from the two gull species but also to human strains. Our results are alarming enough to make it urgently necessary to determine the contamination source of the bacteria we identified. More generally, our work highlights the need to develop more bridges between studies focusing on wildlife and humans in order to improve our knowledge of resistant bacteria transmission routes.
Nonlinear Modeling and Identification of the Dynamic Behavior of Polyurethane Foam (2001)

Abstract The analysis of the steady-state response of a polyurethane foam and mass system to harmonic excitation is given. The foam’s uni-directional dynamic behavior motion is modeled by using nonlinear stiffness, linear viscoelastic and velocity proportional damping components. The relaxation kernel for the viscoelastic model is assumed to be a sum of exponentials. Harmonic balance is used to develop one- and two-term solution approximations that are utilized for system identification. The identification process is based on least-squares minimization of a sub-optimal cost function that uses response data at various excitation frequencies and amplitudes. The effect of number, spacing and amplitudes of the harmonic input on the results of the model parameter estimation is discussed. Model-order choice and the feasibility of describing the system behavior at several input amplitudes with a single set of parameters are also addressed.
Rapid Analytical Method for the Quantification of Bromoform in the Red Seaweeds Asparagopsis armata and Asparagopsis taxiformis Using Gas Chromatography–Mass Spectrometry (2021)

The red seaweed Asparagopsis is rich in bromoform (CHBr3) which effectively inhibits the production of methane in ruminants, and ongoing global research is investigating the potential to utilize Asparagopsis as a feed additive to mitigate livestock methane emissions. Due to its volatility, the concentration of bromoform in the harvested seaweed is affected by processing and storage conditions, and its quantification is thus not trivial. The accurate determination of bromoform in biomass is required for correct inclusion-response calculations and minimum effective feed inclusion rates, for interstudy comparisons, and for optimizing processing protocols. However, no such standardized protocol, with appropriate quality control and quality assurance in place, exists. Here, we present a single-laboratory validation of a simple and rapid GC-MS method for quantifying the concentration of bromoform in seaweeds with a lower limit of quantitation of 0.26 mg/g in freeze-dried material. The method is employed to assess the concentrations of bromoform in frozen and dried Asparagopsis armata and Asparagopsis taxiformis biomass. The linearity, sensitivity, precision, accuracy, and robustness of the assay are presented. In addition, the assay was implemented in two independent laboratories, and the results were compared. The assay has been accredited by the International Accreditation New Zealand (IANZ) as suitable for assessing the concentration of bromoform of frozen and freeze-dried seaweed. Furthermore, the effects of sample storage conditions and freeze-drying of seaweed were investigated, with results highlighting the need of controlled seaweed handling with implications for downstream processing into a potential commercial feed additive.