gebhart/patrepeval huggingface dataset:
Demulsification of crude oil-in-water emulsions by means of fungal spores (2017)

The present feature describes for the first time the application of spores from Aspergillus sp. IMPMS7 to break out crude oil-in-water emulsions (O/W). The fungal spores were isolated from marine sediments polluted with petroleum hydrocarbons. The spores exhibited the ability to destabilize different O/W emulsions prepared with medium, heavy or extra-heavy Mexican crude oils with specific gravities between 10.1 and 21.2°API. The isolated fungal spores showed a high hydrophobic power of 89.3 ± 1.9% and with 2 g of spores per liter of emulsion, the half-life for emulsion destabilization was roughly 3.5 and 0.7 h for extra-heavy and medium crude oil, respectively. Then, the kinetics of water separation and the breaking of the O/W emulsion prepared with heavy oil through a spectrofluorometric technique were studied. A decrease in the fluorescence ratio at 339 and 326 nm (I339/I326) was observed in emulsions treated with spores, which is similar to previously reported results using chemical demulsifiers.
A rat brain Sec1 homologue related to Rop and UNC18 interacts with syntaxin. (1994)

Sec1 is a hydrophilic protein that plays an essential role in exocytosis from the yeast Saccharomyces cerevisiae. Two high copy suppressors of mutations in the Sec1 gene, SSO1 and SSO2, were recently identified that encode proteins of the syntaxin family. Syntaxin (a T-SNARE), together with SNAP-25 and synaptobrevin/VAMP (a T- and a V-SNARE, respectively), is thought to form the core of the docking-fusion complex in synaptic vesicle exocytosis. Proteins that exhibit similarity to Sec1 were identified in the nervous system of Drosophila melanogaster (Rop) and Caenorhabditis elegans (UNC18). Based on the amino acid sequence alignment of Sec1, Rop, and UNC18, we have used a PCR-based approach to isolate a rat brain cDNA encoding a Sec1 homologue. The cDNA hybridizes to a 3.5-kb brain-specific mRNA by Northern blot analysis and encodes a protein of 593 amino acids (rbSec1). Antibodies raised against a central portion of rbSec1 recognize a 67.5-kDa protein in total homogenates of rat brain but not of nonneuronal tissues. When incubated with a Triton X-100 brain extract, rbSec1-glutathione S-transferase (GST) fusion protein, but not GST protein alone, specifically interacts with syntaxin but not with SNAP-25 or synaptobrevin/VAMP. We conclude that the function of proteins of the Sec1 family in membrane fusion involves an interaction with a T-SNARE.
Neurobiology of molt in avian species (2003)

Postnuptial molt is the major molt that occurs in most wild and domestic avian species each year. The process is much more than the replacement of feathers. Studies have shown that a significant increase in metabolic rate, increase in whole body protein synthesis, osteoporosis, loss of body fat, and a suppression of the immune system occur during this event of a bird's annual cycle. Several procedures have been developed to initiate feather replacement, and this review addresses hormonal and neuropeptide treatments that effected molt. The administration of thyroxine, progesterone, gonadotropin-releasing hormone agonist, and prolactin were examined. Of the four, the two most effective were thyroxine and prolactin administration. The neural modulators known to release thyroxine and prolactin, respectively, are thyroid hormone releasing hormone (TRH) and vasoactive intestinal polypeptide (VIP). To gain insight into the possible functions of VIP and TRH, the distribution of these neuromodulators and their terminal fields were reviewed in the avian brain. It was found that VIP-containing neurons and fibers identified a neural system in birds comparable to the visceral forebrain system (VFS) described in mammals. The VFS functions to regulate the balance of the autonomic nervous system. The autonomic nervous system and, therefore, the VFS have been proposed to regulate the many behavioral and physiological events in the annual cycle of a bird, including postnuptial molt. In contrast to VIP that has an extensive brain distribution throughout the forebrain and brainstem, TRH is relatively restrictive and has a main concentration in nerve cells in and about the paraventricular nucleus, a key neural component of the VFS. Due to the roll of TRH in regulating the thyroid axis and operating within the framework of the VFS, it is proposed that the peptide functions to shift the balance of the autonomic nervous system in the direction of the sympathetic nervous system. A shift toward the dominance of the sympathetic nervous system appears to be required during this phase of a bird's yearly cycle.
The Use of an Electrophysiological Brain Function Index in the Evaluation of Concussed Athletes (2017)

Controls and athletes with a concussion exhibited equivalent BFI scores at preseason baseline. The concussive injury (measured within 72 hours) significantly affected brain function reflected in the BFI in the athletes with a concussion. The BFI of the athletes with a concussion returned to levels seen in controls by day 45, suggesting recovery. The BFI may provide an important objective marker of concussive injury and recovery.
Application of Prostate Cancer Models for Preclinical Study: Advantages and Limitations of Cell Lines, Patient-Derived Xenografts, and Three-Dimensional Culture of Patient-Derived Cells (2019)

Various preclinical models have been developed to clarify the pathophysiology of prostate cancer (PCa). Traditional PCa cell lines from clinical metastatic lesions, as exemplified by DU-145, PC-3, and LNCaP cells, are useful tools to define mechanisms underlying tumorigenesis and drug resistance. Cell line-based experiments, however, have limitations for preclinical studies because those cells are basically adapted to 2-dimensional monolayer culture conditions, in which the majority of primary PCa cells cannot survive. Recent tissue engineering enables generation of PCa patient-derived xenografts (PDXs) from both primary and metastatic lesions. Compared with fresh PCa tissue transplantation in athymic mice, co-injection of PCa tissues with extracellular matrix in highly immunodeficient mice has remarkably improved the success rate of PDX generation. PDX models have advantages to appropriately recapitulate the molecular diversity, cellular heterogeneity, and histology of original patient tumors. In contrast to PDX models, patient-derived organoid and spheroid PCa models in 3-dimensional culture are more feasible tools for in vitro studies for retaining the characteristics of patient tumors. In this article, we review PCa preclinical model cell lines and their sublines, PDXs, and patient-derived organoid and spheroid models. These PCa models will be applied to the development of new strategies for cancer precision medicine.
Identification and use of operating room efficiency indicators: the problem of definition (2013)

To measure operating room (OR) performance and efficiency, hospitals need scorecards or dashboards displaying and tracking core performance indicators.[1][1]–[3][2] Scorecards should be monitored on an ongoing basis and benchmarked both internally against performance over time and externally
Image quality improvement for electrophoretic displays by combining contrast enhancement and halftoning techniques (2009)

The electrophoretic display (EPD) has dominated the panel used in electronic readers. However, getting more than 16 observable gray levels on an EPD is still a big challenge. A true color image should be converted into a 16 gray level image for displaying it on an EPD. In this paper, we propose an image processing tool that combines contrast enhancement and the modified Nasik pattern halftoning to deal with the problems in the image conversion chain. The experimental results show that the processed image has preserved more image textures after the image data are quantized into 16 gray levels1.
Biocavity laser spectroscopy of genetically altered yeast cells and isolated yeast mitochondria (2006)

We report an analysis of 2 yeast cell mutants using biocavity laser spectroscopy. The two yeast strains differed only by the presence or absence of mitochondrial DNA. Strain 104 is a wild-type (ρ<sup>+</sup>) strain of the baker's yeast, <i>Saccharomyces cerevisiae</i>. Strain 110 was derived from strain 104 by removal of its mitochondrial DNA (mtDNA). Removal of mtDNA causes strain 110 to grow as a "petite" (ρ<sup>-</sup>), named because it forms small colonies (of fewer cells because it grows more slowly) on agar plates supplemented with a variety of different carbon sources. The absence of mitochondrial DNA results in the complete loss of all the mtDNA-encoded proteins and RNAs, and loss of the pigmented, heme-containing cytochromes a and b. These cells have mitochondria, but the mitochondria lack the normal respiratory chain complexes I, III, IV, and V. Complex II is preserved because its subunits are encoded by genes located in nuclear DNA. The frequency distributions of the peak shifts produced by wild-type and petite cells and mitochondria show striking differences in the symmetry and patterns of the distributions. Wild-type ρ<sup>+</sup> cells (104) and mitochondria produced nearly symmetric, Gaussian distributions. The ρ<sup>-</sup> cells (110) and mitochondria showed striking asymmetry and skew that appeared to follow a Poisson distribution.
Modified nucleosides in urine: selective removal and analysis. (1976)

Because excretion of certain nucleosides increases in all types of cancer, detection and treatment of the disease would be enhanced by rapid, simple quantitation of such nucleotides. To facilitate these analyses in urine, we have prepared a specific adsorbent for nucleosides. The affinity adsorbent gel contains an immobilized phenylboronic acid group that specifically binds cis-diols, as in ribonucleosides, which can then be quantititatively recovered by elution with acetic acid. The advantage of this boronate gel over other preparations lies in its high capacity in the swollen state (0.26 mmol/ml), so that only small volumes (less than 1 ml) of gel are required for assays. Nucelosides containing a free diol group on the ribosyl group are retained at pH 8.8 in 0.25 mol/liter salt solution with a retention volume of 15 or larger, as compared with values of 1 to 2 for the free bases. Negatively charged species (not including the boronate complex) are eluted earlier than neutral or cationic species. Added nucleosides (neutral, cationic, or anionic) are quantitatively recovered. Because pseudouridine is eluted in a unique position, this property has been used to measure it in urine. The procedures used are chemically mild. For example, we have confirmed the observation of Fink and Adams [Arch. Biochem. Biophys. 126, 27 (1968)] that urine contains N1-methyladenosine and not N6-methyladenosine, the alkaline rearranged product.
Hydrazine-Air Fuel Cells (1967)

A fuel cell is an electrochemical device that continues to generate electrical power as long as reactants are supplied and products are removed at properly controlled rates. An assembly of cells is required within which the conversion of chemical to electrical energy occurs; also required is a set of auxiliary components to supply the reactants and remove the products (including waste heat) under controlled steady-state conditions. In addition to the desired energy-conversion reactions, there are deleterious side reactions that can impair fuel economy. From knowledge of these factors influencing the possible reactions, and guided by principles of elementary chemical thermodynamics, the electrochemist can select optimum conditions for cell performance. It is then the job of the engineer to design auxiliary components and controlling devices to provide the electrochemical cells with the best possible approach to these optimum conditions.
Integrated systems reassess strategies. (1999)

Integrated health care delivery systems are reassessing their strategies and goals in light of recent experience. The latest data on HMOs suggests more are at least partially owned by integrated systems and hospitals and that integrated systems' hospitals are gaining market share, writes Donald E. L. Johnson.
Robustness-Driven Resilience Evaluation of Self-Adaptive Software Systems (2015)

An increasingly important requirement for certain classes of software-intensive systems is the ability to self-adapt their structure and behavior at run-time when reacting to changes that may occur to the system, its environment, or its goals. A major challenge related to self-adaptive software systems is the ability to provide assurances of their resilience when facing changes. Since in these systems, the components that act as controllers of a target system incorporate highly complex software, there is the need to analyze the impact that controller failures might have on the services delivered by the system. In this paper, we present a novel approach for evaluating the resilience of self-adaptive software systems by applying robustness testing techniques to the controller to uncover failures that can affect system resilience. The approach for evaluating resilience, which is based on probabilistic model checking, quantifies the probability of satisfaction of system properties when the target system is subject to controller failures. The feasibility of the proposed approach is evaluated in the context of an industrial middleware system used to monitor and manage highly populated networks of devices, which was implemented using the Rainbow framework for architecture-based self-adaptation.
Alteration of the glycolipid binding specificity of the pig edema toxin from globotetraosyl to globotriaosyl ceramide alters in vivo tissue targetting and results in a verotoxin 1-like disease in pigs. (1993)

All members of the verotoxin (VT) family specifically recognize globo-series glycolipids on the surface of susceptible cells. Those toxins that are associated with human disease, VT1, VT2, and VT2c, bind to globotriaosyl ceramide (Gb3) while VT2e, which is associated with edema disease of swine, binds preferentially to globotetraosyl ceramide (Gb4). We were recently able to identify, using site-directed mutagenesis, amino acids in the binding subunit of these toxins that are important in defining their glycosphingolipid (GSL) binding specificity (Tyrrell, G. J., K. Ramotar, B. Boyd, B. W. Toye, C. A. Lingwood, and J. L. Brunton. 1992. Proc. Natl. Acad. Sci. USA. 89:524). The concomitant mutation of Gln64 and Lys66 in the VT2e binding subunit to the corresponding residues (Glu and Gln, respectively) found in VT2 effectively converted the GSL binding specificity of the mutant toxin from Gb4 to Gb3 in vitro. We now report that the altered carbohydrate recognition of the mutant toxin (termed GT3) has biological significance, resulting in a unique disease after intravascular injection into pigs as compared with classical VT2e-induced edema disease. The tissue localization of radiolabeled GT3 after intravascular injection was elevated in neural tissues compared with VT2e accumulation, while localization of GT3 to the gastrointestinal tract was relatively reduced. Accordingly, the pathological lesions after challenge with GT3 involved gross edema of the cerebrum, cerebellum, and brain stem, while purified VT2e caused hemorrhage and edema of the cerebellum, and submucosa of the stomach and large intestine. In addition, both radiolabeled toxins bound extensively to tissues not directly involved in the pathology of disease. VT2e, unlike GT3 or VT1, bound extensively to red cells, which have high levels of Gb4. The overall tissue distribution of VT2e was thus found to be influenced by regional blood flow to each organ and not solely by the Gb4 levels of these tissues. Conversely, the distribution of GT3 (and VT1), which cleared more rapidly from the circulation, correlated with respective tissue Gb3 levels rather than blood flow. These studies indicate the primary role of carbohydrate binding specificity in determining systemic pathology, suggest that the red cells act as a toxin carrier in edema disease, and indicate that red cell binding does not protect against the pathology of systemic verotoxemia.
Effect of the flow rates in linear, ideal, simulated moving‐bed chromatography (1997)

Abstract The algebraic solution for linear, ideal simulated moving‐bed (SMB) chromatography derived previously revealed important new properties of the SMB process. This solution was validated by comparing with experimental data and with the results of numerical solutions of the equilibrium–dispersive and the lumped kinetic model. This earlier solution, however, was limited to the simple case in which the safety factor was assumed to be the same for the flow rates in all four sections. An extension of this solution to the case in which the safety factors differ and allow an independent selection of the four different flow rates (within limits) is derived. This solution accounts well for most practical situations. It permits the discussion of the influence of different flow rates on the performance of an SMB unit, an issue of critical importance for the optimization of the design and operation of these separators.
Switchable Nanodumbbell Probes for Analyte Detection (2012)

Nanodumbbell gold nanoparticle (AuNP) dimers connected by DNA show significant change in interparticle distance in the presence of a specific analyte, ATP. The nanodumbbell begins in an extended state, but after the addition of the analyte, the DNA connecting the AuNPs forms a stable hairpin, which causes a large decrease in the interparticle distance.
Monitoring subsurface changes over time with cross‐well electromagnetic tomographyt<sup>1</sup> (1995)

Abstract A fast imaging technique is developed to deduce the spatial conductivity distribution in the earth from low‐frequency (> 1 MHz) cross‐well electromagnetic measurements. A sinusoidally oscillating, vertically orientated, magnetic dipole employed as a source, and it is assumed that the scattering bodies are azimuthally symmetric about the source dipole axis. The use of this model geometry reduces the 3D vector problem to a more manageable 2D scalar form. Additional efficiency is obtained by using the Born series approximation which is derived from nonlinear integral equations that account for the scattered magnetic fields generated by inhomogeneities embedded in a layered earth. Stabilization of the inversion problem is accomplished through the use of bounding constraints and a regularization method which results in a smooth model that fits the data to the desired noise level. The applicability of cross‐well electromagnetics for imaging and monitoring changes caused by subsurface processes has been tested by simulating plumes of conductive fluid with 2D models. The images that result from inverting these synthetic data indicate that the vertical resolution of the method is better than the horizontal, increasing the noise decreases the image resolution, and incorporating a priori knowledge in the form of positivity constraints improves the results. Although higher operating frequencies are usually associated with better resolution, frequencies as low as 100 Hz can produce acceptable images in simulated oilfield environments. The imaging scheme has been applied to data collected during a salt‐water injection experiment at the Richmond Field Station test site in Richmond, California. Both the data and the resulting images clearly reveal the presence of the plume and indicate that it is migrating towards the north‐northwest rather than spreading symmetrically about the injection well. Applying the imaging code to synthetic data generated by a 3D sheet model verifies the interpretation of these results.
Introduction. (2000)

<title>Abstract</title> This introductory chapter to this book on seed carbohydrates of grain legumes provides background information on the following subjects: the grain legumes; grain legume production; grain legume composition; and grain legume carbohydrates. A list is provided on the common grain legumes grown in the world and their uses. Data are tabulated on: the proportion of cultivated land used for legume production in different countries; grain legume yields by country; food and feed uses of grain legumes in the European Union; grain legume share in protein crops and protein requirement for animal production within the European Union; grain legumes used for animal feed in Europe; consumption of grain legumes for human nutrition; protein, oil and carbohydrate composition of grain legumes seeds; and carbohydrate composition of grain legumes.
[Progress in research and the clinical prospect of hepatic stem cells]. (2005)

1988年Bumgardner等人率先提出了肝细胞移植概念,1993年Mito等在世界上开展了首例人体肝细胞移植.此后,从原位整肝移植到原位肝细胞移植,进而发展到干细胞移植,肝细胞移植治疗技术取得了巨大进展.特别是近年来随着肝干细胞分离、培养、鉴定及其增殖技术的发展和成熟,将多种来源的肝干细胞用作细胞移植、生物人工肝装置以及基因治疗的主要来源细胞,已经引起了广泛关注。
Production of medium-chain-length polyhydroxyalkanoates by high-cell-density cultivation of Pseudomonas putida under phosphorus limitation (2000)

High-cell-density fed-batch cultures of Pseudomonas putida were carried out for the production of medium-chain-length polyhydroxyalkanoates (PHAs) using oleic acid as a carbon source. By employing an optimal feeding strategy without the limitation of any nutrient, a high cell concentration of 173 g/L was achieved, but the PHA concentration and PHA content were only 32.3 g/L and 18.7 wt%, respectively. To increase the PHA concentration and content, phosphorus limitation was applied during fed-bath culture by reducing the initial KH2PO4 concentration. When the initial KH2PO4 concentration was reduced to 4 g/L, cell concentration, PHA concentration, and PHA content obtained in 38 h were 141 g/L, 72.6 g/L, and 51.4 wt%, respectively, resulting in a high productivity of 1.91 g PHA/L per hour. © 2000 John Wiley & Sons, Inc. Biotechnol Bioeng 68: 466–470, 2000.
Human Gingival Fibroblasts Display a Non-Fibrotic Phenotype Distinct from Skin Fibroblasts in Three-Dimensional Cultures (2014)

Scar formation following skin injury can be a major psychosocial and physiological problem. However, the mechanisms of scar formation are still not completely understood. Previous studies have shown that wound healing in oral mucosa is faster, associates with a reduced inflammatory response and results to significantly reduced scar formation compared with skin wounds. In the present study, we hypothesized that oral mucosal fibroblasts from human gingiva are inherently distinct from fibroblasts from breast and abdominal skin, two areas prone to excessive scar formation, which may contribute to the preferential wound healing outcome in gingiva. To this end, we compared the phenotype of human gingival and skin fibroblasts cultured in in vivo-like three-dimensional (3D) cultures that mimic the cells' natural extracellular matrix (ECM) niche. To establish 3D cultures, five parallel fibroblast lines from human gingiva (GFBLs) and breast skin (SFBLs) were seeded in high density, and cultured for up to 21 days in serum and ascorbic acid containing medium to induce expression of wound-healing transcriptome and ECM deposition. Cell proliferation, morphology, phenotype and expression of wound healing and scar related genes were analyzed by real-time RT-PCR, Western blotting and immunocytochemical methods. The expression of a set of genes was also studied in three parallel lines of human abdominal SFBLs. Findings showed that GFBLs displayed morphologically distinct organization of the 3D cultures and proliferated faster than SFBLs. GFBLs expressed elevated levels of molecules involved in regulation of inflammation and ECM remodeling (MMPs) while SFBLs showed significantly higher expression of TGF-b signaling, ECM and myofibroblast and cell contractility-related genes. Thus, GFBLs display an inherent phenotype conducive for fast resolution of inflammation and ECM remodeling, characteristic for scar-free wound healing, while SFBLs have a profibrotic, scar-prone phenotype.