gebhart/patrepeval huggingface dataset:
Measuring potential doubling times of murine tumors using flow cytometry (1991)

Flow cytometric analysis of bromodeoxyuridine (BrdUrd) labeled cells has led to the description of various methods for determining population potential doubling times (Tpot) from samples obtained at a single time point. There have been several reports of results from human tumor samples using these various methods of analysis, but little documentation of the validity of these approaches in experimental tumor models. Recently, we reported results using in vitro cell cultures and determined the most reliable method for these. In this paper we report the results of this methodology when applied to two in vivo murine tumor models (MCaK and FSA). The analytic approach tested is summarized as follows: The relative movement (RMlu(t], a measure of the mean DNA fluorescence of BrdUrd-labeled cells that have not undergone division at the time of sampling, and a quantity v, a function of the fractions of BrdUrd-labeled divided and undivided cells, were measured for a series of time points following labeling. From each value of RMlu(t) an estimate of the length of S-phase (TS) was computed and from each v and TS a value for Tpot was found. These results were compared to the values of TS and Tpot obtained by fitting all the values simultaneously. Tumor MCaK values of TS and Tpot of 9.6 and 28.0 h were obtained from fitting all of the data. Tumor FSA gave values of 16.8 and 42.3 h for TS and Tpot, respectively. The results of this analysis show that single time point measurements can give reliable estimates of TS and Tpot.
Business data management for business-to-business electronic commerce (2002)

Business-to-business electronic commerce (B2B EC) opens up new possibilities of trade. For example, new business partners from around the globe can be found, their offers can be compared, even complex negotiations can be conducted electronically, and a contract can be drawn up and fulfilled via an electronic marketplace. However, a sophisticated data management is required to provide such factilities. In this paper, the results of a multi-national project on creating a business-to-business electronic marketplace for small and medium-sized enterprises are presented. Tools for information discovery, protocol-based negotiations, and monitored contract enactment are provided and based on a business data repository. The repository integrates heterogeneous business data with business communication. Specific problems such as multi-linguality, data ownership, and traceability of contracts and related negotiations are addressed and it will be shown that the present approach provides efficient business data management for B2B EC.
Moisture and temperature effects on the dielectric spectrum of transformer pressboard (2003)

The dielectrometry spectrum of pressboard is a function of its temperature and moisture content. In transformer pressboard, it has been shown that the dielectric spectrum does not vary in shape with temperature and moisture content, but that there is a shift in amplitude and frequency. Thus it is possible to create a master curve, with appropriate temperature correction factors, containing information about the moisture contents from transformer pressboard dielectrometry measurements. Extensive measurements of dielectric properties of oil-free transformer pressboard as a function of mine moisture levels (0-5.7%) and five temperature levels (30-70/spl deg/C) were conducted in order to quantify effects that will allow the prediction of moisture content of insulation by measuring its dielectric spectrum, thus allowing an on-line non-destructive moisture measurement method in pressboard. A dielectric model for biological tissue is adopted for the cellulose-structured pressboard. The master curve is found by fitting the data to the model. The paper presents measured curves that show similar trends as reported in the literature. In addition, new quantitative analysis is presented for oil-free pressboard.
Environmental and Public Health Implications of Water Reuse: Antibiotics, Antibiotic Resistant Bacteria, and Antibiotic Resistance Genes (2013)

Water scarcity is a global problem, and is particularly acute in certain regions like Africa, the Middle East, as well as the western states of America. A breakdown on water usage revealed that 70% of freshwater supplies are used for agricultural irrigation. The use of reclaimed water as an alternative water source for agricultural irrigation would greatly alleviate the demand on freshwater sources. This paradigm shift is gaining momentum in several water scarce countries like Saudi Arabia. However, microbial problems associated with reclaimed water may hinder the use of reclaimed water for agricultural irrigation. Of particular concern is that the occurrence of antibiotic residues in the reclaimed water can select for antibiotic resistance genes among the microbial community. Antibiotic resistance genes can be associated with mobile genetic elements, which in turn allow a promiscuous transfer of resistance traits from one bacterium to another. Together with the pathogens that are present in the reclaimed water, antibiotic resistant bacteria can potentially exchange mobile genetic elements to create the "perfect microbial storm". Given the significance of this issue, a deeper understanding of the occurrence of antibiotics in reclaimed water, and their potential influence on the selection of resistant microorganisms would be essential. In this review paper, we collated literature over the past two decades to determine the occurrence of antibiotics in municipal wastewater and livestock manure. We then discuss how these antibiotic resistant bacteria may impose a potential microbial risk to the environment and public health, and the knowledge gaps that would have to be addressed in future studies. Overall, the collation of the literature in wastewater treatment and agriculture serves to frame and identify potential concerns with respect to antibiotics, antibiotic resistant bacteria, and antibiotic resistance genes in reclaimed water.
ChemInform Abstract: The “Non‐Oxidative” Chloro‐Pummerer Reaction: A Highly Stereoselective Entry to β‐Chloro Amines and Aziridines. (2001)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Anti-allergic effect of the Src family kinase inhibitor saracatinib. (2020)

The aim of this study was to evaluate the anti-anaphylactic and anti-allergic potentials of saracatinib, a Src family kinase inhibitor that was already shown to be safe in clinical trials when it was used as an anti-cancer drug. Using <i>in vitro</i> mast cell models, we found that saracatinib inhibited the degranulation response and cytokine production in RBL2H3 cells that were stimulated with IgE and antigen without affecting cell viability. Phosphorylation of Lyn, Akt, a PI3K substrate, and MAPKs including ERK, JNK, and p38, as well as the intracellular Ca<sup>2+</sup> increase induced by this stimulation were also suppressed by saracatinib. This drug also inhibited symptoms in our established anaphylaxis mouse model, anaphylaxis-dependent spotted distribution of immune complex in skin (ASDIS). The intravenous injection of the mixture of IgE and antigen induced acute spotted distribution of immune complex in skin in hairless HR-1 mice, and its inhibition by intradermal injection of saracatinib was observed. Moreover, toluidine blue-stained skin sections indicated that the degranulation ratio of dermal mast cells was reduced in saracatinib-treated skin compared with vehicle-treated skin. Because only a few signaling inhibitors are used as anti-anaphylaxis and anti-allergic drugs, these results indicated the valuable suggestion that saracatinib and the Src family kinase inhibitors are good candidates for anti-anaphylaxis and anti-allergic drugs.
Immune Response in Primates Vaccinated with Duck Embryo Cell Culture Rabies Vaccine (1973)

Adult rhesus monkeys (Macaca mulata) were vaccinated with four inactivated rabies vaccines, including two cell culture vaccines, one zonal purified cell culture vaccine, and a 10% extracted duck embryo vaccine. The vaccines were potency tested by both National Institutes of Health (NIH) and Habel methods and passed one or both tests. However, a vaccine having acceptable potency by one method frequently failed or was marginal by the other procedure. Groups of three monkeys were inoculated with each vaccine by one of two schedules. The first consisted of four weekly 1-ml doses followed by a 1-ml booster dose at 6 months, and the second consisted of seven daily 1-ml doses of vaccine with no booster. Both zonal purified and extracted duck embryo vaccines induced detectable neutralizing antibody by day 7 with either schedule, and antibody titers elicited by the cell culture vaccine remained high through 210 days. However, antibody titers produced by the 10% duck embryo vaccine dropped sharply after their 28-day peak. Duck embryo cell culture vaccines with low or marginal potency as measured by Habel or NIH tests still produced rapid, high levels of serum-neutralizing antibody in primates. LD(50) or NIH and Habel tests as measured in mice were not necessarily good indices of antibody response in the primate host. The need for a cell culture potency test that will yield a more predictable correlation with the definitive host's antibody response is discussed.
Slip length measurement of gas flow (2016)

In this paper, we present a review of the most important techniques used to measure the slip length of gas flow on isothermal surfaces. First, we present the famous Millikan experiment and then the rotating cylinder and spinning rotor gauge methods. Then, we describe the gas flow rate experiment, which is the most widely used technique to probe a confined gas and measure the slip. Finally, we present a promising technique using an atomic force microscope introduced recently to study the behavior of nanoscale confined gas.
Molecular Basis of the Indole-Negative Reaction in Shigella Strains: Extensive Damages to the tna Operon by Insertion Sequences (2004)

The molecular basis of the loss of tryptophan utilization (indole-negative phenotype) of Shigella strains, in effect clones of Escherichia coli, was investigated. Analysis of the tna operon of 23 Shigella strains representing each of the indole-negative serotypes revealed that insertion sequence-mediated insertion and/or deletions damaged the tna operon, leading to inability to convert tryptophan to indole. These events differ for cluster 1, cluster 3, and the outlier Shigella strains, confirming our previous observation of independent origins of these lineages from within E. coli. Parallel loss of the trait and prevalence of indole-negative strains suggest that the trait is deleterious in Shigella strains and advantages those without it.
Molecular Modeling of the Interactions of Glutamate Carboxypeptidase II with Its Potent NAAG-Based Inhibitors (2002)

Glutamate carboxypeptidase II (GCPII, NAALADase, or NAAG peptidase) is a catalytic zinc metallopeptidase. Its extracellular domain hydrolyzes the abundant neuropeptide, N-acetyl-L-aspartyl-L-glutamate (NAAG), to produce N-acetylaspartate and glutamate following the synaptic release of this transmitter. Thus, GCPII influences the extracellular concentrations of both glutamate and NAAG. NAAG activates group II metabotropic glutamate receptors, and activation of this receptor has been found to protect against anoxia-induced excitotoxic nerve cell death. In contrast, high levels of glutamate can be neurotoxic. Thus, GCPII is a potential therapeutic target for the reduction of excitotoxic levels of glutamate and enhancement of extracellular NAAG. To explore the structural basis of the interaction between GCPII and its inhibitors, we modeled the three-dimensional structure of the GCPII extracellular domain using a homology modeling approach. On the basis of the GCPII model, the structures of GCPII in complex with its potent inhibitors 2-(phosphonomethyl)pentanedioic acid (PMPA) and 4,4'-phosphinicobis(butane-1,3-dicarboxylic acid) (PBDA) were built by a computational docking method. The model of GCPII mainly consists of two alpha/beta/alpha sandwiches, between which two zinc ions are quadrivalently coordinated by the His379-Asp389-Asp455-H(2)O and the Asp389-Glu427-His555-H(2)O clusters, respectively. The ligand binding pocket is situated between these two sandwiches and is comprised of two subpockets: one is a surface-exposed highly positively charged subpocket; the other is a buried hydrophobic subpocket. The positively charged subpocket can accommodate the pharmacophore groups of inhibitor molecules (PMPA and PBDA) through the coordination of Zn(2+) with their phosphorus functionality and hydrogen-bonding interactions with Arg536, Arg538, and Ser456 (or Asn521), while the hydrophobic subpocket is engaged in hydrophobic and hydrogen-bonding interactions with the nonpharmacophore groups of PBDA. The predicted binding mode is consistent with the experimental data obtained from site-directed mutagenesis. On the basis of the predicted interaction mode, our structure-based design has led to a series of highly potent GCPII inhibitors.
Finding stale-value errors in concurrent programs: Research Articles (2004)

Concurrent programs can suffer from many types of errors, not just the well-studied problems of deadlocks and simple race conditions on variables. This paper addresses a kind of race condition that arises from reading a variable whose value is possibly out of date. The paper introduces a simple technique for detecting such stale values, and reports on the encouraging experience with a compile-time checker that uses the technique. Copyright © 2004 John Wiley & Sons, Ltd.
Pocket guide to infusion therapy (2005)

1. Infusion Therapy 2. Venipuncture 3. Central Venous Catheters 4. Peripherally Inserted Central Catheters 5. IV Fluids 6. IV Medication Administration 7. Blood and Blood Component Administration 8. Chemotherapy Administration 9. Parenteral Nutrition 10. Vascular Access in Adult Critical Care 11. Pediatric Infusion Therapy 12. Home Care Infusion Therapy 13. Calculations for IV Infusions 14. Professional Resources Bibliography
A Synthesis of the Solutions of Spectroscopic and Visual Binary Orbits (1975)

A method which simultaneously yields a complete set of orbital elements from spectroscopic and visual binary observations is described. The technique is applied to Burnham 1163. Key word: spectroscopic binaries - visual binaries - orbital elements
Thermal Cycling Life of Porous Ceramic Coatings Subjected to Thermal Gradient and Coolant Pressure (2014)

A transpiration cooling system for gas turbine applications has significant benefit to reduce the amount of cooling air and to increase cooling efficiency. We had developed a porous ceramic coating deposited by plasma spraying process, which can infiltrate cooling gas, and examined about those mechanical properties. In this study, thermal cycling life of this porous ceramic coating is revealed in order to apply this technology to advanced gas turbine blade in practical use. The thermal cycling test is conducted by using the hand-made device which can heat cyclically up and down around the surface of the porous coating while infiltrating cooling gas. The number of thermal cycles up to reach the coating delamination is related with maximum exposed temperature and pressure of the cooling gas as the test condition, consequently.
Multiomics analysis of the NAD+–PARP1 axis reveals a role for site-specific ADP-ribosylation in splicing in embryonic stem cells (2022)

The differentiation of embryonic stem cells (ESCs) into a lineage-committed state is a dynamic process involving changes in cellular metabolism, epigenetic modifications, post-translational modifications, gene expression, and RNA processing. Here we integrated data from metabolomic, proteomic, and transcriptomic assays to characterize how alterations in NAD<sup>+</sup> metabolism during the differentiation of mouse ESCs lead to alteration of the PARP1-mediated ADP-ribosylated (ADPRylated) proteome and mRNA isoform specialization. Our metabolomic analyses indicate that mESCs use distinct NAD<sup>+</sup> biosynthetic pathways in different cell states: the de novo pathway in the pluripotent state, and the salvage and Preiss-Handler pathways as differentiation progresses. We observed a dramatic induction of PARP1 catalytic activity driven by enhanced nuclear NAD<sup>+</sup> biosynthesis during the early stages of mESC differentiation (e.g., within 12 h of LIF removal). PARP1-modified proteins in mESCs are enriched for biological processes related to stem cell maintenance, transcriptional regulation, and RNA processing. The PARP1 substrates include core spliceosome components, such as U2AF35 and U2AF65, whose splicing functions are modulated by PARP1-mediated site-specific ADP-ribosylation. Finally, we observed that splicing is dysregulated genome-wide in <i>Parp1</i> knockout mESCs. Together, these results demonstrate a role for the NAD<sup>+</sup>-PARP1 axis in the maintenance of mESC state, specifically in the splicing program during differentiation.
Transcriptomic features associated with energy production in the muscles of Pacific bluefin tuna and Pacific cod (2016)

Bluefin tuna are high-performance swimmers and top predators in the open ocean. Their swimming is grounded by unique features including an exceptional glycolytic potential in white muscle, which is supported by high enzymatic activities. Here we performed high-throughput RNA sequencing (RNA-Seq) in muscles of the Pacific bluefin tuna (Thunnus orientalis) and Pacific cod (Gadus macrocephalus) and conducted a comparative transcriptomic analysis of genes related to energy production. We found that the total expression of glycolytic genes was much higher in the white muscle of tuna than in the other muscles, and that the expression of only six genes for glycolytic enzymes accounted for 83.4% of the total. These expression patterns were in good agreement with the patterns of enzyme activity previously reported. The findings suggest that the mRNA expression of glycolytic genes may contribute directly to the enzymatic activities in the muscles of tuna.
ERS-210 Mobile Video Surveillance System (2005)

This paper describes an application of the ERS210 Sony robot as a mobile video surveillance system. The robot is completely autonomous, moving itself throughout the environment, avoiding obstacles, thus imposing no threat to itself neither to others. The robot is able to photograph moving targets and send the pictures back to a surveillance server. It also acknowledges commands to execute several actions, such as moving, stopping or emitting sounds. As a security measure, an alarm signal is emitted whenever the robot is picked up. The first experiences performed on our lab showed the effectiveness of the system. The robot is able to detect and photograph all moving targets that move in its environment, sending appropriate pictures to be stored in the surveillance server.
Identification of two phosphorylated threonines in the tail region of Dictyostelium myosin II. (1988)

We have previously purified and characterized a Dictyostelium myosin II heavy chain kinase which phosphorylates threonine residues (Côté, G. P., and Bukiejko, U. (1987) J. Biol. Chem. 262, 1065-1072). The phosphorylated threonines are located within a 34-kDa fragment which can be selectively cleaved from the carboxyl terminal end of the Dictyostelium myosin II tail. Tryptic and chymotryptic digests of the 34-kDa fragment phosphorylated with the kinase have now been performed and the resulting phosphopeptides isolated and sequenced. Two phosphorylated threonine residues have been identified, corresponding to residues 1833 and 2029 in the complete amino acid sequence of the Dictyostelium myosin II heavy chain. These amino acids are 87 and 283 residues, respectively, distant from the carboxyl terminus of the Dictyostelium myosin II heavy chain and are present in sections of the tail which seem to be alpha-helical coiled coils. In contrast, the three Acanthamoeba myosin II heavy chain phosphorylation sites are located within 10 residues of each other in a small globular domain at the carboxyl terminal tip of the tail (Côté, G. P., Robinson, E. A., Appella, E., and Korn, E. D. (1984) J. Biol. Chem. 259, 12781-12787). This suggests that the mechanism by which heavy chain phosphorylation inhibits the actin-activated ATPase activity and filament-forming properties of the two myosins may be quite different.
Stimulation of Proglucagon Gene Expression by Human GPR119 in Enteroendocrine L-cell Line GLUTag (2013)

GPR119 is a G protein-coupled receptor expressed on enteroendocrine L-cells that synthesize and secrete the incretin hormone glucagon-like peptide-1 (GLP-1). Although GPR119 agonists stimulate L-cell GLP-1 secretion, there is uncertainty concerning whether GLP-1 biosynthesis is under the control of GPR119. Here we report that GPR119 is functionally coupled to increased proglucagon (PG) gene expression that constitutes an essential first step in GLP-1 biosynthesis. Using a mouse L-cell line (GLUTag) that expresses endogenous GPR119, we demonstrate that PG gene promoter activity is stimulated by GPR119 agonist AS1269574. Surprisingly, transfection of GLUTag cells with recombinant human GPR119 (hGPR119) results in a constitutive and apparently ligand-independent increase of PG gene promoter activity and PG mRNA content. These constitutive actions of hGPR119 are mediated by cAMP-dependent protein kinase (PKA) but not cAMP sensor Epac2. Thus, the constitutive action of hGPR119 to stimulate PG gene promoter activity is diminished by: 1) a dominant-negative Gαs protein, 2) a dominant-negative PKA regulatory subunit, and 3) a dominant-negative A-CREB. Interestingly, PG gene promoter activity is stimulated by 6-Bn-cAMP-AM, a cAMP analog that selectively activates α and β isoforms of type II, but not type I PKA regulatory subunits expressed in GLUTag cells. Finally, our analysis reveals that a specific inhibitor of Epac2 activation (ESI-05) fails to block the stimulatory action of 6-Bn-cAMP-AM at the PG gene promoter, nor is PG gene promoter activity stimulated by: 1) a constitutively active Epac2, or 2) cAMP analogs that selectively activate Epac proteins. Such findings are discussed within the context of ongoing controversies concerning the relative contributions of PKA and Epac2 to the control of PG gene expression.
The Combination of Supplemental Oxygen and a Hypnotic Markedly Improves Obstructive Sleep Apnea in Patients with a Mild to Moderate Upper Airway Collapsibility (2016)

ClinicalTrials.gov, ID: NCT01633827.
Effects of chloride additives on the mechanical stability and environmental durability of porous MgF2 thin films (2016)

Porous antireflective thin films, prepared of nanoscopic MgF<sub>2</sub> sols, exhibit a low refraction index and are useful for various optical applications. Due to their porosity, film stability and durability suffer from mechanical abrasion and water solubility, respectively. Hence, we present approaches of improved mechanical stability of MgF<sub>2</sub> layers induced by chloride addition. Antireflective (AR) films were produced by dip-coating followed by thermal treatment. Afterwards, film stability and environmental durability was strained by crockmeter and water stability tests, respectively. In comparison to films prepared from chloride-free MgF<sub>2</sub> sols, chloride mingled sols form coatings with increased mechanical stability and a lower solubility.