gebhart/patrepeval huggingface dataset:
Synthesis of a small, cysteine-rich, 29 amino acids long peptide inMycoplasma pneumoniae (2005)

A 205-210 bases long, small RNA (MP200RNA) of Mycoplasma pneumoniae encodes an open reading frame (ORF pmp200) that has the potential to be translated into a 29 amino acids long peptide with nine cysteines. The expression of this peptide in M. pneumoniae was proven indirectly by constructing a gene fusion between the ORF pmp200 and mrfp1, the gene encoding the monomeric red fluorescent protein. The fusion construct was translated in M. pneumoniae. The corresponding fusion protein, with a molecular mass of approximately 35,000 Da, was isolated and the correct sequence was proven by Edman degradation and by mass spectrometry.
Deep Eutectic Solvents as Smart Cosubstrate in Alcohol Dehydrogenase-Catalyzed Reductions (2020)

Alcohol dehydrogenase (ADH) catalyzed reductions in deep eutectic solvents (DESs) may become efficient and sustainable alternatives to afford alcohols. This paper successfully explores the ADH-catalyzed reduction of ketones and aldehydes in a DES composed of choline chloride and 1,4-butanediol, in combination with buffer (Tris-HCl, 20% v/v). 1,4-butanediol (a DES component), acts as a smart cosubstrate for the enzymatic cofactor regeneration, shifting the thermodynamic equilibrium to the product side. By means of the novel DES media, cyclohexanone reduction was optimized to yield maximum productivity with low enzyme amounts (in the range of 10 g L−1 d−1). Notably, with the herein developed reaction media, cinnamaldehyde was reduced to cinnamyl alcohol, an important compound for the fragrance industry, with promising high productivities of ~75 g L−1 d−1.
Developments in Die Pressing Strategies for Low-Cost Titanium Powders (2009)

Recent developments in the production of low-cost titanium powders have rejuvenated interest in manufacturing titanium powder metallurgy components by direct press and sinter techniques. However excessive friction typically observed during titanium powder pressing operations leads to numerous problems ranging from non-homogeneous green densities of the compacted powder to excessive part ejection forces and reduced die life due to wear and galling. An instrumented double-acting die press was developed to both investigate the mechanics of titanium powder pressing (particularly for the new low-cost powder morphologies) and to screen potential lubricants that could reduce frictional effects. As will be discussed, the instrument was used to determine friction coefficients and to evaluate a number of candidate lubricants. These results were then used to optimize the lubricant system to reduce die-wall stresses and improve part density uniformity.
Investigation and development of user design utilities for widget based web services (2009)

Amadeus e-Travel Management - AeTM - is a web-based booking application for personal\ntransportation and hotels. The way the application is working have not changed\nmuch since 2003, but since then a lot have happened with web applications in general\nand user interactivity in particular. This thesis presents how user interactivity with web\n2.0 techniques can be used in the AeTM application, in order to allow the users define\nthe layout and design of the application.\nThis thesis presents a number of solutions, compares them and also a successfull\nimplementation of the best solutions of the application. The AeTM User Experience\nTeam thought the solutions were interesting and with some minor changes ready for\nfurther development and possibly future implementation on the AeTM service.
Response of low-passage human malignant gliomas in vitro to stimulation and selective inhibition of growth factor-mediated pathways (1991)

The proliferation of many nonglial tumors in vitro depends on the presence of nanomolar concentrations of one or more growth factors. To define the growth factor requirements of malignant glial tumors, the authors examined the response properties of four low-passage human malignant glioma lines to the following mitogens: epidermal growth factor (EGF), acidic and basic fibroblast growth factors (FGF's), insulin-like growth factor I (IGF-I), nerve growth factor (NGF), platelet-derived growth factor (PDGF), 12-O-tetradecanoyl-13-phorbol acetate (TPA), and serum. Each of the tumors showed increased deoxyribonucleic acid (DNA) synthesis (assessed by acid-precipitable [3H]-thymidine incorporation) in response to PDGF with a maximum effect at 50 ng/ml. Three tumors responded to EGF, three to IGF-I, two to acidic FGF, two to basic FGF, and two to TPA with maximum effects at 10, 50, 1, 1, and 10 ng/ml, respectively. None of the tumors responded to NGF. In the responsive tumors, optimum concentrations of EGF, IGF, TPA, acidic FGF, and basic FGF induced, at most, a two- to fourfold increase in [3H]-thymidine incorporation, which was only 30% to 50% of the response seen in 10% serum. In contrast, PDGF increased DNA synthesis eight- to 10-fold, equaling the effect of 10% serum. Measurements of cell proliferation also demonstrated a significant response to PDGF in each of the tumors. Appropriate concentrations of an anti-PDGF neutralizing antibody inhibited baseline DNA synthesis and proliferation in the absence of added growth factors, suggesting the possible role of PDGF in autocrine stimulation of these cells. However, this antibody produced only slight inhibition of serum-induced mitogenesis. Trapidil, an agent reported to inhibit the effects of PDGF, and polymyxin B, an inhibitor of protein kinase C, strongly inhibited baseline as well as PDGF- and serum-induced mitogenesis. It is concluded that, in the malignant gliomas studied, PDGF may be acting as a dominant mitogen to enhance DNA synthesis, and may function in autocrine stimulation. However, other factors contained in serum can also contribute to cell division.
Defeating TCP/IP stack fingerprinting (2000)

This paper describes the design and implementation of a TCP/IP stack fingerprint scrubber. The fingerprint scrubber is a new tool to restrict a remote user's ability to determine the operating system of another host on the network. Allowing entire subnetworks to be remotely scanned and characterized opens up security vulnerabilities. Specifically, operating system exploits can be efficiently run against a pre-scanned network because exploits will usually only work against a specific operating system or software running on that platform. The fingerprint scrubber works at both the network and transport layers to convert ambiguous traffic from a heterogeneous group of hosts into sanitized packets that do not reveal clues about the hosts' operating systems. This paper evaluates the performance of a fingerprint scrubber implemented in the FreeBSD kernel and looks at the limitations of this approach.
Experimental and Clinical Significance of Antinuclear Antibodies in Liver Transplantation (2007)

Histone H1 and high-mobility group box 1 (HMGB1) proteins are known to initiate an immune reaction, and the corresponding antibodies (Abs) possess immunosuppressive activity. In the present study, we aimed to evaluate the immunological role of antinuclear Abs in experimental and clinical liver transplantation. In a rat tolerogenic orthotopic liver transplantation (OLT) model, antihistone H1 and HMGB1 titers were induced during the rejection and tolerance induction phases, respectively. Those Ab responses also were confirmed in a drug-induced tolerance model (acute rejection model + cyclosporin A [0 to 14 days after OLT]). We also found a similar tendency in our clinical drug-free patient (who experienced complete cessation of any immunosuppressive treatments) and that antinuclear Abs induced in the serum after cessation of immunosuppressants play a part of immune privilege in this patient. These results suggest that antinuclear Abs are important factors for overcoming rejection and the subsequent tolerance induction in liver transplantation.
Scheduling analysis using discrete event simulation (2002)

Describes a production shop which needed to undertake schedule analyses at the macro level of planning and explain the methods of using simulation to obtain valid, credible schedule analyses quickly. After a discussion of the simulation model itself, we present actual simulation results and conclusions. These successful simulation results help the production shop attain nimble adaptation to product mix requirements, optimal in-process buffer sizing, and speedy combination of the ability to schedule proposals to meet throughput targets.
Prospective, Population-Based Surveillance of the Burden of Streptococcus pneumoniae in Community-Acquired Pneumonia in Older Adults, Chrzanów County, Poland, 2010 to 2012 (2016)

CAP due to PCV13 serotypes is a source of morbidity among adults >50 years and may be reduced by greater access to pneumococcal vaccines.
A213 PROSPECT ON NEW FUEL BCDF (BIO-CARBONISED-DENSIFIED-FUEL) : THE EFFECT OF SEMI-CARBONIZATION (2003)

Woody biomass is a hopeful energy resource to reduce greenhouse gas emission, and it is widely used in North Europe. Although Japan has much forest, and emits large amount of greenhouse gas, little amount of woody biomass is utilized for energy production. One of the reasons is that most forests in Japan are located in steep mountain ranges. Therefore. we must reduce the labor and the costs for ingathering and transportation of the woody biomass energy to utilize it in Japan. The object of our research is to improve the calorific density of woody biomass pellets, and reduce the transportation cost per unit energy. We adopted the 'semi-carbonizing' method for the purpose. Woody biomass is generally used after desiccating because green woods include about 50% (mass fraction) of free water and it reduces the calorific value of the fuel. Woody biomass could be dehydrated more by decomposition of cellulose and hemi-cellulose during carbonization. The organic volatiles, however, are lost during the process, and the energy yield of the carbonized wood is reduced. Therefore, semi-carbonizing condition, on which maximum energy yield can be achieved, should exist. We examined the optimum semi-carbonizing condition for pelletizing in the present study.
SHuffle, a novel Escherichia coli protein expression strain capable of correctly folding disulfide bonded proteins in its cytoplasm (2012)

This work is the first extensive characterization of the trxB gor suppressor strain. The results presented should help researchers design the appropriate protein expression conditions using SHuffle strains.
ColFeatures: Automated data extraction and classification of bacterial colonies (2021)

Abstract Examining microbial colonies on agar plates have been at the core of microbiology for many decades. It is usually done manually, and therefore subject to bias besides requiring a considerable amount of time and effort. In order to optimize and standardize the identification of bacterial colonies growing on agar plates, we have developed an open access tool available on GitHub: ColFeatures. The software allows automated identification of bacterial colonies, extracts key morphological data and generate labels that ensure tracking of temporal development. We included machine learning algorithms that provide sorting of environmental isolates by using cluster methodologies. Furthermore, we show how cluster performance is evaluated using index scores (Silhouette, Calinski-Harabasz, Davies-Bouldin) to ensure the outcome of colony classification. As automation becomes more prominent in microbiology, tools as ColFeatures will assist identification of bacterial colonies on agar plates, bypassing human bias and complementing sequencing or mass spectrometry information that often comes attached with a considerable price tag.
Effects of Inter- α -inhibitor in Experimental Endotoxic Shock and Disseminated Intravascular Coagulation (1997)

We investigated the effects of human inter-alpha-inhibitor (I alpha I) on hemodynamics, oxygenation, and coagulation parameters in a porcine model of endotoxic shock. Four groups of six animals were studied: (1) control, (2) I alpha I group receiving 30 mg/kg I alpha I over 30 min, (3) LPS group receiving 5 micrograms.kg/min Escherichia coli endotoxin over 30 min, and (4) LPS + I alpha I group receiving 30 min after endotoxin 30 mg/kg/30 min I alpha I. We measured hemodynamic and oxygenation parameters, usual coagulation markers and plasma levels of thrombin-antithrombin complexes, antithrombin III activity, plasminogen activator tissue type, plasminogen activator inhibitor type 1, von Willebrand factor, tumor necrosis factor-alpha, and I alpha I at baseline and at 30, 60, 90, 120, 180, 240, and 300 min. In the I alpha I group, plasma I alpha I levels reached 447 +/- 23 mg/L just after injection and 287 +/- 39 mg/L at 300 min. I alpha I half-life was 7.3 +/- 1.9 h. In the IPS + I alpha I group, I alpha I plasma levels decreased more rapidly, reaching 260 mg/L at 300 min. Compared with the LPS group, administration of I alpha I normalized the mean arterial pressure and cardiac index, improved the LPS-induced pulmonary hypertension, and resulted in the blunted increase in blood lactate and oxygen extraction ratio. A significant decrease in thrombin-antithrombin complexes and plasminogen activator inhibitor type 1 levels were observed. There was no significant difference in plasma tumor necrosis factor-alpha levels. We concluded that in this hypodynamic model of endotoxin shock, I alpha I administration resulted in a marked improvement in the hemodynamic, oxygenation, and coagulation parameters.
Secure Computer Systems: Mathematical Foundations (1996)

This paper reports the first results of an investigation into solutions to problems of security in computer systems; it establishes the basis for rigorous investigation by providing a general descriptive model of a computer system.
[Psychomotor development of children at risk with special reference to prenatal, intrapartum and postnatal hypoxia]. (1991)

In a prospective study the psychomotor development of an unselected collective of high risk newborn infants up to the end of the second year of life was examined. The proof of hypoxia was performed with the erythrocytic density test (EDT). The value of EDT showed a decline with the age of life, and it was independent of gestational age or of birthweight only at the first point of determination (cord blood, first or second day of life). Significant connections between the level of light red blood cells and the children's development could not be demonstrated, although the probability to develop psychomotor disabilities increased in the newborn with a positive value of EDT. The diagnostic value of EDT showed the best results for intrapartum and postnatal hypoxia. The highest specificity was calculated with 38.0%, if the sensitivity is 80.0%. In conclusion of these results it's not to be recommended to use the EDT alone for the prediction of individual prognosis of children.
ChemInform Abstract: Polythiophene and Oligothiophene Systems Modified by TTF Electroactive Units for Organic Electronics (2016)

Abstract Review: [87 refs.
Monte Carlo model of topography development during sputtering (1983)

A Monte Carlo computer model has been developed to describe a surface undergoing low energy (&amp;lt;keV) ion bombardment. The model incorporates angle-dependent sputter yields, angle-dependent reflection of energetic particles, random redeposition of sputtered material, and random surface migration of impurities. The model is two-dimensional and describes a surface in cross section as a line. The initial surfaces can be of any general form, not necessarily simple geometrical forms as in some earlier models. Two general results have been developed with this model. The first is that with the inclusion of sputtering, reflection, and redeposition, structures are developed similar to those observed experimentally. These features are temporary, however, and will be eventually eroded. If surface diffusion to a nucleation site is included as well, stable, enlarging structures are formed.
Asynchronous mediation for integrating business and operational processes (2006)

Integrating business and operational processes is necessary today to meet the market's increasingly demanding requirements. In particular, it allows rapid decision-making, customized production, and short time-to-market. To address these challenges, the authors built a mediation suite on top of a message-oriented middleware to help develop e-services based on industrial data. This software, based on a domain-specific component model, meets stringent market requirements and is being used in real-life service applications.
Antibacterial activities of the essential oil from the leaves and rhizomes ofCnidium officinaleMakino (2014)

AbstractEssential oils were extracted from the roots and leaves of Cnidium officinale Makino (Umbelliferae) cultivated in three different districts of Korea. Extraction was carried out by steam distillation, and the composition of the essential oils was analyzed by gas chromatography–mass spectrometry (GC–MS). The extracted oils were compared between different samples. The antibacterial properties of the essential oils and their main components were determined against twelve antibiotic-susceptible or -resistant food-borne pathogenic bacteria. No distinct differences in composition of the essential oils from the rhizomes were found depending upon from which of the three districts the plant was cultivated. In contrast, their composition differed markedly depending on from which part of the plant the oil came, specifically the leaves versus the rhizomes. All of the essential oil fractions and their main component, Z-ligustilide, inhibited the growth of all of the bacterial strains tested, except for Yersinia enterocolitica, and had minimum inhibiting concentrations (MICs) ranging from 0.5 to 4.0 mg/mL. In addition, the cell viability of Caco-2 and MKN-45 cancer cell lines was not altered following exposure to the oils at concentrations between 10 and 160 μg/mL.Keywords: Cnidium officinaleessential oilleavesrhizomesantibacterialfood-borneZ-ligustilideCaco-2MKN-45
ChemInform Abstract: In situ Moessbauer Effect Spectroscopy of a Model Iron Perovskite Electrocatalyst. (1988)

Abstract It is found that the fraction of Fe(IV) sites in SrFeO 2 .91 dispersed on high area carbon gradually and irreversibly decreases upon exposure to an alkaline solution (0.1 M KOH).
Detection of Rotavirus in Sewage (1981)

FOR DETECTION OF ROTAVIRUS, DOMESTIC SEWAGE WAS CONCENTRATED BY TWO DIFFERENT METHODS: (i) adsorption to and elution from positively charged Seitz filters, followed by ultracentrifugation, and (ii) chemical precipitation. The concentrated fluids were tested by an enzyme-linked immunosorbent assay and electron microscopy. In 6 of 24 (25%) samples, rotavirus was detectable after the combined filtration and ultracentrifugation technique with both an enzyme-linked immunosorbent assay and electron microscopy. No positive results were obtained after chemical precipitation.
Delayed response to irreversible non-genetic adaptation to salinity in early development of the brachyuran crabRhithropanopeus harrisii, and some notes on adaptation to temperature (1979)

Abstract In the first series of experiments the embryos of the estuarine crab Rhithropanopeus harrisii (Gould) were acclimated to either a low (10 %0) or a high (30 %0) salinity at the cyclic temperature 25 to 30°C. After hatch each of the four zoeal stages and the megalopa stage was subjected to either an increase in salinity from 10 to 35 %0 or a decrease from 30 to 5 %0 and reared to the first crab stage. Increase of salinity at each of the zoeal stages did not seem to have any effect on mortality or rime of development during those stages. There was, however, a significant increase of mortality in subsequent pre-metamorphic and metamorphic moults and the developmental time significantly increased between these two moults. Similar effects occurred when 20 %0 Swas used instead of 10 %0 S. The greatest effects were observed when the salinity was increased in the third or fourth zoeal stages. The increase of salinity at the zoeal stages also caused the megalopa to develop abnormally. If the increase of salinity occurred at the megalopa stage it had no obvious effect on the mortality of that stage. A decrease in salinity from 30 to 5 %0 did not have any obvious effect on survival of the larvae during any of the stages. The delayed response to increased salinity is suggested to be caused by a disturbance induced at intermoult stages at the time for salinity change. The first development of systems that should be functional at the megalopa stage occurs during the zoeal stages. The 'delayed response effect', suggests that oceanic water (i.e., high salinity) is a deterrent to successful larval dispersal of R. harrisii between estuaries. In a second series of experiments the crab embryos were acclimated to various salinity and temperature combinations, which in some cases were changed immediately after hatch and then kept constant up to the first crab stage. A cyclic temperature of 30 to 35°C was lethal to almost all larvae at 5 or 35 %0 S, irrespective of whether they were acclimated to a high or low salinity before hatching. In a cyclic temperature of 25 to 30°C, 60 percent or more of the larvae metamorphosed at those same salinities, except those embryos acclimated to a high salinity (30 %0) and transferred to 5 %0 through hourly changes of 5 %o-steps, all of which died in the first zoeal stage. Resistance adaptation of the crab embryos to high temperatures prolonged the survival in high temperatures through later larval stages compared to when the embryos were acclimated in lower temperatures. In high temperatures, as in high salinities, the pre-metamorphic and metamorphic moults were the most critical.
An Entropy-Based Throughput Metric for Fairly Evaluating WSN Routing Protocols (2007)

The level of information conveyed to the sink in a wireless sensor network is very vital to the correct operation of the ongoing application. In WSN, Using the absolute throughput, the number of data packets delivered to the sink, is not accurate. Since many packets are resulted from the aggregation process of many "raw" packets collected from the concerned sensed area. In this paper, we propose an entropy-based throughput metric to measure the performance of the hierarchal routing protocols for WSN. In the proposed metric, the information delivered to the sink is calculated instead of the number of data packets delivered to the sink. This method will lead to fair comparison and evaluation of different routing protocols as well as more informative decision by the sink. We use the proposed metric to compare the performance of two well-known routing protocols; LEACH and EAD.