gebhart/patrepeval huggingface dataset:
Prevalence of Multidrug-Resistant Bacteria at a Tertiary-Care Teaching Hospital in Mexico: Special Focus on <i>Acinetobacter baumannii</i> (2010)

Our aim was to determine the prevalence of multidrug resistance of Acinetobacter baumannii and other pathogens at a tertiary-care teaching hospital in Mexico over a 3-year period. Clinical isolates of A. baumannii (n = 550), Pseudomonas aeruginosa (n = 250), some Enterobacteriaceae species (n = 500) and Staphylococcus aureus (n = 250) collected over a 3-year period were included. Susceptibility tests were performed by the broth microdilution method. 74% of A. baumannii, 40% of Escherichia coli, 34% of P. aeruginosa, 22% of Klebsiella pneumoniae, 9% of Enterobacter cloacae, and 7% of Serratia sp. were multidrug resistant. 59% of A. baumannii clinical isolates were meropenem-resistant. A. baumannii isolates from the lower respiratory tract were the most susceptible, followed by urine clinical isolates. Species from Enterobacteriaceae showed susceptibility rates higher than 90% to meropenem and tigecycline and Serratia sp. showed the highest susceptibility to the drugs evaluated. For P. aeruginosa, the most potent drug was levofloxacin, followed by meropenem and piperacillin-tazobactam. With regard to S. aureus, 96% of the isolates were susceptible to vancomycin, followed by tigecycline and minocycline (91% of strains susceptible). The high multidrug resistance observed underscores the need for surveillance of bacterial drug resistance.
Identification of the Cysteine Residues in the Amino-terminal Extracellular Domain of the Human Ca2+ Receptor Critical for Dimerization (1999)

We analyzed the effect of substituting serine for each of the 19 cysteine residues within the amino-terminal extracellular domain of the human Ca(2+) receptor on cell surface expression and receptor dimerization. C129S, C131S, C437S, C449S, and C482S were similar to wild type receptor; the other 14 cysteine to serine mutants were retained intracellularly. Four of these, C60S, C101S, C358S and C395S, were unable to dimerize. A C129S/C131S double mutant failed to dimerize but was unique in that the monomeric form expressed at the cell surface. Substitution of a cysteine for serine 132 within the C129S/C131S mutant restored receptor dimerization. Mutation of residues Cys-129, Cys-131, and Ser-132, singly and in various combinations caused a left shift in Ca(2+) response compared with wild type receptor. These results identify cysteines 129 and 131 as critical in formation of intermolecular disulfide bond(s) responsible for receptor dimerization. In a "venus flytrap" model of the receptor extracellular domain, Cys-129 and Cys-131 are located within a region protruding from one lobe of the flytrap. We suggest that this region represents a dimer interface for the receptor and that mutation of residues within the interface causes important changes in Ca(2+) response of the receptor.
Rapid prototyping of microfluidic chips in COC (2007)

We present a novel, cost-efficient process chain for fast tooling and small-lot replication of high-quality, multi-scale microfluidic polymer chips within less than 5 days. The fabrication chain starts with a primary master which is made by well-established cleanroom processes such as DRIE or negative SU-8 resist based surface micromachining. The formation of undercuts in the master which would complicate demolding is carefully avoided. Secondary PDMS masters or epoxy-based masters which are more suitable for common polymer replication schemes such as soft-embossing, hot-embossing or injection molding are subsequently cast from the primary masters. The polymer replica are mainly made of COC and show excellent fidelity with the conventionally micromachined master while displaying no degeneration, even after more than 200 cycles. The use of other polymers such as PMMA is also possible. The process chain further includes surface modification techniques for overall, long-term stable hydrophilic coatings and for local hydrophobic patches as well as a durable sealing based on thermal bonding.
Conflicts of CpG density and DNA methylation are proximally and distally involved in gene regulation in human and mouse tissues (2018)

The relationship between CpG content and DNA methylation has attracted considerable interest in recent years. Direct or indirect methods have been developed to investigate their regulatory functions based on various hypotheses, large cohort studies, and meta-analyses. However, all of these analyses were performed at units of CpG blocks and, thus, the influence of finer genome structure has been neglected. Herein, we present a novel algorithm of base-pair resolution to systematically investigate the relationship between CpG contents and DNA methylation. By introducing the concept of 'complementary index' we examined the methylomes of 34 adult and 7 embryonic tissues and successfully fitted the relationship of DNA methylation and CpG density into a nonlinear mathematical model. A further algorithm was developed to locate the regions where CpG density does not match expectations from the model, termed 'conflict of gap' (COG) regions. Interestingly, COGs are highly concordant in human and mouse and their distributions display a tissue-specific pattern. Based on COG methylation patterns we correctly classified tissues according to their function or origin. We demonstrate that COGs based on our method can reveal more and deeper information than traditional differential methylation region (DMR) approaches. We also found that when COGs are located near to transcription start site (TSS), these regions can determine which promoters will be utilized for initiating gene transcription. Furthermore, COGs located far from the TSS perform as enhancers in terms of histone modification, sequence conservation, transcription factor binding, and DNase I-hypersensitivity.
Bruising Associated with the Use of Fluoxetine (1996)

Fluoxetine has been reported to produce bruising, bleeding, and other hematologic disorders. It should be used with caution when treating patients with thrombocytopenia or with proven or suspected platelet dysfunction.
Lipid-lowering properties of 6-benzoyl-2(3H)-benzothiazolone and structurally related compounds (2005)

Fifteen compounds derived from the 2(3H)-benzothiazolone template with an acyl side-chain in position-6 were evaluated for their lipid-lowering action in mice. Among these compounds, 6-benzoyl-2(3H)-benzothiazolone was found to be the most potent one both in mice models receiving a hypercholesterolemic diet (for 15 days) or a standard diet (for 21 days). 6-Benzoyl-2(3H)-benzothiazolone compares favorably with fenofibrate, the standard drug, both in terms of HDL-C/Chol (High Density Lipoprotein-Cholesterol/Total Cholesterol) ratio and absence of liver hepatomegaly.
Cognitive Performance and Hyperactivity in Terms of Eating Behavior and Physical Growth among Preschoolers -1. A survey on eating behavior of preschoolers- (1995)

We evaluated the nutritional and socioeconomical factors of 100 children aged years. Forty five children (45%) were selected from families with low socioeconomic status, while 55 children (55%) were from those with high socioeconomic status. Some differences of the nutritional factors (eating behavior, food preference, food frequency) were found between low and high socioeconomic groups. This survey suggest that eating behavior, food preference and food frequency may be useful in estimating nutritional factors. And the nutrition education for the children and their meal planners is necessary to improve the nutritional status of the subjects.
Intestinal Dysbiosis and Depletion of Butyrogenic Bacteria in Clostridium difficile Infection and Nosocomial Diarrhea (2013)

Clostridium difficile infection (CDI) causes nearly half a million cases of diarrhea and colitis in the United States each year. Although the importance of the gut microbiota in C. difficile pathogenesis is well recognized, components of the human gut flora critical for colonization resistance are not known. Culture-independent high-density Roche 454 pyrosequencing was used to survey the distal gut microbiota for 39 individuals with CDI, 36 subjects with C. difficile-negative nosocomial diarrhea (CDN), and 40 healthy control subjects. A total of 526,071 partial 16S rRNA sequence reads of the V1 to V3 regions were aligned with 16S databases, identifying 3,531 bacterial phylotypes from 115 fecal samples. Genomic analysis revealed significant alterations of organism lineages in both the CDI and CDN groups, which were accompanied by marked decreases in microbial diversity and species richness driven primarily by a paucity of phylotypes within the Firmicutes phylum. Normally abundant gut commensal organisms, including the Ruminococcaceae and Lachnospiraceae families and butyrate-producing C2 to C4 anaerobic fermenters, were significantly depleted in the CDI and CDN groups. These data demonstrate associations between the depletion of Ruminococcaceae, Lachnospiraceae, and butyrogenic bacteria in the gut microbiota and nosocomial diarrhea, including C. difficile infection. Mechanistic studies focusing on the functional roles of these organisms in diarrheal diseases and resistance against C. difficile colonization are warranted.
Structure of apolipoprotein A-I in three homogeneous, reconstituted high density lipoprotein particles. (1990)

To elucidate further the conformation of human apolipoprotein A-I (apoA-I) in lipid-bound states and its effect on the reaction with lecithin cholesterol acyltransferase (LCAT), we prepared reconstituted HDL (rHDL) particles from a reaction mixture containing dipalmitoylphosphatidylcholine/cholesterol/apoA-I in the molar ratios of 150:7.5:1. The particles were separated by gel filtration into three classes of highly homogeneous and reproducible discs with diameters of 97, 136, and 186 A, containing 2, 3, and 4 molecules of apoA-I/disc, respectively, and increasing proportions of phospholipid and cholesterol. These three classes of particles were then investigated by a variety of fluorescence techniques, to probe the average environment and mobility of the tryptophan (Trp) residues in the structure of apoA-I. We found small, gradual changes in the fluorescence parameters with changes in the size of the rHDL, consistent with a shift of Trp residues to a more hydrophobic and more rigid environment, as well as an increased resistance of apoA-I to denaturation by guanidine hydrochloride in the larger particles. In contrast, circular dichroism measurements and binding studies with seven monoclonal antibodies indicated a similar alpha-helical structure (73%) for apoA-I in all the particles, and similar exposure of apoA-I epitopes in the COOH-terminal two-thirds of the apolipoprotein. Thus the structure of apoA-I is comparable for the three classes of particles and is consistent with the presence of eight alpha-helical segments per apoA-I in contact with the lipid. In addition, we obtained the apparent kinetic parameters for the reaction of the rHDL particles with lecithin cholesterol acyltransferase. The apparent Km values were similar but the apparent Vmax decreased almost 8-fold, going from the 97- to the 186-A particles; therefore, the decreasing reactivity for the larger particles can be attributed mainly to differences in the catalytic rate constant. The rate limiting step is probably affected by local structural differences in the apoA-I, or by the interfacial properties of the lipid.
Subconjunctival hyaluronidase injection producing temporary myopia (1995)

A subconjunctival hyaluronidase injection, given to resolve hemorrhaging after a bout of severe coughing, produced myopia in a 30-year-old female. The myopia resolved after 45 days of no treatment other than repeated examinations.
Stretch-associated Injury in Cervical Spondylotic Myelopathy: New Concept and Review (2005)

The simple pathoanatomic concept that a narrowed spinal canal causes compression of the enclosed cord, leading to local tissue ischemia, injury, and neurological impairment, fails to explain the entire spectrum of clinical findings observed in cervical spondylotic myelopathy. A growing body of evidence indicates that spondylotic narrowing of the spinal canal and abnormal or excessive motion of the cervical spine results in increased strain and shear forces that cause localized axonal injury within the spinal cord. During normal motion, significant axial strains occur in the cervical spinal cord. At the cervicothoracic junction, where flexion is greatest, the spinal cord stretches 24% of its length. This causes local spinal cord strain. In the presence of pathological displacement, strain can exceed the material properties of the spinal cord and cause transient or permanent neurological injury. Stretch-associated injury is now widely accepted as the principal etiological factor of myelopathy in experimental models of neural injury, tethered cord syndrome, and diffuse axonal injury. Axonal injury reproducibly occurs at sites of maximal tensile loading in a well-defined sequence of intracellular events: myelin stretch injury, altered axolemmal permeability, calcium entry, cytoskeletal collapse, compaction of neurofilaments and microtubules, disruption of anterograde axonal transport, accumulation of organelles, axon retraction bulb formation, and secondary axotomy. Stretch and shear forces generated within the spinal cord seem to be important factors in the pathogenesis of cervical spondylotic myelopathy.
Antimicrobial Resistance in Neisseria gonorrhoeae in the 21st Century: Past, Evolution, and Future (2014)

Neisseria gonorrhoeae is evolving into a superbug with resistance to previously and currently recommended antimicrobials for treatment of gonorrhea, which is a major public health concern globally. Given the global nature of gonorrhea, the high rate of usage of antimicrobials, suboptimal control and monitoring of antimicrobial resistance (AMR) and treatment failures, slow update of treatment guidelines in most geographical settings, and the extraordinary capacity of the gonococci to develop and retain AMR, it is likely that the global problem of gonococcal AMR will worsen in the foreseeable future and that the severe complications of gonorrhea will emerge as a silent epidemic. By understanding the evolution, emergence, and spread of AMR in N. gonorrhoeae, including its molecular and phenotypic mechanisms, resistance to antimicrobials used clinically can be anticipated, future methods for genetic testing for AMR might permit region-specific and tailor-made antimicrobial therapy, and the design of novel antimicrobials to circumvent the resistance problems can be undertaken more rationally. This review focuses on the history and evolution of gonorrhea treatment regimens and emerging resistance to them, on genetic and phenotypic determinants of gonococcal resistance to previously and currently recommended antimicrobials, including biological costs or benefits; and on crucial actions and future advances necessary to detect and treat resistant gonococcal strains and, ultimately, retain gonorrhea as a treatable infection.
DNA Assembly Tools and Strategies for the Generation of Plasmids (2014)

Since the discovery of restriction enzymes and the generation of the first recombinant DNA molecule over 40 years ago, molecular biology has evolved into a multidisciplinary field that has democratized the conversion of a digitized DNA sequence stored in a computer into its biological counterpart, usually as a plasmid, stored in a living cell. In this article, we summarize the most relevant tools that allow the swift assembly of DNA sequences into useful plasmids for biotechnological purposes. We cover the main components and stages in a typical DNA assembly workflow, namely in silico design, de novo gene synthesis, and in vitro and in vivo sequence assembly methodologies.
ANSI Common Lisp (1995)

導入 Ｌｉｓｐの世界へようこそ リスト 特別なデータ構造 制御構造 関数 入出力 シンボル 数値 マクロ ＣＬＯＳ データの構造 スピード 進んだ話題から 例：推論 例：ＨＴＭＬ生成 例：オブジェクト指向言語
Oligomerisation of Ethylene by Bis(imino)pyridyliron and -cobalt Complexes (2000)

A series of bis(imino)pyridyliron and -cobalt complexes [[2,6-(CR=NAr)2C5H3N]MX2] (R=H, Me; M=Fe, Co; X=Cl, Br) 8-16 containing imino-aryl rings (Ar) with at least one small ortho substituent, as well as Ar=biphenyl and Ar=naphthyl, has been synthesised. Crystallographic analyses of complexes 9 (Ar = 2,3-dimethylphenyl), 13 and 14 (Ar= biphenyl; X= Cl or Br, respectively) reveal a distorted trigonal-bipyramidal geometry in the solid state. These complexes, in combination with methyl aluminoxane (MAO), are active catalysts for the oligomerisation of ethylene, yielding >99% linear alpha-olefin mixtures that follow a Schulz-Flory distribution. Iron ketimine (R = Me) precatalysts give the highest activities and a greater alpha-value than their aldimine (R = H) analogues. Cobalt precatalysts follow a similar trend, though their activities are almost two orders of magnitude lower than those of the corresponding iron catalysts. Ethylene pressure studies on cobalt precatalyst 15 reveal a first-order dependence on ethylene for both the rate of propagation and the rate of chain transfer, and a pressure independence of the alpha value.
Characterization of High Efficiency Octane-On-Demand Fuels Requirement in a Modern Spark Ignition Engine with Dual Injection System (2015)

&lt;div class="section abstract"&gt;&lt;div class="htmlview paragraph"&gt;In a regulatory environment for spark ignition (SI) engines where the focus is continuously looking into improvements in fuel economy and reduction in noxious emissions, the challenges to achieve future requirements are utmost. To effectively reduce CO&lt;sub&gt;2&lt;/sub&gt; emissions on a well-to-wheel basis, future fuels enabling high efficiency SI engines will have to not only satisfy advanced engine requirements, i.e. high knock resistance, but also produce less CO&lt;sub&gt;2&lt;/sub&gt; emissions in the refinery. This paper describes how to characterize SI combustion's on-demand octane requirement with three different dual fuel configurations. Refinery naphtha was used for low octane component, and three oxygenates were used for high octane knock inhibiting component, such as, Methanol and Methyl tert-butyl ether (MTBE) and Ethyl tert-butyl ether (ETBE). Each low and high octane fuel was introduced via production gasoline direct injector (DI) and port fuel injector (PFI) in both configurations. It was found that benefits of the high RON component was amplified when it was introduced through DI while the low RON naphtha was injected in PFI. Methanol had been shown to be most effective through DI due to its high heat of evaporation and charge cooling. Consequently, the minimum methanol requirement to maintain MBT is less than MTBE or ETBE by volume. An optimum oxygenate map was found within a range of 1500 to 3500 rpm in speed and 1bar to 13bar Brake Mean Effective Pressure (BMEP) in load range conditions. As a result, the engine could operate solely with low octane naphtha, up to loads of 4-bar BMEP. At a high load condition, such as 1500 rpm, 13bar BMEP, minimum requirement of methanol was 43% of total dual fuel, while MTBE requirement was 74%. This was because methanol's charge cooling in the chamber had a dominant effect on knock suppression, although a RON of MTBE was higher than methanol. On the contrary, the total fuel consumption with naphtha-methanol was higher than one with naphtha-MTBE. This was due to the fact that methanol's lower energy value required more naphtha as the primary fuel source, while MTBE could contribute 1.5 times higher energy than methanol.&lt;/div&gt;&lt;div class="htmlview paragraph"&gt;Three fuels with both high and low octane properties could provide the optimum octane on an as-required basis. This can enable engine manufacturers to further downsize engines by means of an additional parameter to dynamically control the knock boundary.&lt;/div&gt;&lt;/div&gt;
Gordonia (nocardia) amarae foaming due to biosurfactant production (2002)

Gordonia amarae, a filamentous actinomycete, commonly found in foaming activated sludge wastewater treatment plants was investigated for its biosurfactant production capability. Soluble acetate and paringly soluble hexadecane were used as carbon sources for G. amarae growth and biosurfactant production in laboratory scale batch reactors. The lowest surface tension (critical micelle concentration, CMC) of the cell-free culture broth was 55 dynes/cm when 1,900 mg/L acetate was used as the sole carbon source. The lowest surface tension was less than 40 dynes/cm when either 1% (v/v) hexadecane or a mixture of 1% (v/v) hexadecane and 0.5% (w/v) acetate was used as the carbon source. The maximum biomass concentration (the stationary phase) was achieved after 4 days when acetate was used along with hexadecane, whereas it took about 8 days to achieve the stationary phase with hexadecane alone. The maximum biosurfactant production was 3 x CMC with hexadecane as the sole carbon source, and it was 5 x CMC with the mixture of hexadecane and acetate. Longer term growth studies (approximately 35 days of culture growth) indicated that G. amarae produces biosurfactant in order to solubilize hexadecane, and that adding acetate improves its biosurfactant production by providing readily degradable substrate for initial biomass growth. This research confirms that the foaming problems in activated sludge containing G. amarae in the activated sludge are due to the biosurfactant production by G. amarae when hydrophobic substrates such as hexadecane are present.
Drift of magnetic sensitivity of smart hall sensors due to moisture absorbed by the IC-package (2006)

For automotive applications like cam-shaft, crank-shaft, throttle valve or accelerator pedal position sensing, Hall probes are integrated together with biasing and complex signal processing circuits into tiny plastic packages. Instabilities of magnetic switching points and magnetic sensitivity have been observed for some time. We show by way of experiments that the main contribution to this sensitivity drift originates from moisture absorption by the mold compound of the plastic package which changes the mechanical stress on the die. The mechanical stress affects the Hall factor of the Hall probe (piezo-Hall effect) and the current through the Hall probe (piezo-resistance effect) which finally leads to a drift of the overall magnetic sensitivity.
The Mechanical Properties of a Thermoplastic Elastomer Produced by the Bacterium Pseudomonas oleovorans (1992)

Abstract PHO, a poly(β-hydroxyalkanoate) copolymer containing mostly β-hydroxyoctanoate repeating units, was produced in a fed batch fermentation process by Pseudomonas oleovorans when grown on sodium octanoate as the sole carbon source. The polymer from different batches—evaluated with regards to composition, molecular weight distribution, thermal transition temperatures, and decomposition temperature—was found to be highly consistent batch-to-batch. Polymer composition as a function of growth time did not change significantly once the culture reached the stationary growth phase. PHO when crystallized at room temperature from the melt, forms a physically crosslinked network with the crystalline regions acting as the physical crosslinks. The molecular weight between physical crosslinks was determined to be approximately 4000. The stress-strain properties, hardness, and tensile set of PHO were found to be within the range of values defined by a variety of commercially available thermoplastic elastomers with differing chemical structures. The tensile set of PHO was high, 35% after 100% elongation. Experimental evidence supports three possible sources of the high tensile set: permanent strain-induced orientation or displacement of the physical crosslinks, irreversible strain-induced crystallization, and deformation-induced changes of the size and purity/perfection of crystalline regions.