gebhart/patrepeval huggingface dataset:
Partially reassembled high density lipoproteins. Effects on cholesterol flux, synthesis, and esterification in normal human skin fibroblasts. (1986)

The effects of a partially reassembled high density lipoprotein (PR-HDL) prepared by a detergent removal method on the cholesterol metabolism of fibroblasts has been tested under conditions of lipid depletion. The PR-HDL were composed of apolipoprotein A-I (1 mol) from human plasma HDL, 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC) 100 mol, and varying amounts of cholesterol. Below 15 mol%, the PR-HDL effected a net efflux of cholesterol from the fibroblasts; as a consequence, the activities of 3-hydroxy-3-methylglutaryl coenzyme A reductase and acyl coenzyme A acyltransferase, respectively, were increased and decreased. Above 15 mol% cholesterol in the PR-HDL, net influx of cholesterol was observed and 3-hydroxy-3-methyl-glutaryl coenzyme A reductase activity was decreased, while acyl coenzyme A acyltransferase activity was increased. The uptake of several phosphatidylcholines, apo A-I, and cholesterol were measured as a function of time. The rates of lipid transfer to the cells decreased with increasing hydrophobicity of the transferring lipid. By contrast, in parallel experiments a relatively small quantity of 125I apo A-I was associated with the cells. Our results suggest that a component of lipid transfer from PR-HDL to fibroblasts occurs via monomeric transfer through the aqueous phase that is independent of apo A-I binding.
Defects in leukocyte-mediated initiation of lipid peroxidation in plasma as studied in myeloperoxidase-deficient subjects: systematic identification of multiple endogenous diffusible substrates for myeloperoxidase in plasma (2002)

More than a decade ago it was demonstrated that neutrophil activation in plasma results in the time-dependent formation of lipid hydroperoxides through an unknown, ascorbate-sensitive pathway. It is now shown that the mechanism involves myeloperoxidase (MPO)-dependent use of multiple low-molecular-weight substrates in plasma, generating diffusible oxidant species. Addition of activated human neutrophils (from healthy subjects) to plasma (50%, vol/vol) resulted in the peroxidation of endogenous plasma lipids by catalase-, heme poison-, and ascorbate-sensitive pathways, as assessed by high-performance liquid chromatography (HPLC) with on-line electrospray ionization tandem mass spectrometric analysis of free and lipid-bound 9-HETE and 9-HODE. In marked contrast, neutrophils isolated from multiple subjects with MPO deficiency failed to initiate peroxidation of plasma lipids, but they did so after supplementation with isolated human MPO. MPO-dependent use of a low-molecular-weight substrate(s) in plasma for initiating lipid peroxidation was illustrated by demonstrating that the filtrate of plasma (10-kd MWt cutoff) could supply components required for low-density lipoprotein lipid peroxidation in the presence of MPO and H(2)O(2). Subsequent HPLC fractionation of plasma filtrate (10-kd MWt cutoff) by sequential column chromatography identified nitrite, tyrosine, and thiocyanate as major endogenous substrates and 17 beta-estradiol as a novel minor endogenous substrate in plasma for MPO in promoting peroxidation of plasma lipids. These results strongly suggest that the MPO-H(2)O(2) system of human leukocytes serves as a physiological mechanism for initiating lipid peroxidation in vivo.
DNA‐based species level detection of Glomeromycota: one PCR primer set for all arbuscular mycorrhizal fungi (2009)

* At present, molecular ecological studies of arbuscular mycorrhizal fungi (AMF) are only possible above species level when targeting entire communities. To improve molecular species characterization and to allow species level community analyses in the field, a set of newly designed AMF specific PCR primers was successfully tested. * Nuclear rDNA fragments from diverse phylogenetic AMF lineages were sequenced and analysed to design four primer mixtures, each targeting one binding site in the small subunit (SSU) or large subunit (LSU) rDNA. To allow species resolution, they span a fragment covering the partial SSU, whole internal transcribed spacer (ITS) rDNA region and partial LSU. * The new primers are suitable for specifically amplifying AMF rDNA from material that may be contaminated by other organisms (e.g., samples from pot cultures or the field), characterizing the diversity of AMF species from field samples, and amplifying a SSU-ITS-LSU fragment that allows phylogenetic analyses with species level resolution. * The PCR primers can be used to monitor entire AMF field communities, based on a single rDNA marker region. Their application will improve the base for deep sequencing approaches; moreover, they can be efficiently used as DNA barcoding primers.
Thickness-independent behavior of coercive field in HfO<inf>2</inf>-based ferroelectrics (2017)

Electrical properties of Hf-Zr-O films with several thicknesses are studied. Decent ferroelectric performances are obtained in a wide range of film thickness between 6.8 and 41 nm. A drawback in Hf-Zr-O system is that the operation electric filed for the saturated ferroelectric polarization is close to the breakdown electric field. An investigation of coercive field vs. thickness reveals that HfO <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> -based ferroelectrics are distinct from conventional ones.
Experimental Therapeutics of Neurodegenerative Disorders: Unmet Needs (1998)

Viewpoint The experimental therapeutics of neurodegenerative disorders is in its infancy, but neuroprotective strategies are already being applied in healthy persons at high risk of developing disease as well as in patients with manifest illness. Knowledge of etiology and pathogenesis, improved design of clinical trials, the development of biological markers, the advent of genetic animal models, the enhanced identification of susceptibility factors, and more effective drug delivery-such advances have improved the prospects for forestalling onset of illness and clinical decline in the growing numbers of people affected by neurodegenerative disorders.
Abnormal glutathione transport in cystic fibrosis airway epithelia (1999)

Glutathione (GSH) is a potentially important component of antioxidant defense in the epithelial lung lining fluid. Cystic fibrosis (CF) patients have chronic inflammation in which oxidative stress can be a factor. To examine the hypothesis that the transport of GSH content was defective in CF patients, intracellular and extracellular GSH were measured by HPLC. Four cell lines were used: CFT1 cells [with defective CF transmembrane conductance regulator (CFTR), DeltaF508 homozygous, two clones] and one of the CFT1 clones transfected with either normal CFTR (CFTR repleted) or beta-galactosidase. GSH content in the apical fluid was 55% lower in CFTR-deficient cultures than in CFTR-repleted cells (P < 0.001). In contrast, intracellular GSH content was similar in CFT1 cells and CFTR-repleted cells. gamma-Glutamyl transpeptidase activity, which degrades extracellular GSH, did not account for differences in apical GSH. Rather, GSH efflux of CFTR-deficient cells was lower than that of CFTR-repleted cells. These studies suggested that decreased GSH content in the apical fluid in CF resulted from abnormal GSH transport associated with a defective CFTR.
Instantaneous spectral analysis: Detection of low-frequency shadows associated with hydrocarbons (2003)

Instantaneous spectral analysis (ISA) is a continuous time-frequency analysis technique that provides a frequency spectrum for each time sample of a seismic trace. ISA achieves both excellent time and frequency localization utilizing wavelet transforms to avoid windowing problems that complicate conventional Fourier analysis. Applications of the method include enhanced resolution, improved visualization of stratigraphic features, thickness estimation for thin beds, noise suppression, improved spectral balancing, and direct hydrocarbon indication. We have seen four distinct ways in which ISA can help in the detection of hydrocarbons: (1) anomalously high attenuation in thick or very unconsolidated gas reservoirs, (2) low-frequency shadows in reservoirs where the thickness is not sufficient to result in significant attenuation, (3) preferential illumination at the “tuning” frequency which can be different for gas or brine-saturated rocks, and (4) frequency-dependent AVO. In this paper, we describe the ISA technique, compare it to other spectral decomposition methods, and show some examples of the use of ISA to detect low-frequency shadows beneath gas reservoirs.
Production of Specific Monoclonal Antibodies to Salmonella typhi Flagellin and Possible Application to Immunodiagnosis of Typhoid Fever (1990)

Four murine monoclonal antibodies (MAbs) to Salmonella typhi flagellin were produced. These MAbs did not react with eight other enterobacterial strains tested: Salmonella enteritidis, Salmonella typhimurium, Salmonella paratyphi A, Escherichia coli, Shigella flexneri, Shigella sonnei, Yersinia enterocolitica, and Campylobacter jejuni. All four MAbs cross-reacted with Salmonella muenchen flagellin indicating specificity for d antigenic flagellar epitope. One MAb (C4) was selected to develop a double antibody sandwich enzyme-linked immunosorbent assay (ELISA) to detect S. typhi flagellin in serum samples. By use of this assay S. typhi flagellar antigen was detected in 95.5% of serum samples from patients with positive hemoculture for S. typhi, in 93.6% of samples from patients with positive serodiagnosis of typhoid fever, in 26% of samples collected from patients who were initially hemoculture-positive for S. typhi and who had undergone 7-8 d of chemotherapy, in 8.5% of samples from healthy persons from an endemic area, and in no samples from healthy persons from a nonendemic area. The presence of high levels of flagellin antibody titers did not interfere with the antigen detection. The detection of S. typhi flagellar antigen in patient serum may have practical value for rapid diagnosis of typhoid fever.
Convergence of alternating optimization (2003)

Let f : Rs → R be a real-valued function, and let x = (x1,...,xs)T ∈ Rs be partitioned into t subsets of non-overlapping variables as x = (X1,...,Xt)T, with Xi ∈ Rpi for i = 1,...,t, Σi=1tpi = s. Alternating optimization (AO) is an iterative procedure for minimizing f(x) = f(X1, X2,..., Xt) jointly over all variables by alternating restricted minimizations over the individual subsets of variables X1,...., Xt. Alternating optimization has been (more or less) studied and used in a wide variety of areas. Here a self-contained and general convergence theory is presented that is applicable to all partitionings of x. Under reasonable assumptions, the general AO approach is shown to be locally, q-linearly convergent, and to also exhibit a type of global convergence.
Fine structural features of the chloroplast genome: comparison of the sequenced chloroplast genomes (1991)

The entire nucleotide sequences of the rice, tobacco and liverwort chloroplast genomes have been determined. We compared all the chloroplast genes, open reading frames and spacer regions in the plastid genomes of these three species in order to elucidate general structural features of the chloroplast genome. Analyses of homology, GC content and codon usage of the genes enabled us to classify them into two groups: photosynthesis genes and genetic system genes. Based on comparisons of homology, GC content and codon usage, unidentified ORFs can also be assigned to each of these groups such that it is possible to speculate about the functions of products which may be produced by these ORFs. The spacer regions and intron sequences were compared and found to have no obvious homology between rice and liverwort or between tobacco and liverwort.
Biologic activity of synthetic analogues of C5a anaphylatoxin (1992)

The C activation fragment C5a is the most potent plasma-derived chemotactic factor known. This humoral factor induces both neutrophil and macrophage activation at low nanomolar concentrations. We have synthesized a series of C-terminal C5a analogues that exhibit all of the characteristic biologic activities of C5a. These peptides apparently contain the effector site for C5a receptor-mediated cellular activation, but express only a fraction of the potency of intact C5a. We have demonstrated the following in vitro activities for these C5a peptides: 1) ileal (guinea pig) contraction; 2) platelet (guinea pig) activation; and 3) neutrophil (human) polarization and chemotaxis. The effect of C5a peptides in vivo was evaluated by measuring enhancement in vascular permeability. Although potencies of the most effective synthetic C5a analogues were on the order of 0.01 to 0.1% that of the natural factor, our biologic data confirm that the C5a peptides are full agonists of the intact factor and may be useful substitutes for intact C5a. Furthermore, our results indicate that elongation of the C5a analogues from 10 to 19 residues in length contributes little toward enhancing or decreasing potency of the synthetic C5a analogues. Replacement of residues in the effector region by D-amino acids or by introduction of a cyclic group to reduce flexibility of the backbone decreased potency of the analogues. Substitution of His 67 by Phe in the decapeptide C5a 65-74 resulted in a significant increase in potency of the C5a analogue. The marked enhancement in potency from replacing His 67 by Phe in analogue C5a peptides identifies an important hydrophobic subsite. We conclude that site-specific amino acid modifications in or near the C-terminal effector site sequence can diminish or optimize potency of the model C5a peptides. However, there apparently are subsites on folded C5a, from regions other than the C-terminal portion of the molecule, that contribute significant receptor interactions. These subsites must be identified and incorporated into C5a model peptide designs before expression of full potency by synthetic analogues of this factor will be realized.
Bioavailability of L-Dopa after Madopar HBS Administration in Healthy Volunteers (1987)

Eight healthy male and fasted volunteers received alternatively either one HBS capsule of Madopar 125 or two HBS capsules of Madopar 125 or one standard capsule of Madopar 125 at weekly intervals with and without benserazide pretreatment (50 mg t.i.d. for 6 days). In this trial the Madopar formulations were administered 9.5 h after the last dose of benserazide. Serial blood samples were collected at various time intervals up to 12 h after Madopar dosing. Levodopa plasma concentrations were measured by high-performance liquid chromatography with electrochemical detection. After Madopar HBS without benserazide pretreatment the peak concentration (Cmax) of levodopa was lower and occurred at later times (tmax) than after standard Madopar. The mean values for tmax were 2.4, 2.8 and 0.8 h, whereas those for Cmax were 0.25, 0.56 and 1.38 micrograms/ml for one HBS capsule, two HBS capsules and standard Madopar, respectively. The mean relative bioavailability (versus standard Madopar) was 58 and 67% (value normalized to dose) for one and two HBS capsules, respectively. The parameter of half-value duration (= time span where plasma concentrations are equal to or higher than the half Cmax) was on average 3.5, 3.8 and 0.8 h for one HBS capsule, two HBS capsules and standard Madopar, respectively. Following benserazide pretreatment the mean tmax values for levodopa were 2.8, 2.3 and 0.8 h and the mean Cmax values were 0.35, 0.60 and 1.33 micrograms/ml, respectively, for one HBS capsule, two HBS capsules and standard Madopar. The relative bioavailability (versus standard Madopar) was 57 +/- 14 and 63 +/- 21% (value normalized to dose) for one and two HBS capsules, respectively. The mean values of the half-value duration were 3.6, 4.2 and 1.3 h for one HBS capsule, two HBS capsules and standard Madopar, respectively. For most of the parameters measured, the interindividual variability after Madopar HBS was less pronounced than after standard Madopar. In conclusion, according to these kinetic data, Madopar HBS shows the characteristics of a controlled-release formulation. The reduced bioavailability of the HBS form (60% of that of the standard form) suggests that a higher daily dose of Madopar HBS should be used for clinical practice.
Associates with Etiquette: Meta-Communication to Make Human-Automation Interaction more Natural, Productive and Polite (2001)

this paper illustrates the benefits to be derived from designing adaptive automation around such an etiquette, using examples from our work on the Rotorcraft Pilot&amp;apos;s Associate (RPA). We then go on to discuss the `etiquette&amp;apos; of human-machine interactions and propose a tentative initial list of etiquette rules to stimulate future work
Cytokines in human melanoma cells: synthesis, autocrine stimulation and regulatory functions--an overview. (1993)

Various cytokines are involved in growth regulation of human melanoma cells. Malignant melanoma cells express multiple growth factors, including basic fibroblast growth factor (bFGF), transforming growth factor (TGF)-alpha, platelet-derived growth factor (PDGF)-alpha, and melanoma growth stimulatory activity (MGSA), substances which are not expressed in normal human melanocytes. The simultaneous synthesis of growth factors and expression of their receptors by melanoma cells, leading to permanent stimulation of cell proliferation, has been clearly shown for bFGF and MGSA. This phenomenon has been designated autocrine growth stimulation. Increased or altered expression of growth factor receptors has been described for nerve growth factor (NGF) receptor, for PDGF-beta receptor and for a truncated form of epidermal growth factor (EGF) receptor encoded by the c-erb-B2 oncogene. Lymphokines are mainly involved in growth control of melanoma cells. Interferons (IFN)-alpha, -beta and -gamma, Interleukins (IL)-1 and -6 as well as tumour necrosis factor (TNF)-alpha inhibited melanoma cell proliferation, with the strongest effects displayed by IFN. TGF-beta which was found to inhibit proliferation of normal human melanocytes exhibited marginal effects on melanoma cells, or even stimulated their growth. In conclusion, a complex network of cytokines is involved in the regulation of melanoma cell growth. Further insight into these mechanisms may contribute to the finding of new strategies in melanoma therapy.
Unilateral colour vision disturbance. A family study (1971)

A man with a unilateral colour vision defect is reported. The defect of his right eye can best be defined as lying between deuteranopia and extreme deuteranomaly. The left eye was unusual in that it gave a normal Rayleigh equation on the anomaloscope but abnormal readings, classical for red‐green defectives, with the Ishihara test plates. Two cousins and an uncle had bilateral colour vision defects closely resembling the defect from the right eye of the proband. Various explanations were sought for the findings, but ocular pathology, abnormal sex chromosome numbers, and mosaicism with Lyonization as well as somatic back mutation all seem to be unsatisfactory as such. Three other published cases of a unilateral colour vision defect, two in males and one in a female, are discussed, as is the presence of bilateral colour vision defects in one each of three presumably monozygotic female twin pairs.
Noise in RF-CMOS mixers: a simple physical model (2000)

Flicker noise in the mixer of a zero- or low-intermediate frequency (IF) wireless receiver can compromise overall receiver sensitivity. A qualitative physical model has been developed to explain the mechanisms responsible for flicker noise in mixers. The model simply explains how frequency translations take place within a mixer. Although developed to explain flicker noise, the model predicts white noise as well. Simple equations are derived to estimate the flicker and white noise at the output of a switching active mixer. Measurements and simulations validate the accuracy of the predictions, and the dependence of mixer noise on local oscillator (LO) amplitude and other circuit parameters.
The involvement of ErbB4 with schizophrenia: Association and expression studies (2006)

Neuregulin 1 (NRG1) has been found to be associated with schizophrenia in several populations. Consistently, mutant mice heterozygous for either NRG1 or its receptor, ErbB4, show a behavioral phenotype that overlaps with mouse models for schizophrenia. These observations raised the hypothesis that impaired NRG1-ErbB4 signaling may contribute to schizophrenia susceptibility. Nineteen SNPs encompassing the ErbB4 gene were selected from the HapMap database and genotyped in genomic DNA isolated from 59 Ashkenazi schizophrenia patients and 130 matched controls. Expression analysis of ErbB4 splice variants was performed on postmortem DLPFC samples obtained from Caucasian patients and controls by real-time PCR. We found a highly significant difference between patient and control groups in three SNPs from one linkage disequilibrium (LD) block both in allele (P = 0.013, 0.0045, 0.0049) and genotype frequencies (P = 0.00013, 0.000021, 0.00018), as well as a risk haplotype (P = 0.00044). Expression analysis indicated that the CYT-1 isoform is overexpressed in patients (P = 0.047) and that juxtamembrane (JM)-a displays a similar trend (P = 0.081). This study provides a direct link between ErbB4 and the disease. We propose that NRG1 and its receptor ErbB4 are components of a biological pathway, involved in the pathophysiology of schizophrenia.
Scaling to the end of silicon with EDGE architectures (2004)

Microprocessor designs are on the verge of a post-RISC era in which companies must introduce new ISAs to address the challenges that modern CMOS technologies pose while also exploiting the massive levels of integration now possible. To meet these challenges, we have developed a new class of ISAs, called explicit data graph execution (EDGE), that will match the characteristics of semiconductor technology over the next decade. The TRIPS architecture is the first instantiation of an EDGE instruction set, a new, post-RISC class of instruction set architectures intended to match semiconductor technology evolution over the next decade, scaling to new levels of power efficiency and high performance.
Ion suppression : A major concern in mass spectrometry (2006)

Ion suppression is one form of matrix effect that liquid chromatography–mass spectrometry (LC–MS) techniques suffer from, regardless of the sensitivity or selectivity of the mass analyzer used. Ion suppression negatively affects several analytical figures of merit, such as detection capability, precision, and accuracy. The limited knowledge of the origin and mechanism of ion suppression makes this problem difficult to solve in many cases. Over the past decade and a half since the response-reducing phenomenon was exposed, however, protocols have been developed not only to test for its presence but also to account for its effects and eliminate the risk of ion suppression altogether. Because there is no universal solution for the matrix effect, some of the viable options are discussed briefly in this tutorial, which alone or in combination can help regain the quality of LC–MS analysis for the particular matrix–analyte combination. Two commonly used techniques to detect the presence of the matrix effect are illustrated. Modifying instrumental components and parameters, chromatographic separation, and sample preparation are all considered as means of reducing or possibly eliminating ion suppression. A variety of calibration techniques for compensating the effects of the phenomenon also are discussed.