gebhart/patrepeval huggingface dataset:
Intracellular but not extracellular conversion of nitroxyl anion into nitric oxide leads to stimulation of human neutrophil migration (1998)

Considerable controversy exists in the literature with regard to the nature of the agent mediating the biological effects of nitroxyl (NO-) donors. Here it is demonstrated that Angeli's salt (AS), a generator of NO-, enhanced human neutrophil migration. Under aerobic conditions, AS was converted to peroxynitrite to a small extent. However, using methionine, a scavenger of peroxynitrite, it was shown that peroxynitrite was not involved in AS-induced migration. AS equally enhanced human neutrophil migration under aerobic and anaerobic conditions, which strongly suggests that extracellular conversion of NO- to .NO by oxygen was not required. Furthermore, metHb and L-cysteine, which react more readily with NO- than with .NO, inhibited AS-induced migration, whereas the response towards gaseous .NO remained unaffected. AS induced an increase in the intracellular level of cGMP, although the curves for migration and cGMP level appeared to be slightly different in their concentration dependence. An inhibitor of soluble guanylate cyclase and antagonists of cGMP-dependent protein kinase had a more pronounced inhibitory effect on .NO-induced migration than on AS-induced migration. This suggests that the cGMP signalling cascade is partially, but not solely, responsible for AS-induced migration. As it has been demonstrated that soluble guanylate cyclase can only be activated by .NO, and not by NO-, these data indicate that NO- is at least partly converted intracellularly to .NO.
Fast speaker adaptation of hybrid NN/HMM model for speech recognition based on discriminative learning of speaker code (2013)

In this paper, we propose a new fast speaker adaptation method for the hybrid NN-HMM speech recognition model. The adaptation method depends on a joint learning of a large generic adaptation neural network for all speakers as well as multiple small speaker codes (one per speaker). The joint training method uses all training data along with speaker labels to update adaptation NN weights and speaker codes based on the standard back-propagation algorithm. In this way, the learned adaptation NN is capable of transforming each speaker features into a generic speaker-independent feature space when a small speaker code is given. Adaptation to a new speaker can be simply done by learning a new speaker code using the same back-propagation algorithm without changing any NN weights. In this method, a separate speaker code is learned for each speaker while the large adaptation NN is learned from the whole training set. The main advantage of this method is that the size of speaker codes is very small. As a result, it is possible to conduct a very fast adaptation of the hybrid NN/HMM model for each speaker based on only a small amount of adaptation data (i.e., just a few utterances). Experimental results on TIMIT have shown that it can achieve over 10% relative reduction in phone error rate by using only seven utterances for adaptation.
Generation of High-Affinity Chicken Single-Chain Fv Antibody Fragments for Measurement of thePseudonitzschia pungensToxin Domoic Acid (2006)

Antibody-based assay systems are now accepted by regulatory authorities for detection of the toxins produced by phytoplankton that accumulate in shellfish tissues. However, the generation of suitable antibodies for sensitive assay development remains a major challenge. We have examined the potential of using the chicken immune system to generate high-affinity, high-specificity recombinant antibody fragments against phytotoxins. Following immunization of the chicken with domoic acid-bovine serum albumin, a single-chain antibody variable region (scFv) gene library was generated from single V(H) and V(L) genes isolated from the immune cells in the spleen and bone marrow. scFvs reacting with domoic acid were isolated by phage display and affinity matured by light chain shuffling, resulting in an approximate 10-fold increase in sensitivity. The isolated scFvs were effectively expressed in Escherichia coli and readily purified by affinity chromatography. They were then used to develop a convenient and sensitive indirect competitive enzyme-linked immunosorbent assay for domoic acid, with a 50% effective dose of 156 ng/ml, which could be used reliably with shellfish extracts. This study demonstrates that chickens provide a valuable model system for the simplified, rapid generation of high-affinity recombinant antibody fragments with specificity for small toxin molecules.
Loss of Chromosomal Integrity in Neoplasia (1993)

Using in vitro model systems, we have found a striking difference between normal, diploid cells and tumorigenic cells in their ability to amplify a given endogenous gene. Amplification frequency is high in tumorigenic cells (∼ 10−3), lower in nontumorigenic, preneoplastic cells (∼ 10−5), and undetectable in normal, diploid cells (< 10−9) in both the human and rodent species. To investigate the genetic control of gene amplification, amplification frequency was measured in hybrids formed between tumorigenic cells and normal, diploid cells. The ability to amplify an endogenous gene behaved as a recessive genetic trait. Amplification frequency in the hybrid cells was suppressed by more than five orders of magnitude (10−3 to < 10−8). Previously, we identified the p53 tumor suppressor gene product as one of the components of a pathway that regulates gene amplification and aneuploidy. In this paper, we discuss two points that are logical extensions of the previous work....
Crystallization of amorphous superlattices in the limit of ultrathin films with oxide interfaces (2000)

Annealing of amorphous ${\mathrm{S}\mathrm{i}/\mathrm{S}\mathrm{i}\mathrm{O}}_{2}$ or ${\mathrm{G}\mathrm{e}/\mathrm{S}\mathrm{i}\mathrm{O}}_{2}$ multilayers produces nanocrystals embedded between oxide interfaces. It is found that the crystallization temperature is strongly enhanced by the presence of the oxide interfaces and follows an exponential law. The crystallization temperature increases rapidly with decreasing Si layer thickness, and a nonstoichiometric interface decreases the crystallization temperature compared to a stoichiometric interface of the same thickness. A model is presented that takes into account the interface energies, the thickness of the layer, the melting point of the system, and the crystallization temperature of the thick amorphous layer. The evidence for a critical crystallization radius and the influence of deviations from a perfect stoichiometric interface are discussed.
Reliability of the Whiff Test in Clinical Practice (2005)

Vaginitis is among the most common reasons for gynecological consultation in primary care. Although the work-up of vaginal symptoms is well described in the literature, women often go without a diagnosis,[1][1][,2][2] and a recent study using cultures as a gold standard found that clinician
On the role(s) of additives in bioinspired silicification (2005)

Biological organisms are able to direct the formation of patterned and hierarchical biomineral structures. Extractable organic materials have been found entrapped in diatom, sponge and plant biosilica, some of which have been isolated by selective chemical dissolution methods and their composition and structure studied. Information gained from the bioextracts has inspired materials chemists to design biomimetic analogues and develop bioinspired synthetic schemes for silica formation. The results obtained from bioinspired silicification investigations are hypothesised to arise from specific modes of action of the organic additives, which are described in this review. Specifically, additives in bioinspired silicification act either as catalysts, aggregation promoting agents or structure-directing agents or more typically, exhibit a combination of these behaviours.
Polymorphic thiopurine methyltransferase in erythrocytes is indicative of activity in leukemic blasts from children with acute lymphoblastic leukemia (1995)

The activity of thiopurine methyltransferase (TPMT) exhibits genetic polymorphism, with approximately 1 in 300 individuals inheriting TPMT deficiency as an autosomal recessive trait, and about 11% having intermediate activity (ie, heterozygotes). Patients with TPMT deficiency accumulate excessive concentrations of 6-thioguanine nucleotides (TGNs) and develop severe toxicity when treated with standard dosages of mercaptopurine. High TPMT activity has been associated with lower concentrations of TGNs, yielding a higher risk of treatment failure in children with acute lymphoblastic leukemia (ALL). As the biochemical basis of these pharmacodynamic relationships has not been fully elucidated, we investigated the variability and relationship of TPMT activity in erythrocytes and lymphoblasts from children with ALL. A 58-fold range of erythrocyte TPMT activity was found among 119 patients receiving ALL chemotherapy (0.6 to 34.9 U/mL packed erythrocytes), but relatively low intrapatient variability (coefficient of variation, 13.5%) was observed over 1 year. A 27-fold range in TPMT activity was observed in leukemic blasts obtained from 42 patients at initial diagnosis (3.3 to 88.9 U/1 x 10(9) cells). TPMT activity in leukemic blasts at diagnosis was significantly correlated with TPMT in erythrocytes before therapy (rs = .75, P < .0001, N = 13). These data document extensive interpatient variability of TPMT activity in ALL blasts and establish its linkage to polymorphic TPMT activity in erythrocytes, providing a new mechanism by which erythrocytes serve as prognostic markers of mercaptopurine metabolism and TPMT activity in children with ALL.
Platinum Catalysts for the High-Yield Oxidation of Methane to a Methanol Derivative (1998)

Platinum catalysts are reported for the direct, low-temperature, oxidative conversion of methane to a methanol derivative at greater than 70 percent one-pass yield based on methane. The catalysts are platinum complexes derived from the bidiazine ligand family that are stable, active, and selective for the oxidation of a carbon-hydrogen bond of methane to produce methyl esters. Mechanistic studies show that platinum(II) is the most active oxidation state of platinum for reaction with methane, and are consistent with reaction proceeding through carbon-hydrogen bond activation of methane to generate a platinum-methyl intermediate that is oxidized to generate the methyl ester product.
Insertion of synthetic copies of human globin genes into bacterial plasmids (1978)

Double stranded human globin cDNA was synthesized by use of viral reverse transcriptase from globin mRNA of cord blood of premature infants requiring exchange transfusions. The cDNA was introduced into plasmids and the recombinant DNA plasmids used to transform E. coli X1776. A number of transformants were obtained. Plasmid DNA from selected colonies was isolated and characterized for the type of globin cDNA it contained by three types of procedures: 1) hybridization to previously characterized 3H-labeled alpha,beta and gamma cDNA; 2) analysis of the size and nature of fragments produced by digestion of the plasma DNA by different restriction endonucleases; and 3) by rapid DNA sequence analysis of selected DNA fragments produced by restriction endonuclease digestion. Analysis by these techniques of plasmid DNA from different colonies has definitively identified the presence of human alpha, beta or gamma cDNA sequences in different plasmids.
Editing of errors in selection of amino acids for protein synthesis (1992)

All living cells must conduct protein synthesis with a high degree of accuracy maintained in the transmission and flow of information from gene to finished protein product. One crucial "quality control" point in maintaining a high level of accuracy is the selectivity by which aminoacyl-tRNA synthetases furnish correctly activated amino acids, attached to tRNA species, as the building blocks for growing protein chains. During selection of amino acids, synthetases very often have to distinguish the cognate substrate from a homolog having just one fewer methyl group in its structure. The binding energy of a methyl group is estimated to contribute only a factor of 100 to the specificity of binding, yet synthetases distinguish such closely related amino acids with a discrimination factor of 10,000 to 100,000. Examples of this include methionine versus homocysteine, isoleucine versus valine, alanine versus glycine, and threonine versus serine. Many investigators have demonstrated in vitro the ability of certain aminoacyl-tRNA synthetases to edit, that is, correct or prevent incorrect attachment of amino acids to tRNA molecules. Several major editing pathways are now established from in vitro data. Further, at least some aminoacyl-tRNA synthetases have recently been shown to carry out the editing function in vivo. Editing has been demonstrated to occur in both Escherichia coli and Saccharomyces cerevisiae. Significant energy is expended by the cell for editing of misactivated amino acids, which can be reflected in the growth rate. Because of this, cellular levels of aminoacyl-tRNA synthetases, as well as amino acid biosynthetic pathways which yield competing substrates for protein synthesis, must be carefully regulated to prevent excessive editing. High-level expression of recombinant proteins imposes a strain on the biosynthetic capacity of the cell which frequently results in misincorporation of abnormal or wrong amino acids owing in part to limited editing by synthetases. Unbalanced amino acid pools associated with some genetic disorders in humans may also lead to errors in tRNA aminoacylation. The availability of X-ray crystallographic structures of some synthetases, combined with site-directed mutagenesis, allows insights into molecular details of the extraordinary selectivity of synthetases, including the editing function.
Positive and negative transcriptional control by heme of genes encoding 3-hydroxy-3-methylglutaryl coenzyme A reductase in Saccharomyces cerevisiae. (1989)

Responses of the yeast genes encoding 3-hydroxy-3-methylglutaryl coenzyme A reductase, HMG1 and HMG2, to in vivo changes in heme concentrations were investigated. Expression of the genes was determined by direct measurement of the mRNA transcribed from each gene, by direct assay of the enzyme activity encoded by each gene, and by measurement of the expression of lacZ fusions to the control regions of each gene. These studies indicated that expression of HMG1 was stimulated by heme, whereas expression of HMG2 was repressed by heme. The effect of heme on HMG1 expression was mediated by the HAP1 transcriptional regulator and was independent of HAP2. Thus, the genes encoding the 3-hydroxy-3-methylglutaryl coenzyme A reductase isozymes join a growing list of gene pairs that are regulated by heme in opposite ways.
Antimykobakterielle Eigenschaften antihistaminischer Verbindungen (1988)

Abstract Die Prüfung auf antimykobakterielle Eigenschaften ( M. tuberculosis H 37 Ra, Middlebrook‐7H9‐Nährlösung) der antihistaminisch wirksamen Verbindungen 1–15 wird beschrieben: alle sind spezifische Wachstumshemmer des genannten Mykobakteriums.
Interaction of Human Suppressor of Cytokine Signaling (SOCS)-2 with the Insulin-like Growth Factor-I Receptor (1998)

SOCS (suppressor of cytokine signaling) proteins have been shown to be negative regulators of cytokine receptor signaling via the Janus kinase (JAK)/signal transducer and activator of transcription (STAT) pathway. We have cloned a member of this family (hSOCS-2) by utilizing the insulin-like growth factor I receptor (IGF-IR) cytoplasmic domain as bait in a yeast two-hybrid screen of a human fetal brain library. The hSOCS-2 protein interacted strongly with the activated IGF-IR and not with a kinase negative mutant receptor in the two-hybrid assay. Mutation of receptor tyrosines 950, 1250, 1251, and 1316 to phenylalanine or deletion of the COOH-terminal 93 amino acids did not result in decreased interaction of the receptor with hSOCS-2 protein. hSOCS-1 protein also interacted strongly with IGF-IR in the two-hybrid assay. Glutathione S-transferase-hSOCS-2 associated with activated IGF-IR in lysates of mouse fibroblasts overexpressing IGF-IR. Human embryonic kidney cells (293) were transiently transfected with vectors containing IGF-IR and FLAG epitope-tagged hSOCS-2. After IGF-I stimulation, activated IGF-IR was found in anti-FLAG immunoprecipitates and, conversely, FLAG-hSOCS-2 was found in anti IGF-IR immunoprecipitates. Thus, hSOCS-2 interacted with IGF-IR both in vitro and in vivo. HSOCS-2 mRNA was expressed in many human fetal and adult tissues with particularly high abundance in fetal kidney and adult heart, skeletal muscle, pancreas, and liver. These results raise the possibility that SOCS proteins may also play a regulatory role in IGF-I receptor signaling.
Synthesis of 4′-C-Ethynyl-β-D-arabino- and 4′-C-Ethynyl-2′-deoxy-β-D-ribo- pentofuranosyl Pyrimidines, and Their Biological Evaluation (1999)

4'-C-Ethynyl-beta-D-arabino-pentofuranosyl thymine (14) and cytosine (16), and 4'-C-ethynyl-2'-deoxy-beta-D-ribo-pentofuranosyl thymine (25) and cytosine (27) were synthesized by properly protected 4'-C-hydroxy-methyl-3,5-di-O-benzyl-alpha-D-ribo-pentofuranose (1) from D-glucose. Among them, 2'-deoxy derivatives 25 and 27 exhibited antiviral activity, while cytidine derivatives 16 and 27 inhibited the growth of neoplastic cells.
Low-intensity pulsed ultrasound activates the phosphatidylinositol 3 kinase/Akt pathway and stimulates the growth of chondrocytes in three-dimensional cultures: a basic science study (2008)

LIPUS promoted the proliferation of cultured chondrocytes and the production of type-IX collagen in a three-dimensional culture using a collagen sponge. In addition, the anabolic LIPUS signal transduction to the nucleus via the integrin/phosphatidylinositol 3-OH kinase/Akt pathway rather than the integrin/MAPK pathway was generally associated with cell proliferation.
Guiding feature subset selection with an interactive visualization (2011)

We propose a method for the semi-automated refinement of the results of feature subset selection algorithms. Feature subset selection is a preliminary step in data analysis which identifies the most useful subset of features (columns) in a data table. So-called filter techniques use statistical ranking measures for the correlation of features. Usually a measure is applied to all entities (rows) of a data table. However, the differing contributions of subsets of data entities are masked by statistical aggregation. Feature and entity subset selection are, thus, highly interdependent. Due to the difficulty in visualizing a high-dimensional data table, most feature subset selection algorithms are applied as a black box at the outset of an analysis. Our visualization technique, SmartStripes, allows users to step into the feature subset selection process. It enables the investigation of dependencies and interdependencies between different feature and entity subsets. A user may even choose to control the iterations manually, taking into account the ranking measures, the contributions of different entity subsets, as well as the semantics of the features.
The role and molecular mechanism of D-aspartic acid in the release and synthesis of LH and testosterone in humans and rats (2009)

D-aspartic acid is a physiological amino acid occurring principally in the pituitary gland and testes and has a role in the regulation of the release and synthesis of LH and testosterone in humans and rats.
Minimap and miniasm: fast mapping and de novo assembly for noisy long sequences (2016)

Supplementary data are available at Bioinformatics online.
Creatinine determination in serum by capillary electrophoresis (2004)

Creatinine in human serum was separated in a fused-silica capillary with H3PO4 (75 mmol/L, pH 2.5) as BGE, followed by UV detection at 200 nm. Serum with methylimidazole added as internal standard was deproteinized with acetonitrile and the supernatant, after dilution with water was injected at pressure mode. Creatinine and methylimidazole were baseline-resolved in 6.5 min. Linearity in the 0-880 micromol/L range gave an r2 > or = 0.998, recovery was 102 +/- 2.8% (n = 6). Enzymatic breakdown with creatininase confirmed that serum does not interfere. The within-day and between-days coefficient of variation (CV) were < or = 2.16 and 2.7%, respectively. The accuracy, determined for lyophilized samples by isotope dilution gas chromatography-mass spectrometry was < or = +/- 2.0%. The results were compared with HPLC for 32 lyophilized samples and on 27 serum pools. Capillary electrophoresis, rapid and inexpensive, seems a promising alternative to high-performance liquid chromatography (HPLC) for creatinine determination in human serum.
Influenza infection causes airway hyperresponsiveness by decreasing enkephalinase (1988)

Ferret tracheal segments were infected with human influenza virus A/Taiwan/86 (H1N1) in vitro. After 4 days, the smooth muscle contractile responses to acetylcholine and to substance P were measured. The response to substance P was markedly accentuated, with a threefold increase in force of contraction at a substance P concentration of 10(-5) M, the highest concentration tested. In contrast, the response to acetylcholine was not affected by viral infection. Histological examination of tissues revealed extensive epithelial desquamation. Activity of enkephalinase (neutral metallo-endopeptidase, EC.3.4.24.11), an enzyme that degrades substance P, was decreased by 50% in infected tissues. Inhibiting enkephalinase activity by pretreating with thiorphan (10(-5) M) increased the response to substance P to the same final level in both infected and control tissues. Inhibiting other substance P-degrading enzymes including kininase II (angiotensin-converting enzyme), serine proteases, and aminopeptidases did not affect the response to substance P. Inhibiting cyclooxygenase and lipoxygenase activity using indomethacin and BW 755c did not affect hyperresponsiveness to substance P. Pretreating tissues with antagonists of alpha-adrenoceptors, beta-adrenoceptors, and H1 histamine receptors (phentolamine 10(-5) M, propranolol 5 X 10(-6) M, and pyrilamine 10(-5) M, respectively) had no effect on substance P-induced contraction. These results demonstrate that infection of ferret airway tissues with influenza virus increases the contractile response of airway smooth muscle to substance P. This effect is caused by decreased enkephalinase activity in infected tissues.
Sorption‐enhanced reaction process for hydrogen production (1999)

Abstract A novel concept called Sorption Enhanced Reaction Process (SERP) for hydrogen production by steam‐methane reformation (SMR) reaction uses a fixed packed column of an admixture of an SMR catalyst and a chemisorbent to remove carbon dioxide selectively from the reaction zone. The chemisorbent is periodically regenerated by using the principles of pressure swing adsorption. The SERP process steps allow direct production of high‐purity hydrogen (&gt;95 mol %) at high methane to hydrogen conversion (&gt;80%) with dilute methane (&lt;5 mol%) and trace carbon oxide (∼50 ppm) impurities at the reaction pressure by operating the reactor at a low temperature of 450°C. A conventional plug‐flow reactor packed with catalyst alone not only needs to be operated at a much higher temperature (&gt;650°C) to achieve the same methane to hydrogen conversion, but produces a much lower purity of hydrogen product (∼75 mol %) with a large quantity of carbon oxide (∼20 mol %) impurities. A novel chemisorbent, which reversibly sorbs carbon dioxide in the presence of excess steam at a temperature of 300–500°C, was developed for application in the SERP and the process is experimentally demonstrated in a bench‐scale apparatus.