gebhart/patrepeval huggingface dataset:
The Use of Stable Isotope Labeling and Liquid Chromatography/Tandem Mass Spectrometry Techniques to Study the Pharmacokinetics and Bioavailability of the Antimigraine Drug, MK-0462 (Rizatriptan) in Dogs (1996)

MK-0462 (rizatriptan) is a 5HT1D agonist being developed for the treatment of migraine. The assay for this substance in plasma and urine is based on HPLC with tandem mass spectrometry (MS/MS) detection. The procedure has been modified to include the simultaneous determination of the [triazole-13C2, 15N3-] stable-isotope-labelled analogue for which the lower quantifiable limit was 0.1 ng mL−1. The assay has been applied to study the pharmacokinetics of MK-0462 after simultaneous oral and intravenous administration of the drug and its stable-isotope-labelled analogue to dogs. The experiment afforded an estimate of plasma clearance concomitant with a precise measurement of the drug's oral bioavailability. The increasing use of LC-MS/MS in quantitative experiments may renew interest in stable isotopes as tools for pharmaceutical research.
Synthesis and properties of mRNAs containing the novel "anti-reverse" cap analogs 7-methyl(3'-O-methyl)GpppG and 7-methyl (3'-deoxy)GpppG. (2001)

The ability to synthesize capped RNA transcripts in vitro using bacteriophage polymerases has been of considerable value in a variety of applications. However, Pasquinelli et al. [RNA (1995) 1:957-967] found that one-third to one-half of the caps are incorporated in the reverse orientation, that is, with the m7G moiety of m7GpppG linked by a 3'-5' phosphodiester bond to the first nucleotide residue of the RNA chain. Such reverse caps are unlikely to be recognized by eIF4E, based on previous studies, and thus complicate any comparison of the translational efficiencies of in vitro-synthesized mRNAs. We therefore designed two novel cap analogs, P(1)-3'-deoxy-7-methyguanosine-5' P3-guanosine-5' triphosphate and P(1)-3'-O,7-dimethylguanosine-5' P3-guanosine-5' triphosphate, that are, theoretically, incapable of being incorporated in the reverse orientation. The key reactions of pyrophosphate bond formation were achieved in anhydrous dimethylformamide solutions employing the catalytic properties of zinc salts. Structures were proven by 1H NMR. Transcripts produced with SP6 polymerase using "anti-reverse" cap analogs (ARCAs) were of the predicted length and indistinguishable in size and homogeneity from those produced with m7GpppG or GpppG. Analysis of the transcripts with RNase T2 and tobacco acid pyrophosphatase indicated that reverse caps were formed with m7GpppG but not with ARCAs. Both of the ARCAs inhibited cell-free translation with a K(I) similar to that of m7GpppG. Finally, the translational efficiency of ARCA-capped transcripts in a rabbit reticulocyte lysate was 2.3- to 2.6-fold higher than that of m7GpppG-capped transcripts. This suggests the presence of reverse caps in conventional in vitro-synthesized mRNAs reduces their translational efficiency.
On the interaction between agalactosyl IgG and Fcγ receptors (1996)

One of the serum abnormalities observed in autoimmune diseases such as rheumatoid arthritis (RA) and systemic lupus erythematosus (SLE) is the occurrence of IgG that lacks the terminal galactose on asparagine-linked biantennary complex type oligosaccharides [Gal(0)-IgG] located in the CH2 domain. Additionally, IgG without glycosylation is known to be defective in several effector functions due to a reduced ability to bind to its specific receptors (Fc gamma R). It has thus been speculated that, by analogy with unglycosylated IgG, Gal(0)-IgG may also be functionally impaired or exert altered effector mechanisms. If this were true, Gal(0)-IgG could contribute to the phenotype of above-mentioned autoimmune diseases, like impaired immune complex clearance and defective down-regulation of activated B cells. Here, we show by three different methods that the interaction of Gal(0)-IgG and normally glycosylated IgG with the low-affinity Fc gamma RII (CD32) is indistinguishable with respect both to binding and receptor-mediated signalling. These data argue against a prominent role for Fc gamma R-dependent Gal(0)-IgG interactions in the etiology or pathogenesis of autoimmune diseases.
Asymptotic Mutual Information for Rician MIMO-MA Channels with Arbitrary Inputs: A Replica Analysis (2010)

Using the replica method, originally developed in statistical physics, we derive the asymptotic mutual information (MI) of a spatially correlated Rician multiple-input multiple-output (MIMO) multiple-access (MA) channel for any given signaling input distributions (not necessarily Gaussian) in the large-system regime where the numbers of antennas at the transmitters and the receiver go to infinity with a constant ratio. In addition to the result that uses joint optimum decoding (JOD) at the central receiver, we also obtain asymptotic characteristics of a more practical system which performs separate detection and decoding (SDD) (i.e., spatial detection followed by a temporal error-correction decoder). Simulation results reveal that the asymptotic results provide promising estimates for the average performance metrics (e.g., the error probability and the MI) even with only a few antenna elements at the transceivers.
Splice variants of the relaxin and INSL3 receptors reveal unanticipated molecular complexity (2005)

LGR7 and LGR8 are G protein-coupled receptors that belong to the leucine-rich repeat-containing G-protein coupled receptor (LGR) family, including the thyroid-stimulating hormone (TSH), LH and FSH receptors. LGR7 and LGR8 stimulate cAMP production upon binding of the cognate ligands, relaxin and insulin-like peptide 3 (INSL3), respectively. We cloned several novel splice variants of both LGR7 and LGR8 and analysed the function of four variants. LGR7.1 is a truncated receptor, including only the N-terminal region of the receptor and two leucine rich repeats. In contrast, LGR7.2, LGR7.10 and LGR 8.1 all contain an intact seven transmembrane domain and most of the extracellular region, lacking only one or two exons in the ectodomain. Our analysis demonstrates that although LGR7.10 and LGR8.1 are expressed at the cell surface, LGR7.2 is predominantly retained within cells and LGR7.1 is partially secreted. mRNA expression analysis revealed that several variants are co-expressed in various tissues. None of these variants were able to stimulate cAMP production following relaxin or INSL3 treatment. Unexpectedly, we did not detect any direct specific relaxin or INSL3 binding on any of the splice variants. The large number of receptor splice variants identified suggests an unforeseen complexity in the physiology of this novel hormone-receptor system.
Phosphate-dependent and independent neurofilament protein epitopes are expressed throughout the cell cycle in human medulloblastoma (D283 MED) cells. (1989)

The low (NF-L) and middle (NF-M) molecular weight (Mr) neurofilament (NF) subunits are expressed before the high (NF-H) Mr NF subunit in embryonic neurons. Thereafter, NF-M attains its mature state of phosphorylation more rapidly than does NF-H. However, little is known about NF subunit expression during cell division. A rapidly dividing medulloblastoma cell line (D283 MED), therefore, was examined using flow cytometry, immunochemistry, and a large panel of NF subunit-specific polyclonal and monoclonal antibodies. Many of the monoclonal antibodies (MAbs) distinguished NF-H and NF-M in different states of phosphorylation. By flow cytometry, more than 90% of the D283 cells expressed NF-H and NF-M in different states of phosphorylation, and an antiserum specific for the carboxy terminus of NF-L labeled more than 60% of these cells. Furthermore, the fluorescence intensity produced by MAbs that detected phosphorylated versus nonphosphorylated NF-H and/or NF-M epitopes, appropriately decreased or increased, respectively, by preincubating the D283 cells with alkaline phosphatase. In contrast, cell staining with antibodies specific for phosphate-independent NF protein epitopes did not change substantially as a result of enzymatic dephosphorylation. These results agreed closely with those obtained from studies of normal human spinal cord NF extracts. However, NF-H, NF-M, and NF-L were expressed throughout the cell cycle in dual parameter studies of D283 cells labeled with an antibody and propidium iodide. Nevertheless, reductions in the fluorescence intensity produced with most of these antibodies late in the cell cycle suggested that NF proteins may be subject to modifications in their structure or accessibility to antibody probes during different phases of the cell cycle. These data led to the conclusion that NF subunits are expressed throughout the cell cycle in cultured human medulloblastoma cells, but that subtle changes in the immunoreactivity of these proteins occur during cell division.
Regulation of the expression of human C epsilon germline transcript. Identification of a novel IL-4 responsive element (1993)

Transcriptional regulation for Ig H chain germline transcripts induced by cytokines is a topic of recent interest for the understanding of the mechanism of class switch recombination. Among human B cell lines examined, we have found that a human IgM-producing B cell line, DND39 (EBV negative) expressed germ-line transcripts of epsilon constant gene (C epsilon) when stimulated with IL-4. In our study, the regulatory element responsible for the expression of IL-4-induced human C epsilon germ-line transcript was determined using DND39 cells. To identify the IL-4 responsive promoter/enhancer element, deletion analysis of the upstream region of the germ-line exon (I epsilon) of the C epsilon germ-line transcript which is located 5' to the switch region, was performed by using a luciferase gene as a reporter. Deletion analysis showed that a DNA fragment which lies between -215 and -154 bp upstream from the most 3' transcriptional initiation site of human I epsilon gene is fully responsible for the induction of germ-line transcripts by IL-4. According to a mutational analysis, the DNA fragment between -163 and -152 bp, was identified to be a novel IL-4 responsive element in a human C epsilon gene. Electrophoretic gel mobility shift assay showed the presence of IL-4-induced nuclear factor that specifically bound to this IL-4 responsive element. This novel IL-4 responsive element and an IL-4-induced DNA binding protein may play an important role for the induction of C epsilon germ-line transcript as well as class switching to IgE.
Direction-of-arrival estimation using acoustic vector sensors in the presence of noise (2011)

A vector-sensor consisting of a monopole sensor collocated with orthogonally oriented dipole sensors can be used for direction-of arrival (DOA) estimation. A method is proposed to estimate the DOA based on the direction of maximum power. Algorithms mentioned in earlier works are shown to be special cases of the proposed method. An iterative algorithm based on the principal of gradient ascent is presented for the solution of the maximum power problem. The proposed maximum-power method is shown to approach the Cramer-Rao lower bound (CRLB) with a suitable choice of parameter.
Zeolite Nanoparticles for Selective Sorption of Plasma Proteins (2015)

The affinity of zeolite nanoparticles (diameter of 8-12 nm) possessing high surface area and high pore volume towards human plasma proteins has been investigated. The protein composition (corona) of zeolite nanoparticles has been shown to be more dependent on the plasma protein concentrations and the type of zeolites than zeolite nanoparticles concentration. The number of proteins present in the corona of zeolite nanoparticles at 100% plasma (in vivo state) is less than with 10% plasma exposure. This could be due to a competition between the proteins to occupy the corona of the zeolite nanoparticles. Moreover, a high selective adsorption for apolipoprotein C-III (APOC-III) and fibrinogen on the zeolite nanoparticles at high plasma concentration (100%) was observed. While the zeolite nanoparticles exposed to low plasma concentration (10%) exhibited a high selective adsorption for immunoglobulin gamma (i.e. IGHG1, IGHG2 and IGHG4) proteins. The zeolite nanoparticles can potentially be used for selectively capture of APOC-III in order to reduce the activation of lipoprotein lipase inhibition during hypertriglyceridemia treatment. The zeolite nanoparticles can be adapted to hemophilic patients (hemophilia A (F-VIII deficient) and hemophilia B (F-IX deficient)) with a risk of bleeding, and thus might be potentially used in combination with the existing therapy.
Characterization of broken DNA molecules associated with V(D)J recombination. (1993)

We previously demonstrated that DNA molecules with double-strand breaks at variable-(diversity)-joining [V(D)J] recombination signal sequences are relatively abundant in mouse thymocytes. This abundance strongly suggests that the mechanism of V(D)J recombination involves double-strand cleavage at recombination signals. As a first step toward understanding the mechanism of cleavage, we used a sensitive PCR assay to characterize the structure of one class of cleavage products, the signal ends, in detail. Here we demonstrate that most of these ends are blunt and terminate in 5' phosphoryl groups. Virtually all of the flush signal ends are full length. A minor subpopulation of broken ends terminates in short single-strand extensions. We have found no evidence for covalent DNA-protein linkages involving the signal ends. These data allow further refinement of the double-strand cleavage model for V(D)J recombination.
Myelin patterns in V1 and V2 of normal and monocularly enucleated monkeys (1997)

A pattern of alternating light and dark columns was observed in wet, unstained sections of macaque striate cortex after monocular enucleation. The columns were clearest in layer IV, but could be detected through the full thickness of the cortex. Subsequent processing for cytochrome oxidase (CO) showed that the light columns in wet sections viewed under darkfield illumination matched the ocular dominance columns serving the enucleated eye. These columns labeled preferentially with an antibody to myelin basic protein, suggesting that greater myelin content accounted for their brighter appearance. However, when sections were counterstained with luxol fast blue, Gallyas and Woelcke myelin techniques, the enucleated eye's columns appeared pale. It is unclear why classical myelin stains and myelin basic protein immunohistochemistry yielded opposite results. Discrepant patterns of myelin distribution were also found in normal animals using different myelin stains. Luxol fast blue showed homogeneous staining in layer IVc of macaque striate cortex, but the Gallyas stain revealed a pattern of thin pale bands alternating with wide dark bands, matching the pattern seen with the Liesegang stain. The CO patches in layers II and III fit in register with the wide dark myelin bands. In layers II and III of striate cortex, the Gallyas and luxol fast blue methods both labeled the CO patches. However, in squirrel monkey V2 the Gallyas stain labeled the pale CO stripes, whereas luxol fast blue labeled the dark CO stripes. These results indicate that pattern of myelin staining in visual cortex can vary according to the choice of technique, and may not reflect the true distribution of myelin. Studies of myeloarchitecture should employ a variety of myelin techniques, including examination of unstained sections, to obtain the most accurate picture of cortical myelin content.
Positive transcriptional regulation of an iron-regulated virulence gene in Vibrio cholerae. (1991)

We have previously described a virulence gene in Vibrio cholerae (irgA) that is more than 850-fold regulated in response to iron. Negative regulation of irgA by iron occurred at the transcriptional level, and there was a dyad symmetric nucleotide sequence in the vicinity of the irgA promoter homologous to the Fur binding site in Escherichia coli. When irgA was cloned into E. coli, we showed that transcription of irgA required 900 base pairs of DNA upstream of the irgA promoter that contained an open reading frame in inverse orientation to irgA. In the present study, we show that this upstream region of DNA encodes a gene in inverse orientation to irgA (named irgB) that is also negatively regulated by iron. Insertional inactivation of irgB on the V. cholerae chromosome leads to loss of expression of a chromosomal irgA'-'phoA fusion (in which the primes indicate truncated genes), which is restored to normal by provision of irgB on a plasmid in trans. DNA sequencing of irgB shows that the protein product (IrgB) is homologous to the LysR family of positive transcriptional activators, and secondary structure analysis of IrgB predicts a helix-turn-helix DNA binding motif. The promoters of irgB and irgA are divergent but overlap each other and the previously defined Fur-binding site. We propose a model for iron regulation of irgA expression in V. cholerae. In the presence of sufficient iron, transcription of both irgA and irgB is negatively regulated by a Fur-like protein. In low iron conditions, negative regulation of transcription is removed, and production of IrgB leads to positive transcriptional activation of irgA. It seems likely that the high induction ratio of irgA expression under low- and high-iron conditions (850-fold) relates to the fact that its cognate positive transcriptional activator (irgB) is itself negatively regulated by iron.
Functional Cystic Fibrosis Transmembrane Conductance Regulator Expression in Cystic Fibrosis Airway Epithelial Cells by AAV6.2-Mediated Segmental Trans -Splicing (2009)

Cystic fibrosis is characterized by deficiency of the cystic fibrosis transmembrane conductance regulator (CFTR), a Cl(-) transporter. The packaging constraints of adeno-associated viral (AAV) vectors preclude delivery of both an active promoter and CFTR cDNA to target cells. We hypothesized that segmental trans-splicing, in which two AAV vectors deliver the 5' and 3' halves of the CFTR cDNA, could mediate splicing of two pre-mRNAs into a full-length, functional CFTR mRNA. Using a segmental trans-splicing 5' donor-3' acceptor pair that split the CFTR cDNA between exons 14a and 14b, cotransfection of donor and acceptor plasmids into CFTR(-) cells resulted in full-length CFTR message and protein. Microinjection of plasmids into CFTR(-) cells produced cAMP-activated Cl(-) conductance. Vectors created with an engineered human serotype, AAV6.2, were used to deliver CFTR donor and acceptor constructs, resulting in full-length CFTR mRNA and protein as well as cAMP-activated Cl(-) conductance in CFTR(-) cells, including human CF airway epithelial IB3-1 cells. Thus, segmental trans-splicing can be used with AAV vectors to mediate expression of CFTR, a strategy potentially applicable to individuals with CF.
FURTHER STUDIES IN THE ALKYLATION OF PHENOLS AND THIOPHENOLS (1951)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTFURTHER STUDIES IN THE ALKYLATION OF PHENOLS AND THIOPHENOLSNG. PH. BUU-HOÏ, HENRI LE BIHAN, FERNAND BINON, and NG. D. XUONGCite this: J. Org. Chem. 1951, 16, 6, 988–994Publication Date (Print):June 1, 1951Publication History Published online1 May 2002Published inissue 1 June 1951https://doi.org/10.1021/jo01146a024RIGHTS & PERMISSIONSArticle Views184Altmetric-Citations2LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (459 KB) Get e-Alerts Get e-Alerts
Wavelet-based multiscale statistical process monitoring: A literature review (2004)

Data that represent complex and multivariate processes are well known to be multiscale due to the variety of changes that could occur in a process with different localizations in time and frequency. Examples of changes may include mean shift, spikes, drifts and variance shifts all of which could occur in a process at different times and at different frequencies. Acoustic emission signals arising from machining, images representing MRI scans and musical audio signals are some examples that contain these changes and are not suited for single scale analysis. The recent literature contains several wavelet-decomposition-based multiscale process monitoring approaches including many real life process monitoring applications. These approaches are shown to be effective in handling different data types and, in concept, are likely to perform better than existing single scale approaches. There also exists a vast literature on the theory of wavelet decomposition and other statistical elements of multiscale monitoring methods, such as principal components analysis, denoising and charting. To our knowledge, no comprehensive review of the work relevant to multiscale monitoring of both univariate and multivariate processes has been presented to the literature. In this paper, over 150 both published and unpublished papers are cited for this important subject, and some extensions of the current research are also discussed.
Object-based urban landcover mapping methodology using high spatial resolution imagery and airborne laser scanning (2018)

Mapping landcover in cities is essential for urban ecology and landuse management, yet urban landcover is often highly heterogeneous at fine spatial scales. Pixel-based approaches are shown to be less successful for effectively mapping urban landcover due to high heterogeneity, with relatively low accuracies reported despite the use of high spatial resolution optical imagery. Alternatively, geographic object-based image analysis (GEOBIA) has yielded higher accuracies across a range of urban applications. We combine three-dimensional (3-D) information from airborne laser scanning (ALS) data with RapidEye high-spatial-resolution imagery in a GEOBIA approach to classify urban landcover in a large metropolitan region in Vancouver, Canada. Results indicate that 12 urban classes could be accurately mapped at 2-m spatial resolution across 150,000 ha with an overall accuracy of 88% (kappa 0.87). Though 5-m RapidEye multispectral pixels were often mixed in heterogeneous urban areas, the additional insight provided by the 3-D ALS information enabled accurate classification of fine spatial objects such as street trees and single-family dwellings.
Isolation of hepatitis C virus RNA from serum for reverse transcription-PCR (1994)

Standard multistep extraction and isolation of RNA for hepatitis C virus (HCV) reverse transcription (RT)-PCR are impractical for routine use in clinical laboratories. We compared three simple commercially available methods for RNA isolation (RNAzol B, TRISOLV, and ULTRASPEC; Biotecx Laboratories, Houston, Tex.) and a total nucleic acid isolation method (IsoQuick; MicroProbe Corp., Garden Grove, Calif.) for the recovery of HCV RNA from sera obtained from 12 viremic patients for RT-PCR. RNAzol B, TRISOLV, ULTRASPEC, and IsoQuick extraction methods detected 87.5, 79.2, 33.3, and 58.3% of the paired positive samples, respectively. The method used for isolation of RNA is an important concern when optimizing HCV RT-PCR.