gebhart/patrepeval huggingface dataset:
Characterization of a G Protein -Coupled Guanylyl Cyclase -B Receptor from Bovine Tracheal Smooth Muscle (2006)

A G protein-coupled natriuretic peptide-guanylyl cyclase receptor-B (NPR-B) located in plasma membranes from bovine tracheal smooth muscle shows complex kinetics and regulation. NPR-B was activated by natriuretic peptides (CNP-53 > ANP-28) at the ligand extracellular domain, stimulated by Gq-protein activators, such as mastoparan, and inhibited by Gi-sensitive chloride, interacting at the juxtamembrane domain. The kinase homology domain was evaluated by the ATP inhibition of Mn2+-activated NPR-B, which was partially reversed by mastoparan. The catalytic domain was studied by kinetics of Mn2+/Mg2+ and GTP, and the catalytic effect with GTP analogues with modifications of the /gamma phosphates and ribose moieties. Most NPR-B biochemical properties remained after detergent solubilization but the mastoparan activation and chloride inhibition of NPR-B disappeared. Our results indicate that NPR-B is a highly regulated nano-machinery with domains acting at cross-talk points with other signal transducing cascades initiated by G protein-coupled receptors and affected by intracellular ligands such as chloride, Mn2+, Mg2+, ATP, and GTP.
Lanthanide-Containing Polymer Nanoparticles for Biological Tagging Applications:  Nonspecific Endocytosis and Cell Adhesion (2007)

We describe the synthesis and characterization of element-encoded polystyrene nanoparticles with diameters on the order of 100 nm and a narrow size distribution. Individual particles contain ca. 10(3) chelated lanthanide ions, of either a single element or a mixture of elements. These particles were effectively internalized by nonspecific endocytosis into three cell lines associated with human leukemia. Using an assay based upon ICP-MS detection, we could monitor quantitatively cell adhesion induced by cell differentiation of THP-1 cells in response to phorbol ester stimulation (PMA) in single cell type or mixed cultures.
The effect of liquid anhydrous ammonia in the structure and morphology of cotton cellulose (1971)

Abstract The effect of liquid ammonia on cotton fabric was studied using x‐ray diffraction (XRD) and electron microscopy. A phase diagram is presented describing the relationship between disordered cellulose, cellulose I, and cellulose III. The transition from cellulose I to III proceeds through the liquid ammonia. Cellulose III is obtained upon drying the ammonia‐cellulose without the presence of water. Treatment of the cellulose III or of the ammonia‐cellulose with water brings about the formation of cellulose I. The degree of crystalline order achieved in water is enhanced by heating, which is consistent with a glass transition temperature between room temperature and 100°C. The cellulose III crystallites obtained are much smaller than those of cellulose I,16‐23Åas against 50‐80Å The interaction of ammonia with cotton cellulose is faster than with other swelling agents, such as ethylamine. The penetration of ammonia into the secondary wall of the cotton fiber is not only along the concentrical rings, as is the case with water, but also radially across the rings. Prolonged soaking in water increases the crystallite size with simultaneous rejection of swelling water.
Effects of Escherichia coli ribosomal protein S12 mutations on cell‐free protein synthesis (2004)

We examined the effects of Escherichia coli ribosomal protein S12 mutations on the efficiency of cell-free protein synthesis. By screening 150 spontaneous streptomycin-resistant isolates from E. coli BL21, we successfully obtained seven mutants of the S12 protein, including two streptomycin-dependent mutants. The mutations occurred at Lys42, Lys87, Pro90 and Gly91 of the 30S ribosomal protein S12. We prepared S30 extracts from mutant cells harvested in the mid-log phase. Their protein synthesis activities were compared by measuring the yields of the active chloramphenicol acetyltransferase. Higher protein production (1.3-fold) than the wild-type was observed with the mutant that replaced Lys42 with Thr (K42T). The K42R, K42N, and K42I strains showed lower activities, while the other mutant strains with Lys87, Pro90 and Pro91 did not show any significant difference from the wild-type. We also assessed the frequency of Leu misincorporation in poly(U)-dependent poly(Phe) synthesis. In this assay system, almost all mutants showed higher accuracy and lower activity than the wild-type. However, K42T offered higher activity, in addition to high accuracy. Furthermore, when 14 mouse cDNA sequences were used as test templates, the protein yields of nine templates in the K42T system were 1.2-2 times higher than that of the wild-type.
Lneuro 1.0: a piece of hardware LEGO for building neural network systems (1992)

Neural network simulations on a parallel architecture are reported. The architecture is scalable and flexible enough to be useful for simulating various kinds of networks and paradigms. The computing device is based on an existing coarse-grain parallel framework (INMOS transputers), improved with finer-grain parallel abilities through VLSI chips, and is called the Lneuro 1.0 (for LEP neuromimetic) circuit. The modular architecture of the circuit makes it possible to build various kinds of boards to match the expected range of applications or to increase the power of the system by adding more hardware. The resulting machine remains reconfigurable to accommodate a specific problem to some extent. A small-scale machine has been realized using 16 Lneuros, to experimentally test the behavior of this architecture. Results are presented on an integer version of Kohonen feature maps. The speedup factor increases regularly with the number of clusters involved (to a factor of 80). Some ways to improve this family of neural network simulation machines are also investigated.
Tpx2, a Novel Xenopus Map Involved in Spindle Pole Organization (2000)

TPX2, the targeting protein for Xenopus kinesin-like protein 2 (Xklp2), was identified as a microtubule-associated protein that mediates the binding of the COOH-terminal domain of Xklp2 to microtubules (Wittmann, T., H. Boleti, C. Antony, E. Karsenti, and I. Vernos. 1998. J. Cell Biol. 143:673-685). Here, we report the cloning and functional characterization of Xenopus TPX2. TPX2 is a novel, basic 82.4-kD protein that is phosphorylated during mitosis in a microtubule-dependent way. TPX2 is nuclear during interphase and becomes localized to spindle poles in mitosis. Spindle pole localization of TPX2 requires the activity of the dynein-dynactin complex. In late anaphase TPX2 becomes relocalized from the spindle poles to the midbody. TPX2 is highly homologous to a human protein of unknown function and thus defines a new family of vertebrate spindle pole components. We investigated the function of TPX2 using spindle assembly in Xenopus egg extracts. Immunodepletion of TPX2 from mitotic egg extracts resulted in bipolar structures with disintegrating poles and a decreased microtubule density. Addition of an excess of TPX2 to spindle assembly reactions gave rise to monopolar structures with abnormally enlarged poles. We conclude that, in addition to its function in targeting Xklp2 to microtubule minus ends during mitosis, TPX2 also participates in the organization of spindle poles.
Cloning of a novel gene (ING1L) homologous to ING1, a candidate tumor suppressor (1998)

The ING1 gene encodes p33(ING1), a putative tumor suppressor for neuroblastomas and breast cancers, which has been shown to cooperate with p53 in controlling cell proliferation. We have isolated a novel human gene, ING1L, that potentially encodes a PHD-type zinc-finger protein highly homologous to p33(ING1). Fluorescence in situ hybridization and radiation-hybrid analyses assigned ING1L to human chromosome 4. Both ING1 and ING1L are expressed in a variety of human tissues, but we found ING1L expression to be significantly more pronounced in tumors from several colon-cancer patients than in normal colon tissues excised at the same surgical sites. Although the significance of this observation with respect to carcinogenesis remains to be established, the data suggest that ING1L might be involved in colon cancers through interference with signal(s) transmitted through p53 and p33(ING1).
Repetitive palindromic sequences in Escherichia coli. Detection and characterization with a new computer program (1987)

We have made use of a new computer program which rapidly searches for DNA patterns irrespective of the exact sequence, in order to search systematically for repetitive palindromic structures on the Escherichia coli chromosome. By using a relatively restrictive criterion, we detected three families of palindromic structures. One is present in ribosomal RNA operons. Since seven identical ribosomal RNA operons are found on the E. coli genome, this constitutes a validation of the method. Another family is constituted by the extragenic palindromic units (PUs or REP) already described (Gilson et al., 1984). We propose a slightly different consensus for this highly repetitive and dispersed family. The last is a subclass of symmetrical transcription termination sites which we have identified. They are present in four attenuator sites and at least one terminator for convergent operons. We suggest that these symmetrical terminator sites may play a general role in the termination of transcription for convergent operons. We discuss briefly how this type of approach could be used to analyse the structure of genomes.
Detecting Single Stranded DNA with a Solid State Nanopore (2005)

Voltage biased solid-state nanopores are used to detect and characterize individual single stranded DNA molecules of fixed micrometer length by operating a nanopore detector at pH values greater than approximately 11.6. The distribution of observed molecular event durations and blockade currents shows that a significant fraction of the events obey a rule of constant event charge deficit (ecd) indicating that they correspond to molecules translocating through the nanopore in a distribution of folded and unfolded configurations. A surprisingly large component is unfolded. The result is an important milestone in developing solid-state nanopores for single molecule sequencing applications.
Phospholipase A2 is present in meconium and inhibits the activity of pulmonary surfactant: an in vitro study (2001)

PLA2 is present in meconium and inhibits the activity of pulmonary surfactant in vitro. Therefore, PLA2 in meconium may contribute to surfactant inactivation and alveolar atelectasis in MAS.
Treatment of hypertension (1971)

The aim of treatment of hypertension as of other diseases is to relieve symptoms and to improve prognosis. Most of the symptoms of hypertension are due to the associated cardio- vascular complications, and these also have a decisive effect on prognosis.
Cloning and characterization of T-cell-reactive protein antigens from Listeria monocytogenes (1990)

To explore the molecular basis of the T-cell-mediated immune response to Listeria monocytogenes, we cloned and expressed listerial antigens in Escherichia coli using the lambda-ZAP bacteriophage and Bluescript plasmid vectors. A two-stage screening strategy was implemented to identify T-cell-reactive antigens; the first stage involved antibodies or oligonucleotide probes and the second stage was based on assays for T-cell activation. A library of genomic DNA from L. monocytogenes was generated in lambda-ZAP, and then antigens, were detected in infected cells with a polyclonal rabbit anti-L. monocytogenes antiserum and an L. monocytogenes-specific monoclonal antibody. Also, synthetic oligonucleotide probes corresponding to the structural gene for listeriolysin O (LLO) were used to screen the recombinant DNA library. In each case, positive isolates were evaluated for T-cell antigenicity by measuring antigen-induced interleukin-2 production by polyclonal T cells taken from L. monocytogenes-immune mice. Phage clones were subcloned and expressed in the Bluescript plasmid and tested further for antigenic activity and LLO expression. Using this screening strategy, we successfully identified bacterial clones producing recombinant listerial antigens which activate L. monocytogenes-immune T cells in vitro. Antigens operative in the T-cell response during infection with L. monocytogenes include LLO, 62- and 39-kilodalton proteins, and other poorly defined bacterial surface components. We also found that high concentrations of recombinant LLO inhibited macrophage-mediated antigen presentation. These results are discussed in terms of the multiple functions of LLO as a virulence factor, inhibitor of antigen presentation, and potent antigen in the T-cell response to L. monocytogenes. These studies represent the first step toward a genetic definition of the antigens recognized in immune defense to L. monocytogenes.
A New Variant Cytotoxic T Lymphocyte Escape Mutation in HLA-B27-Positive Individuals Infected with HIV Type 1 (2005)

The immune response in HIV-infected individuals who carry HLA-B27 is characterized by an immunodominant cytotoxic T lymphocyte (CTL) response to a conserved epitope corresponding to amino acids 263-272 of HIV-1 p24 gag. The arginine at position 264 is a crucial anchor residue. Amino acid substitution at 264 from arginine (R) to glycine (G), lysine (K), or threonine (T) results in a low affinity peptide that binds to HLA-B27 inefficiently and is poorly recognized by T cells that respond to the wild-type peptide. These mutants have been characterized as CTL escape mutations. We studied the plasma virus of 20 HLA-B27 longterm nonprogressors: 14 were wild type and 6 were found to be mutant. Five of these carried known escape mutations coding for K or G at position 264. One patient demonstrated a previously undescribed R264Q mutation in 30/31 clones. This altered epitope failed to elicit an IFN-gamma response from PBMC isolated from any of four HLA-B27-positive individuals with strong responses to wild-type peptide. A peptide binding assay confirmed that the R264Q mutant peptide had 30-fold lower binding affinity to HLA-B27 compared to wild type. Therefore, the R264Q variant is a likely novel escape mutation in HLA-B27-positive individuals.
Polysaccharides with Sulfate Groups Are Human T Cell Mitogens and Murine Polyclonal B Cell Activators (PBAs) (1984)

In our previous paper, we reported that various types of carrageenan, dextran sulfate and fucoidan, which are sulfated homopolysaccharides with high molecular weights, were human T cell mitogens and murine polyclonal B cell activators (PBAs) and that heparin, a sulfated heteropolysaccharide, was a very weak human mitogen and mouse PBA. Here we used cellulose sulfate (Mr 7-9 X 10(3], dextran sulfate with two different low molecular weights (Mr 5 X 10(3) and 8 X 10(3], two different condroitin sulfates (Mr 3.5 X 10(4], polyvinyl sulfate and polygalacturonic acid to investigate mitogenic activities of polysaccharides in detail. The following results were obtained. Low-molecular-weight sulfated homopolysaccharides, dextran sulfate and cellulose sulfate, were very weak or not human T cell mitogens. However, they were better murine PBAs. Sulfated heteropolysaccharides, chondroitin 4-sulfate and chondroitin 6-sulfate, hardly induced mitogenic changes in human T cells and mouse B cells, even though the molecular weight of these substances was more than 1 X 10(4). There were no other polymers examined so far which activated both human T cells and murine B cells. The relationship among molecular size, sulfate groups and lymphocyte activation is discussed in detail.
The ability of selected chemicals for suppressing odour development in rising mains (2000)

The use of Nutriox® and ferric chloride to suppress hydrogen sulphide and odour generation in rising mains is evaluatd in a pilot scale study. Without chemical dosing the hydrogen sulphide built up to the commonly predicted levels after six months. Thereafter, addition of both Nutriox® and ferric chloride to sewage entering the rising main totally suppressed the formation of H2S. Nutriox also nearly totally suppressed the odour measured olfactometrically. The use of ferric salt at near stoichiometric levels effectively removed dissolved sulphide. Odour removal was generally good though on occasions reduction of dissolved sulphide levels to below 0.1 mg/l was not guaranteed to be accompanied by near total suppression of odour generation. The use of ferric ions at stoichiometric levels, after H2S and odours have formed in the rising main, also eliminated the dissolved sulphide. When used in this way, a significant residual odour potential, 110,000 ou/m3 remained in the sewage. The simultaneous reductions of odour and hydrogen sulphide observed in this study implied an apparent threshold odour concentration of 0.1 ppb for H2S, significantly lowr than most values quoted in the literature.
Allosteric modulation of G protein-coupled receptors. (2002)

Allosteric modulation of G protein-coupled receptors has recently been recognized as an alternative approach for selectivity in drug action. Allosteric modulators that enhance or diminish the effects of (endogenous) agonists or antagonists on a variety of G protein-coupled receptors are described in this review, with emphasis on the latest developments in this research area. Specific examples include allosteric ligands for adenosine A1 and A3 receptors, Ca(2+)-sensing receptors, metabotropic glutamate receptor subtypes, gamma-aminobutyric acid type B and muscarinic receptors. It appears that all three major classes of G protein-coupled receptors (A, B and C) are amenable to allosteric modulation by small molecules. This constitutes an attractive and novel means to identify new leads in the drug discovery process. However, it requires a reengineering of most current assays.
Maternal neuronal antibodies associated with autism and a language disorder (2003)

Neurodevelopmental disorders could be caused by maternal antibodies or other serum factors. We detected serum antibodies binding to rodent Purkinje cells and other neurons in a mother of three children: the first normal, the second with autism, and the third with a severe specific language disorder. We injected the serum (0.5-1.0 ml/day) into pregnant mice during gestation and found altered exploration and motor coordination and changes in cerebellar magnetic resonance spectroscopy in the mouse offspring, comparing with offspring of mice injected with sera from mothers of healthy children. This evidence supports a role for maternal antibodies in some forms of neurodevelopmental disorder.
Interaction between replication forks and topoisomerase I-DNA cleavable complexes: studies in a cell-free SV40 DNA replication system. (1993)

The extreme S-phase-specific cytotoxicity of camptothecin has been shown to involve active DNA replication. To investigate the role of DNA replication in camptothecin cytotoxicity, we have studied the interaction between the DNA replication machinery and the topoisomerase I-camptothecin-DNA ternary cleavable complex in a cell-free SV40 DNA replication system. The formation of topoisomerase I-camptothecin-DNA-cleavable complexes on the replication template efficiently and irreversibly inhibited DNA replication. Two aberrant forms of replication products were produced whose abundance varied with the concentrations of exogenously added topoisomerase I and camptothecin. At low concentrations of topoisomerase I and camptothecin, the major aberrant DNA replication product was close-to-unit-length-linear DNA, while at higher concentrations the predominant product was close-to-dimer-size-linear DNA. Analysis of these aberrant replication products has suggested a "collision" model in which the interaction between an advancing replication fork and a topoisomerase I-camptothecin-DNA-cleavable complex results in irreversible arrest of the replication fork and the formation of a double-strand DNA break at the fork. Concomitant with fork arrest and fork breakage, the reversible cleavable complex was converted into a topoisomerase I-linked DNA break. We propose that one or several of these events triggers S-phase-specific cell killing and G2-phase cell cycle arrest.
Syntheses of Regioisomerically Pure 5- or 6-Halogenated Fluoresceins (2003)

Three routes to regioisomerically pure 5- and 6-iodofluoresceins or 5- and 6-bromofluoresceins are described. The first, shown in Scheme 1, involves diazotization/iodination of the corresponding aminofluoresceins. In the second approach (Scheme 2) a mixture of regioisomeric fluoresceins was prepared, and the 5-bromo isomers were isolated as the ring closed diacetates 9b and 11 by fractional crystallization. Scheme 3 shows an approach to sulfonic acid derivatives 3 and 4 of 5-iodofluorescein. This is the most convenient procedure of the three, and it is particularly useful as sulfofluoresceins have more favorable water solubility characteristics than fluoresceins that lack the sulfonic acid group.
Replication-Competent Hybrids between Murine Leukemia Virus and Foamy Virus (2003)

Replication-competent chimeric retroviruses constructed of members of the two subfamilies of Retroviridae, orthoretroviruses and spumaretroviruses, specifically murine leukemia viruses (MuLV) bearing hybrid MuLV-foamy virus (FV) envelope (env) genes, were characterized. All viruses had the cytoplasmic tail of the MuLV transmembrane protein. In ESL-1, a truncated MuLV leader peptide (LP) was fused to the complete extracellular portion of FV Env, and ESL-2 to -4 contained the complete MuLV-LP followed by N-terminally truncated FV Env decreasing in size. ESL-1 to -4 had an extended host cell range compared to MuLV, induced a cytopathology reminiscent of FVs, and exhibited an ultrastructure that combined the features of the condensed core of MuLV with the prominent surface knobs of FVs. Replication of ESL-2 to -4 resulted in the acquisition of a stop codon at the N terminus of the chimeric Env proteins. This mutation rendered the MuLV-LP nonfunctional and indicated that the truncated FV-LP was sufficient to direct Env synthesis into the secretory pathway. Compared to the parental viruses, the chimeras replicated with only moderate cell-free titers.
Hydrogen sulfide mediates vasoactivity in an O2-dependent manner (2007)

Hydrogen sulfide (H(2)S) has recently been shown to have a signaling role in vascular cells. Similar to nitric oxide (NO), H(2)S is enzymatically produced by amino acid metabolism and can cause posttranslational modification of proteins, particularly at thiol residues. Molecular targets for H(2)S include ATP-sensitive K(+) channels, and H(2)S may interact with NO and heme proteins such as cyclooxygenase. It is well known that the reactions of NO in the vasculature are O(2) dependent, but this has not been addressed in most studies designed to elucidate the role of H(2)S in vascular function. This is important, since H(2)S reactions can be dramatically altered by the high concentrations of O(2) used in cell culture and organ bath experiments. To test the hypothesis that the effects of H(2)S on the vasculature are O(2) dependent, we have measured real-time levels of H(2)S and O(2) in respirometry and vessel tension experiments, as well as the associated vascular responses. A novel polarographic H(2)S sensor developed in our laboratory was used to measure H(2)S levels. Here we report that, in rat aorta, H(2)S concentrations that mediate rapid contraction at high O(2) levels cause rapid relaxation at lower physiological O(2) levels. At high O(2), the vasoconstrictive effect of H(2)S suggests that it may not be H(2)S per se but, rather, a putative vasoactive oxidation product that mediates constriction. These data are interpreted in terms of the potential for H(2)S to modulate vascular tone in vivo.
Empiric Therapy of Sepsis in the Surgical Intensive Care Unit with Broad-Spectrum Antibiotics for 72 Hours Does Not Lead to the Emergence of Resistant Bacteria (1998)

This protocol did not lead to the emergence of resistant bacteria.