gebhart/patrepeval huggingface dataset:
Wheat Germ Poly(A) Binding Protein Enhances the Binding Affinity of Eukaryotic Initiation Factor 4F and (iso)4F for Cap Analogues (1998)

Most eukaryotic mRNAs contain a 5' cap (m7GppX) and a 3' poly(A) tail to increase synergistically the translational efficiency. Recently, the poly(A) binding protein (PABP) and cap-binding protein, eIF-4F, were found to interact [Le et al. (1997) J. Biol. Chem. 272, 16247-16255; Tarun and Sachs (1996) EMBO J. 15, 7168-7177]. These data suggest that PABP may exert its effect on translational efficiency either by increasing the formation of initiation factor-mRNA complex or by enhancing ribosome recycling. To investigate the functional consequences of these interactions, the fluorescent cap analogue, ant-m7GTP, which is an environmentally sensitive fluorescent probe [Ren and Goss (1996) Nucleic Acids Res. 24, 3629-3634] was used to investigate the cap-binding affinity. Our data show that the binding of eIF-(iso)4F or eIF-4F to cap analogue enhanced their binding affinity toward PABP approximately 40-fold. Similarly, the eIF-4F/PABP or eIF-(iso)4F/PABP complexes show a 40-fold enhancement of cap analogue binding as compared to eIF-4F or eIF-(iso)4F alone. At least part of the enhancement of the translational initiation by PABP can be accounted for by direct changes in cap-binding affinity. The interactions of these components also suggest a mechanism whereby the poly(A) tail is brought into close proximity with m7G cap. This effect was examined by fluorescence energy transfer, and it was determined that the PABP/eIF-4F complex could bind both poly(A) and 5' cap simultaneously.
Mechanically Durable Superhydrophobic Surfaces (2010)

Development of durable non-wetting surfaces is hindered by the fragility of the microscopic roughness features that are necessary for superhydrophobicity. Mechanical wear on superhydrophobic surfaces usually shows as increased sticking of water, leading to loss of non-wettability. Increased wear resistance has been demonstrated by exploiting hierarchical roughness where nanoscale roughness is protected to some degree by large scale features, and avoiding the use of hydrophilic bulk materials is shown to help prevent the formation of hydrophilic defects as a result of wear. Additionally, self-healing hydrophobic layers and roughness patterns have been suggested and demonstrated. Nevertheless, mechanical contact not only causes damage to roughness patterns but also surface contamination, which shortens the lifetime of superhydrophobic surfaces in spite of the self-cleaning effect. The use of photocatalytic effect and reduced electric resistance have been suggested to prevent the accumulation of surface contaminants. Resistance to organic contaminants is more challenging, however, oleophobic surface patterns which are non-wetting to organic liquids have been demonstrated. While the fragility of superhydrophobic surfaces currently limits their applicability, development of mechanically durable surfaces will enable a wide range of new applications in the future.
Analysis of piezoelectric bulk-acoustic-wave resonators as detectors in viscous conductive liquids (1990)

An analytical solution for the resonance condition of a piezoelectric quartz resonator with one surface in contact with a viscous conductive liquid is presented. The characteristic equation that describes the resonance condition and accounts for all interactions including acoustoelectric interactions with ions and dipoles in the solution is obtained in terms of the crystal and liquid parameters. A simple expression for the change in the resonance frequency is obtained. For viscous nonconductive solutions, the frequency change is reduced to a relationship in terms of the liquid density and viscosity. For dilute conductive liquid, the change in frequency is derived in terms of the solution conductivity and dielectric constant. The boundary conditions for the problem are defined with and without the electrical effects of electrodes. Experiments were conducted with various viscous and conductive chemical liquids using a fabricated miniature liquid flow cell containing an AT-cut quartz crystal resonator. The results, which show good agreement with the theory, on the use of quartz crystal resonators as conductivity and/or viscosity sensors are reported.
The functional significance of neurotransmitter diversity (1984)

A major continuing theoretical issue in neurobiology is the nature of the information encoded into chemical neurotransmitters. This problem has been intensified by major recent advances in cellular neurobiology in three specific areas of work: neuronal connectivity, synaptic mechanisms, and neuronal transmitters. Countless new interneuronal connections have been revealed through the use of sensitive new cellular tracing methods, revealing a far more detailed picture of the complexities and principles of brain organization. A whole range of ionic conductance mechanisms has been detailed by the application of new methods of electrophysiological analysis, particularly useful with the in vitro preparations. Many of these mechanisms were not previously recognized, and together they provide a much richer repertoire of receptor response mechanisms upon which neurotransmitters can operate. Last, the modern methods of chemical analysis have provided an ever-increasing list of new neurotransmitter molecules, which fall conveniently into three chemical categories: amino acids, monoamines, and neuropeptides. This review considers some possible underlying principles by which the rich signaling capacity of the central nervous system may be approached conceptually and experimentally.
Evaluation of Adenovirus-Delivered Human CD59 as a Potential Therapy for AMD in a Model of Human Membrane Attack Complex Formation on Murine RPE (2008)

The humanized model of MAC deposition on murine ocular tissues allows testing of human complement regulators that may have potential in the treatment of AMD or other diseases associated with complement activation.
Reciprocal Relations in Irreversible Processes. I. (1931)

Examples of coupled irreversible processes like the thermoelectric phenomena, the transference phenomena in electrolytes and heat conduction in an anisotropic medium are considered. For certain cases of such interaction reciprocal relations have been deduced by earlier writers, e.g., Thomson's theory of thermoelectric phenomena and Helmholtz' theory for the e.m.f. of electrolytic cells with liquid junction. These earlier derivations may be classed as quasi-thermodynamic; in fact, Thomson himself pointed out that his argument was incomplete, and that his relation ought to be established on an experimental basis. A general class of such relations will be derived by a new theoretical treatment from the principle of microscopic reversibility. (\textsection{}\textsection{}1-2.) The analogy with a chemical monomolecular triangle reaction is discussed; in this case a a simple kinetic consideration assuming microscopic reversibility yields a reciprocal relation that is not necessary for fulfilling the requirements of thermodynamics (\textsection{}3). Reciprocal relations for heat conduction in an anisotropic medium are derived from the assumption of microscopic reversibility, applied to fluctuations. (\textsection{}4.) The reciprocal relations can be expressed in terms of a potential, the dissipation-function. Lord Rayleigh's "principle of the least dissipation of energy" is generalized to include the case of anisotropic heat conduction. A further generalization is announced. (\textsection{}5.) The conditions for stationary flow are formulated; the connection with earlier quasi-thermodynamic theories is discussed. (\textsection{}6.) The principle of dynamical reversibility does not apply when (external) magnetic fields or Coriolis forces are present, and the reciprocal relations break down. (\textsection{}7.)
Mechanism of Activation of PSI-7851 and Its Diastereoisomer PSI-7977 (2010)

A phosphoramidate prodrug of 2'-deoxy-2'-α-fluoro-β-C-methyluridine-5'-monophosphate, PSI-7851, demonstrates potent anti-hepatitis C virus (HCV) activity both in vitro and in vivo. PSI-7851 is a mixture of two diastereoisomers, PSI-7976 and PSI-7977, with PSI-7977 being the more active inhibitor of HCV RNA replication in the HCV replicon assay. To inhibit the HCV NS5B RNA-dependent RNA polymerase, PSI-7851 must be metabolized to the active triphosphate form. The first step, hydrolysis of the carboxyl ester by human cathepsin A (CatA) and/or carboxylesterase 1 (CES1), is a stereospecific reaction. Western blot analysis showed that CatA and CES1 are both expressed in primary human hepatocytes. However, expression of CES1 is undetectable in clone A replicon cells. Studies with inhibitors of CatA and/or CES1 indicated that CatA is primarily responsible for hydrolysis of the carboxyl ester in clone A cells, although in primary human hepatocytes, both CatA and CES1 contribute to the hydrolysis. Hydrolysis of the ester is followed by a putative nucleophilic attack on the phosphorus by the carboxyl group resulting in the spontaneous elimination of phenol and the production of an alaninyl phosphate metabolite, PSI-352707, which is common to both isomers. The removal of the amino acid moiety of PSI-352707 is catalyzed by histidine triad nucleotide-binding protein 1 (Hint1) to give the 5'-monophosphate form, PSI-7411. siRNA-mediated Hint1 knockdown studies further indicate that Hint1 is, at least in part, responsible for converting PSI-352707 to PSI-7411. PSI-7411 is then consecutively phosphorylated to the diphosphate, PSI-7410, and to the active triphosphate metabolite, PSI-7409, by UMP-CMP kinase and nucleoside diphosphate kinase, respectively.
TNF-α antagonists for the treatment of Crohn’s disease (2000)

New medical therapies that inhibit the bioactivity of TNF-alpha represent a major breakthrough in the treatment of Crohn's disease (CD). Anti-TNF-alpha, monoclonal, chimeric antibody (infliximab) is now FDA approved for use in patients with active CD. Other investigational drugs that also inhibit TNF-alpha activity include new 'humanised' anti-TNF-alpha antibodies (CDP571), thalidomide, new analogues of thalidomide, and TNF-alpha receptor fusion proteins. This review will summarise the key clinical data for each of these categories of TNF-alpha inhibition and discuss the potential economic impact of these new compounds on the cost of CD management.
Repetitive intratracheal bleomycin models several features of idiopathic pulmonary fibrosis (2010)

Single-dose intratracheal bleomycin has been instrumental for understanding fibrotic lung remodeling, but fails to recapitulate several features of idiopathic pulmonary fibrosis (IPF). Since IPF is thought to result from recurrent alveolar injury, we aimed to develop a repetitive bleomycin model that results in lung fibrosis with key characteristics of human disease, including alveolar epithelial cell (AEC) hyperplasia. Wild-type and cell fate reporter mice expressing β-galactosidase in cells of lung epithelial lineage were given intratracheal bleomycin after intubation, and lungs were harvested 2 wk after a single or eighth biweekly dose. Lungs were evaluated for fibrosis and collagen content. Bronchoalveolar lavage (BAL) was performed for cell counts. TUNEL staining and immunohistochemistry were performed for pro-surfactant protein C (pro-SP-C), Clara cell 10 (CC-10), β-galactosidase, S100A4, and α-smooth muscle actin. Lungs from repetitive bleomycin mice had marked fibrosis with prominent AEC hyperplasia, similar to usual interstitial pneumonia (UIP). Compared with single dosing, repetitive bleomycin mice had greater fibrosis by scoring, morphometry, and collagen content; increased TUNEL+ AECs; and reduced inflammatory cells in BAL. Sixty-four percent of pro-SP-C+ cells in areas of fibrosis expressed CC-10 in the repetitive model, suggesting expansion of a bronchoalveolar stem cell-like population. In reporter mice, 50% of S100A4+ lung fibroblasts were derived from epithelial mesenchymal transition compared with 33% in the single-dose model. With repetitive bleomycin, fibrotic remodeling persisted 10 wk after the eighth dose. Repetitive intratracheal bleomycin results in marked lung fibrosis with prominent AEC hyperplasia, features reminiscent of UIP.
TEMPO-Mediated Oxidation of Cellulose III (2003)

Various cellulose samples converted into cellulose III by two different ammonia treatments, either liquid or gaseous, were reacted with catalytic amounts of 2,2,6,6-tetramethylpiperidine-1-oxyl radical (TEMPO), sodium hypochlorite, and sodium bromide in water. A substantial increase in the reactivity of cellulose III samples was observed in comparison to those in cellulose I, and a relationship between oxidation conditions and cellulose primary hydroxyl groups accessibility was directly established. For the characterization, we have used several methods, mainly 13C NMR, methylene blue adsorption, FTIR, and conductometric titration. In all samples, the primary alcohol groups were selectively oxidized into carboxyl groups, provided the sodium hypochlorite is added dropwise and the reaction is performed at constant pH 10.
All-spin logic (2010)

The possible role of spin rather than charge as a state variable in devices for processing and storing information has been widely discussed, because it could allow low-power operation and might also have applications in quantum computing. However, spin-based experiments and proposals for logic applications typically use spin only as an internal variable, the terminal quantities for each individual logic gate still being charge-based. This requires repeated spin-to-charge conversion, using extra hardware that offsets any possible advantage. We propose a spintronic device that uses spin at every stage of its operation: information manipulation, transport, storage, input and output are all accomplished with magnets and spin-coherent channels.
Toward Carbon Fibers from Single Component Kraft Lignin Systems: Optimization of Chain Extension Chemistry (2016)

Single component softwood kraft lignins have been sought after as precursors to carbon fibers. This noble goal can be achieved by adding carbon onto lignin via propargylation. The reactivity of propargylated lignins may then be modulated via methylation, thus eliminating the onset of gelation via phenoxyl radical initiated random polymerization. This article demonstrates that properly installed propargyl groups of an acetone soluble kraft lignin (ASKL) fraction can be thermally polymerized to high molecular weights in a controlled manner. In order to create single component chain extended softwood kraft lignin systems for carbon fiber applications, one needs to regulate the amount and the positioning of the propargyl groups on the lignin. This became possible, and it is now demonstrated that the propargylation of lignin needs to occur first, followed by methylation and not the other way around. Such a sequence offers substantial benefits for the onset of a Claisen rearrangement to occur between the propargyl groups and the free C5 positions of the softwood lignin. Furthermore, once in position, the created benzopyrans can effectively further polymerize in a controlled manner offering chain extended kraft lignin products of sufficient molecular weight so as to apply subsequent stabilization and carbonization steps to it.
Tumor Cell Invasion Inhibited by TIMP-2 (1991)

The 72-kd type IV collagenase is a member of the collagenase enzyme family that has been closely linked with the invasive phenotype of cancer cells. Previous studies have shown that both normal cells and highly invasive tumor cells produce the 72-kd type IV procollagenase enzyme in a complexed form consisting of the proenzyme and a novel tissue inhibitor of metalloproteinases, TIMP-2. The balance between activated enzyme and available inhibitor is thought to be a critical determinant of the matrix proteolysis associated with a variety of pathologic processes, including tumor cell invasion. In the present study, we demonstrate that alteration of the metalloproteinase-metalloproteinase-inhibitor balance in favor of excess inhibitor blocks human fibrosarcoma HT-1080 tumor cell invasion of a reconstituted basement membrane. The HT-1080 cell line produces both the 72-kd and the 92-kd type IV collagenases. Alteration of the type IV collagenase-inhibitor balance was achieved by addition of free TIMP-2 or antibodies to 72-kd type IV collagenase. Native, purified TIMP-2 was inhibitory in the range of 1-25 micrograms/mL. Addition of specific antiserum against the 72-kd type IV collagenase, which did not cross-react with the 92-kd type IV collagenase, inhibited HT-1080 cell invasion to the same extent. These results suggest that metalloproteinases, in particular the 72-kd type IV collagenase, are critical for tumor cell invasion of the reconstituted basement membrane. Our findings demonstrate that addition of the endogenous inhibitor TIMP-2 is able to block invasion. Thus, we recommend initiation of in vivo studies of the therapeutic potential of TIMP-2 to block tumor cell invasion and intravasation into the circulation.
On the capacity formula for multiple input-multiple output wireless channels: a geometric interpretation (1999)

The capacity of multiple input, multiple output (MIMO) wireless channels is computed for Ricean channels. The novelty is a geometrical (ray-tracing) interpretation of the MIMO channel capacity formula to find array geometries which greatly enhance channel capacity compared to single input-single output (SISO) systems.
Chemotherapeutic nitro-heterocycles. Derivatives of 5-nitrothiazole-2-carboxaldehyde and 5-nitrothiazole-2-carboxylic acid (1969)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTChemotherapeutic nitro-heterocycles. Derivatives of 5-nitrothiazole-2-carboxaldehyde and 5-nitrothiazole-2-carboxylic acidDavid W. HenryCite this: J. Med. Chem. 1969, 12, 2, 303–306Publication Date (Print):March 1, 1969Publication History Published online1 May 2002Published inissue 1 March 1969https://pubs.acs.org/doi/10.1021/jm00302a024https://doi.org/10.1021/jm00302a024research-articleACS PublicationsRequest reuse permissionsArticle Views179Altmetric-Citations7LEARN 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 InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Polymerization of monomers containing functional silyl groups. 12. Anionic polymerization of styrene derivatives para‐substituted with pentamethyldisilyl (Si‐Si), heptamethyltrisilyl (Si‐Si‐Si), and nonamethyltetrasilyl (Si‐Si‐Si‐Si) groups (1995)

Abstract Three styrene derivatives, para ‐substituted pentamethyldisilyl (Si‐Si), heptamethyltrisilyl (Si‐Si‐Si), and nonamethyltetrasilyl (Si‐Si‐Si‐Si) groups 1 ‐ 3 were synthesized and polymerized in tetrahydrofuran (THF) at −78°C and in benzene at 40°C. The polymerizations of 1 and 2 in THF were found to proceed without transfer and termination reactions to afford stable living polymers. The Si‐Si and Si‐Si‐Si bonds are found to be completely stable under the conditions. Under the same conditions, novel block copolymers with well‐defined structures were synthesized by sequential addition of 1 or 2 and styrene. By contrast, side reactions occurred during the polymerizations of 1 and 2 in benzene at 40°C, although polymer yields were quantitative. More seriously, polymer was not obtained in the polymerization of 3 both in THF and in benzene. Thus, the effect of chain length of the oligosilyl group is found to be critical in the anionic polymerization of 1 ‐ 3 .
A natural autoantibody is encoded by germline heavy and lambda light chain variable region genes without somatic mutation. (1989)

While nonmutated germline variable region (V) genes have been found to encode heavy or light chains of various human autoantibodies, the use of germline V genes by both chains of a given autoantibody has not been documented. Recently, we reported that the heavy chain V gene (designated Humha346) of the Kim4.6 anti-DNA antibody is identical to a germline VH gene, 1.9III. To investigate whether this autoantibody was entirely germline encoded, we searched for the germline counterpart to the Kim4.6 V lambda segment (designated Humla146) and isolated a V lambda I gene designated Humlv117, which was identical to Humla146. Together with the sequence identity of the Kim4.6/Humha346 and 1.9III VH genes, the current data provide the first direct proof that an autoantibody can be encoded entirely by germline V genes without any somatic change. In addition, Humlv117 is the first V lambda I germline gene that has been isolated, and is highly homologous to the V lambda genes expressed in two lymphomas. Thus, this V lambda I gene should provide a useful tool for investigating the expression of the human V lambda gene repertoire, particularly with regard to autoimmune and/or lymphoproliferative diseases.
Cultivation of Ehrlichia chaffeensis in mouse embryo, Vero, BGM, and L929 cells and study of Ehrlichia-induced cytopathic effect and plaque formation (1995)

We successfully propagated Ehrlichia chaffeensis in mouse embryo, Vero, BGM, and L929 cells inoculated with host cell-free ehrlichiae, indicating that E. chaffeensis is capable of entry, survival, and growth in a relatively wide range of cell types derived from different species. We demonstrated rapid adaptation of E. chaffeensis in these cell lines, so that typical morulae could be detected as early as 5 days after inoculation. E. chaffeensis-induced cytopathic effect with different morphological characteristics in mouse embryo, Vero, and L929 cells. The earliest cytopathic effect appeared in untreated and irradiated mouse embryo cells at 4 days postinoculation. As the infected foci gradually expanded, the center of the foci showed necrotic cells with pyknotic nuclei and degraded morulae. E. chaffeensis caused cell lysis in untreated and irradiated L929 cells, with formation of distinct, round macroscopic plaques at 18 days postinoculation. In untreated and irradiated Vero cells, E. chaffeensis produced infected foci composed of loosely interwoven necrotic cells, spaces of detached cells, cells filled with morulae, and uninfected cells, resulting in characteristic reticular foci. Irradiated cells generally contained many large morulae and presented larger cytopathic foci. DH82 and BGM cells did not develop obvious cytopathic foci under the conditions employed. The findings reported herein offer the opportunity to study the pathogenic mechanism of cell injury by E. chaffeensis, the basis for quantification of infectious E. chaffeensis, improved approaches for recovery of ehrlichiae from human patients and tick hosts, and additional methods for cultivation of E. chaffeensis for molecular analysis.