gebhart/patrepeval huggingface dataset:
Localization of the cellular‐fibronectin‐specific epitope recognized by the monoclonal antibody IST‐9 using fusion proteins expressed in <i>E. coli</i> (1987)

Here we report on a monoclonal antibody (IST-9) which distinguishes between human cellular and plasma fibronectin. Using beta-galactosidase-fibronectin fusion proteins expressed in E. coli we have demonstrated that this monoclonal antibody is specific for a fibronectin segment (ED) which can be included or omitted from the molecule depending on the pattern of splicing of the mRNA precursors. Furthermore, using the same fusion proteins we have been able to localize precisely the epitopes of two other monoclonal antibodies (IST-1 and IST-2), specific for the heparin-binding domain 5 of fibronectin.
In the absence of trust is (obey me) the only mantra? (2005)

Sets out the main challenges facing management in the area of ethics and compliance. Discusses competitive pressures, producing goods and services responsibly, and building and keeping a good reputation. Business challenges are best met by the use of a code of ethics which involves both top-down and bottom-up. In this regard employees must be supported by senior management in raising their concerns about important issues with a view to their publication in the company's statement of accounts. Thus concludes that obedience, as a general mantra, is not the sole requirement of companies by Government - accordingly, it is preferable to encourage an individual code of ethics per company in pursuit of the goal of rigid self-examination.
Automated web application testing using search based software engineering (2011)

This paper introduces three related algorithms and a tool, SWAT, for automated web application testing using Search Based Software Testing (SBST). The algorithms significantly enhance the efficiency and effectiveness of traditional search based techniques exploiting both static and dynamic analysis. The combined approach yields a 54% increase in branch coverage and a 30% reduction in test effort. Each improvement is separately evaluated in an empirical study on 6 real world web applications.
Trigeminal small-fiber sensory neuropathy causes burning mouth syndrome (2005)

Burning mouth syndrome is a common disorder that frequently affects women in the 5th-7th decade. It is characterized by persisting painful symptoms mainly involving the anterior two-thirds of the tongue. For several years it has been attributed to psychological causes. We investigated the innervation of the epithelium of the tongue to assess whether damage of peripheral nerve fibers underlies the pathogenesis of the disease. We examined 12 patients with clinically definite burning mouth syndrome for at least 6 months. We obtained superficial biopsies of the lateral aspect of the anterior two-thirds of the tongue from all patients and nine healthy controls. Immunohistochemical and confocal microscope co-localization studies were performed with cytoplasmatic, cytoskeletric, Schwann cell, and myelin markers for pathological changes. The density of epithelial nerve fibers was quantified. Patients showed a significantly lower density of epithelial nerve fibers than controls, with a trend toward correlation with the duration of symptoms. Epithelial and sub-papillary nerve fibers showed diffuse morphological changes reflecting axonal degeneration. Our study demonstrates that burning mouth syndrome is caused by a trigeminal small-fiber sensory neuropathy and that superficial biopsy of the tongue can be helpful in assessing the diagnosis. These findings shed light into the pathogenesis of this common disorder and could contribute to evaluate targeted therapies in patients.
A Diaminochlorophosphine for Palladium‐Catalyzed Arylations of Amines and Ketones (2006)

Sterically hindered substituents on a secondary chlorophosphine 1 prevent formation of a diaminooxophosphine, and thereby allow for highly efficient arylation reactions of amines and α-C-H acidic ketones with (hetero)aryl chlorides.
The outermost cuticle of soybean seeds: chemical composition and function during imbibition (2007)

Seeds of different cultivars of Glycine max (L.) Merr. (soybean) have strikingly different rates of water imbibition. Seeds that readily imbibe water are termed 'soft', while those that remain non-permeable, even after several days in water, are referred to as 'hard', 'stone', or 'impermeable' seeds. What prevents soybean hard seeds from taking up water? Previous work established that the initial imbibition of soft soybean seeds correlates with the presence of small cracks in the outermost cuticle that covers the seed coat, prompting a detailed analysis of soybean seed coat cutin. In this paper, it is shown that the outermost cuticle of the seed coat has an unusual chemical composition, lacking typical mid-chain-hydroxylated fatty acids but being relatively rich in other types of hydroxylated fatty acids. The cuticle of the impermeable cultivar studied contained a disproportionately high amount of hydroxylated fatty acids relative to that of the permeable ones. Moreover, a brief treatment with hot alkali released the omega-hydroxy fatty acid component of the outermost cuticle and created holes in it that caused the seeds to become permeable. This demonstrates that the outermost cuticle of the seed is the critical structure that prevents water uptake by hard seeds.
In vivo evaluation of microspheres containing the angiogenesis inhibitor, TNP-470, and the metastasis suppression with liver metastatic model implanted neuroblastoma (2009)

TNP-470 (AGM-1470, O-(chloroacetylcarbamoyl) fumagillol), which strongly inhibits the angiogenesis, is promising as a new drug for tumor dormancy therapy; however, TNP-470 is very unstable in vitro and in vivo. We previously prepared TNP-470 containing microspheres composed of poly (lactic acid) with medium-chain triglyceride, and demonstrated that the microspheres released TNP-470 over the long-term in vitro. The present study was undertaken to evaluate the release profile of TNP-470 in vivo and the inhibitory effect on hepatic metastasis of neuroblastoma. It was found that the microspheres could maintain high levels of TNP-470 in the blood plasma for over 4 weeks in vivo. In addition, hepatic metastasis of neuroblastoma was strongly inhibited at 2 weeks after intraperitoneal injection of the microspheres. Following 2 weeks of treatment, the liver weights of mice injected with TNP-DDS (TNP-DDS (H), and TNP-DDS (L) groups) and those injected with only physiological saline (C-1300 group) after implantation of neuroblastoma cells were 1.18+/-0.13g, 1.28+/-0.10g, and 2.54+/-0.97g, respectively (p<0.05; C-1300 group compared with the TNP-DDS (H) and the TNP-DDS (L) groups, respectively). It was evident that microspheres containing TNP-470 have an excellent potential for clinical application in tumor dormancy therapy.
Autonomous and robust navigation for simulated humanoid characters in virtual environments (2002)

An important task for virtual characters is autonomous navigation in a virtual environment. This involves finding a way through the environment leading to a certain goal, avoiding obstacles such as walls, or surfaces not suitable for walking on. This paper presents an algorithm that analyzes a given scene database in a preprocessing phase in a fully automatic manner. It identifies storeys, rooms and stairs without the need of user guidance. During runtime, path planning works on data generated during the preprocessing phase working in real-time PC hardware.
Expression of G-protein-coupled receptor kinases in pregnant term and non-pregnant human myometrium (1999)

There is evidence for hormonal receptor desensitisation in human myometrium, but little is known about the mechanisms involved in the loss of myometrial response to agonists such as beta(2)-adrenergic agonists, prostaglandin gamma and oxytocin. It is well known that the receptors for these hormones are coupled to G-proteins. The first step of receptor desensitisation is the phosphorylation of activated receptors by a G-protein-coupled receptor kinase (GRK). GRKs are members of a multigene family and the various subtypes differ in their localisation, regulation and mode of action. We have used Western blotting and reverse transcription PCR to identify the GRKs present in human myometrium from pregnant and non-pregnant women as well as in cultured human myometrial cells. We have found that human myometrium expresses the GRK subtypes 2, 4gamma, 5 and 6. On the other hand, GRK3 and the isoforms GRK4alpha, beta and delta were not found in myometrial tissue. Our data indicate that GRK2 is only expressed in pregnant term myometrium and is not found in non-pregnant tissue. Moreover, GRK6 appears to be expressed at a much higher level in pregnant term tissue than in non-pregnant myometrium. Our observations suggest that GRK2 and GRK6 may contribute to the regulation of uterine contractility at term. Further work is necessary to determine whether GRKs and receptor desensitisation play a role in disorders of uterine contractility.
Influence of pressure on the lengths of chemical bonds (2003)

An expression to describe the force that a chemical bond exerts on its terminal atoms is proposed, and is used to derive expressions for the bond force constant and bond compressibility. The unknown parameter in this model, the effective charge on the atoms that form the bond, is determined by comparing the derived force constants with those obtained spectroscopically. The resultant bond compressibilities are shown to generally agree well with those determined from high-pressure structure determinations and from the bulk moduli of high-symmetry structures. Bond valences can be corrected for pressure by recognizing that the bond-valence parameter, R(0), changes with pressure according to the equation dR(0)/dP = 10(-4) R(04)/(1/B-2/R(0) AA GPa (-1).
Inhibitor of uracil-DNA glycosylase induced by bacteriophage PBS2. Purification and preliminary characterization. (1980)

A PBS2 phage-coded inhibitor of uracil-DNA glycosylase activity from Bacillus subtilis has been purified extensively and characterized preliminary. The inhibitor has a relative S value of 1.44 +/- 0.08 measured by sedimentation in 15 to 40% glycerol density gradients. It is unusually stable to heating and to the presence of sodium dodecyl sulfate and/or 8 M urea. The inhibitor has no known cofactor requirement and is active in the presence of 10 mM EDTA. Inhibitor activity is sensitive to digestion with proteinase K, but is insensitive to DNase or RNase digestion. The purified inhibitor behaves anomalously during electrophoresis in poly-acrylamide gels containing sodium dodecyl sulfate; however, experiments designed to show that the inhibitor is a glycoprotein were negative. The inhibitor clearly contains a protein required for activity, however, the possibility that some other molecular component is part of the active inhibitor cannot be excluded.
A Proof of Concept: Provenance in a Service Oriented Architecture (2005)

Provenance has been identified as an emerging and important concept within the Grid community for a variety of purposes, such as verifying or tracing results. We seek to provide a concrete conception of provenance and its possible utilisation through the process of designing and implementing a system prototype with some specific provenance requirements. This prototype, which is based on an idealised recipe for baking a cake, is developed within the context of a service oriented Grid computing environment and implemented using standard Web Services technologies. The issues surrounding the design of possible provenance system are also explored.
Role of galaptin in ovarian carcinoma adhesion to extracellular matrix in vitro (1990)

Immunohistochemical studies indicated that galaptin is a major protein of ovarian carcinoma cells present in patient effusions and it is distributed throughout the cytoplasm. Enzyme-linked immunoadsorbent assay (ELISA) and immunoprecipitation experiments demonstrated that galaptin is also a major protein of the A121 ovarian carcinoma cell line, constituting less than or equal to 1% of extractable protein bound by DEAE Sephacel. Western blot analyses revealed that the galaptin present in ovarian carcinoma consists of a 14.5 KD subunit. Ovarian carcinoma and mesothelial cells isolated from patient effusions display surface receptors for galaptin with an apparently greater density of receptors present on the carcinoma cells. A121 cells also display surface receptors for galaptin: binding sites/cell = 3 X 10(8) and Ka = 1.2 X 10(9) M-1. The presence of galaptin in bovine corneal endothelial cells (BCEC) and BCEC-derived extracellular matrix (ECM) was demonstrated by ELISA. Of the total ECM-bound galaptin, about 75% appears to be insoluble in phosphate-buffered saline (PBS) lactose. ECM was also found to contain abudnant receptors for galaptin. Treatment of ECM with lactose increased the apparent galaptin receptor density:binding sites/cm2 = 7 X 10(13) and Ka = 2.6 X 10(9) M-1. Pretreatment of A121 cells with galaptin inhibited adhesion to ECM. The addition of exogenous galaptin to ECM had variable effect on cell adhesion. The data presented here suggest that early adhesion events may be carbohydrate-specific involving interaction between ECM-bound galaptin and cell surface galaptin receptors.
Attenuated Lung Fibrosis in Interleukin 6 Knock-out Mice after C-ion Irradiation to Lung (2011)

There is a great deal of evidence that a cyclic cascade of inflammatory cytokines, together with the activation of macrophages, is initiated very early after irradiation to develop lung fibrosis in a late phase. To understand the persistent effects of cytokines, the cytokine gene of knock out or transgenic mouse is one of the useful tools. In this study, we evaluated a role of a key molecule, interleukin-6 (IL-6), in the late-phase inflammatory response and subsequent fibrotic changes after irradiation using wild-type (WT) and IL-6 knock out (IL-6 KO) mice. The mice underwent thoracic irradiation with 10 Gy of C-ion beam or sham-irradiation and were examined by histology. Immunoreactivity for IL-6 was induced at the site of bronchiolar epithelium, in pneumocytes and in monocytes by C-ion irradiation. At 24 weeks after irradiation, the infiltration of macrophages, detected by positive immunohistological staining with Mac3 antibody, was observed in alveolar spaces both in WT and IL-6 KO mice. The thickening of bronchiolar and alveolar walls exhibited in WT mice, but not KO mice, and fibrotic changes detected by Masson-Trichrome staining, were observed only in the lungs of WT mice, while it was attenuated in IL-6 KO mice. These results indicated that IL-6 might not be essential for activating macrophages in the late phase, but plays an important role for fibrotic changes of the alveolar wall after irradiation.
Conformational Aspects of Polypeptide Structure. XXII. Aromatic Side-Chain Effects from Poly-L-p-aminophenylalanine and Derivatives<sup>*</sup> (1967)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTConformational Aspects of Polypeptide Structure. XXII. Aromatic Side-Chain Effects from Poly-L-p-aminophenylalanine and Derivatives*Murray Goodman and Evaristo PeggionCite this: Biochemistry 1967, 6, 5, 1533–1540Publication Date (Print):May 1, 1967Publication History Published online1 May 2002Published inissue 1 May 1967https://pubs.acs.org/doi/10.1021/bi00857a040https://doi.org/10.1021/bi00857a040research-articleACS PublicationsRequest reuse permissionsArticle Views71Altmetric-Citations18LEARN 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
Perfectly One-Way Probabilistic Hash Functions (1998)

Probabilistic hash functions that hide all partial information on their input were recently introduced. This new cryptographic primitive can be regarded as a function that offers &quot;perfect one-wayness&quot;, in the following sense: Having access to the function value on some input is equivalent to having access only to an oracle that answers &quot;yes&quot; if the correct input is queried, and answers &quot;no&quot; otherwise. Constructions of this primitive (originally called oracle hashing and here re-named perfectly one-way functions) were given based on certain strong variants of the Diffie-Hellman assumption. In this work we present several constructions of perfectly one-way functions
Motion templates for automatic classification and retrieval of motion capture data (2006)

This paper presents new methods for automatic classification and retrieval of motion capture data facilitating the identification of logically related motions scattered in some database. As the main ingredient, we introduce the concept of motion templates (MTs), by which the essence of an entire class of logically related motions can be captured in an explicit and semantically interpretable matrix representation. The key property of MTs is that the variable aspects of a motion class can be automatically masked out in the comparison with unknown motion data. This facilitates robust and efficient motion retrieval even in the presence of large spatio-temporal variations. Furthermore, we describe how to learn an MT for a specific motion class from a given set of training motions. In our extensive experiments, which are based on several hours of motion data, MTs proved to be a powerful concept for motion annotation and retrieval, yielding accurate results even for highly variable motion classes such as cartwheels, lying down, or throwing motions.
Reduced cadherin/catenin complex expression in celiac disease can be reproduced in vitro by cytokine stimulation. (1999)

Celiac disease is characterized by a chronic immune response to dietary gluten, in which T cell responses result in elevated mucosal levels of tumor necrosis factor (TNF)-alpha, interleukin (IL)-1, interferon (IFN)-gamma, and transforming growth factor (TGF)-beta, which induce profound mucosal remodeling associated with increased enterocyte proliferation, apoptosis, and migration. Reduced intestinal expression of the morphoregulatory cell adhesion molecule E-cadherin, which forms complexes with beta-catenin, can increase enterocyte proliferation and migration. However, its mechanism of action in gastrointestinal inflammatory conditions and any involvement in celiac disease is unknown. In this study, we describe changes in E-cadherin and beta-catenin expression in celiac disease tissue and determine the effect of cytokines on their expression in an in vitro model. We assessed E-cadherin and beta-catenin expression in intestinal biopsies from 24 patients with celiac disease, 12 patients with treated celiac disease, and 10 healthy patients by immunohistochemistry, Western blotting, and confocal microscopy. Using Caco-2 cells, we examined the effect of TNF-alpha, IL-1, IFN-gamma, and TGF-beta on E-cadherin expression. E-cadherin transcription was assessed in both intestinal biopsies and Caco-2 cells by in situ hybridization and RT-PCR, respectively. A marked reduction in protein expression of E-cadherin and beta-catenin that returns to normal levels after treatment was observed in celiac disease; this reduction was associated with reduced levels of E-cadherin mRNA. E-cadherin expression in Caco-2 cells was significantly reduced after TNF-alpha, IL-1, and IFN-gamma stimulation. The effect of TNF-alpha on E-cadherin expression was maximal after stimulation for 48 hours and also induced modest reductions in beta-catenin expression. The action of TNF-alpha on E-cadherin was reversible and was shown to act at the transcriptional level. These results demonstrate the novel findings that E-cadherin and beta-catenin expression are reversibly down-regulated in celiac disease and that such changes in epithelial cadherin/catenin complexes may be mediated by cytokines acting on cadherin transcription.
Bis(2,4,7-trimethylindenyl)cobalt(II) and<i>rac</i>-2,2′,4,4′,7,7′-hexamethyl-1,1′-biindene (2001)

The crystal and molecular structures of bis(eta(5)-2,4,7-trimethylindenyl)cobalt(II), [Co(C(12)H(13))(2)], (I), and rac-2,2',4,4',7,7'-hexamethyl-1,1'-biindene, C(24)H(26), (II), are reported. In the crystal structure of (I), the Co atom lies on an inversion centre and the structure represents the first example of a bis(indenyl)cobalt complex exhibiting an eclipsed indenyl conformation. The (1R,1'R) and (1S,1'S) enantiomers of the three possible stereoisomers of (II), which form as by-products in the synthesis of (I), cocrystallize in the monoclinic space group P2(1)/c. In the unit cell of (II), alternating (1R,1'R) and (1S,1'S) enantiomers pack in non-bonded rows along the a axis, with the planes of the indenyl groups parallel to each other and separated by 3.62 and 3.69 A.
Syntheses and Properties of Water-Soluble Nile Red Derivatives (2006)

Nile Red (compound A) fluoresces at about 530 nm with good quantum yields in apolar solvents. In more polar ones its fluorescence emission shows a dramatic, and potentially useful, shift to about 640 nm, but its quantum yield is significantly reduced. Further, Nile Red has a very poor solubility in aqueous media. The hypothesis tested in this paper is that Nile Red derivatives that incorporate water-solubilizing groups will tend to fluoresce with good quantum yields in aqueous media, and in the more useful wavelength range around 640 nm. Thus three Nile Red derivatives, 1-3, were prepared. Compound 1 had three hydroxyl groups more than Nile Red, but was surprisingly insoluble in aqueous media. However, the dicarboxylic acid 2 and carboxylic/sulfonic acid derivative 3 showed excellent water solubilities. Spectral data for 2 and 3 showed that they do indeed fluoresce with good quantum yields in the 640 nm region in aqueous media. These properties of compounds 2 and 3 might be useful in the development of fluorescent probes for biotechnology.
The Resolution Revolution (2014)

Advances in detector technology and image processing are yielding high-resolution electron cryo-microscopy structures of biomolecules. [Also see Report by Amunts et al. ]