gebhart/patrepeval huggingface dataset:
An architectural model for application integration in open hypermedia environments (1997)

This paper provides an architectural framework for modeling third-party application integrations with open hypermedia systems, which collects and extends the integration experience of the open hypermedia community. The framework is used to characterize applications prior to integration, and describe the qualities of a complete integration. Elements of the architectural model are artists, which are used to manipulate anchors, links, and native application objects; communicators, which manage information flow to and from the open hypermedia system; and containers which group the other elements. Prior integration experience is collected in a standard way using the model, Guidance in selecting the final integration architecture is provided by this prior integration experience, in conjunction with the degree of difficulty of an integration, which is related to the integration architecture.
Identification of kex2-related proteases in chromaffin granules by partial amino acid sequence analysis (1991)

We have characterized glycoprotein H (GpH) from bovine adrenal medullary chromaffin granules. Two-dimensional gel electrophoresis was used to purify GpH from an insoluble fraction obtained following extraction of chromaffin granule membranes with lithium diiodosalicylate. The GpH material was recovered from two-dimensional gel spots by concentration and recovery on a one-dimensional gel followed by electro-blotting to a poly(vinylidene difluoride) membrane. This material was subjected to in situ tryptic digestion. The released peptides were purified by microbore high performance liquid chromatography and sequenced. The peptide sequences revealed extensive similarity to the mammalian kex2/subtilisin-related proteases (PC2 and PC3) which have been characterized recently by molecular cloning and sequence analysis (Smeekens, S. P., and Steiner, D. F. (1990) J. Biol. Chem. 265, 2997-3000; Smeekens, S. P., Avruch, A. S., LaMendola, J., Chan, S. J., and Steiner, D. F. (1991) Proc. Natl. Acad. Sci. U.S.A. 88, 340-344). The sequence similarity included regions that contain residues equivalent to the aspartic acid and histidine residues which are involved in the active site of the subtilisin family of serine proteases. The sequence data revealed the presence of tryptic peptides derived from both PC2 and PC3. NH2-terminal sequence analysis of GpH gave two sequences which were aligned with residues 110-121 of PC2 and PC3. It is likely that these sequences represent the mature form of PC2 and PC3 in chromaffin granules. These forms would be generated by cleavage at a site which is conserved in mammalian kex2-related enzymes and which would result in the release of approximately 80-residue propeptides. It was concluded that the spot identified as GpH by two-dimensional gel electrophoresis contains the bovine counterparts of both PC2 and PC3. The direct identification of these components in chromaffin granules supports their role in the processing of protein precursors.
Polymerized ragweed antigen e. ii. in vivo elimination studies and reactivity with IgE antibody systems. (1973)

Further studies of two polymerized preparations of ragweed antigen containing large amounts of ragweed antigen E were done. The results demonstrated that the rate of absorption of the polymerized materials from skin sites was diminished. The disappearance of the monomer and polymers from the vascular compartment was also different with the monomer appearing most rapidly in the urine, the high molecular weight polymer in the liver and spleen and the lower molecular weight polymer being retained the longest in the circulation. The polymerized ragweed preparations elicited histamine release from human peripheral blood leukocytes but required significantly higher concentrations for the same degree of release. An even larger comparative dose of the polymerized preparations was necessary to elicit cutaneous reactivity. The polymerized ragweed preparations reacted with the neutralized IgE antibody against ragweed antigen E in vitro requiring somewhat different weight ratios of the polymerized forms. The results demonstrate characteristics of these preparations which suggest potential usefulness in immunotherapy of ragweed pollenosis.
Erythrocyte-Bound Tissue Plasminogen Activator is Neuroprotective in Experimental Traumatic Brain Injury (2009)

The purpose of this study was to test the effects of exogenous tissue plasminogen activator (tPA) in traumatic brain injury (TBI).We tested two different tPA formulations, free tPA and tPA bound to erythrocytes (RBC/tPA).Vehicle and each of the tPA treatments were injected intravenously into anesthetized rats 15 min after moderate lateral fluid percussion injury. The animals were sacrificed at 2 days for calculating microclot burden (n=13) and IgG staining area (n=13) in the brain sections as indicators of post-traumatic thrombosis and blood-brain barrier (BBB) breakdown, respectively. Another set of injured animals treated in the same way were sacrificed at 7 days to compare cortical lesion volumes (n=28) and CA3 hippocampal cell loss (n=24). All evaluations were done blinded with respect to treatment. No significant differences were found with respect to microclot burden or IgG staining volume. Injection of wild-type tPA caused significantly ( p<0.05) larger cortical injuries and greater cerebral hemorrhage. In contrast, there was significantly less cortical injury ( p<0.01) and hippocampal cell loss ( p<0.01) in the RBC=tPA group than in all other groups. These results reveal that RBC/tPA is more neuroprotective in experimental TBI than is unbound tPA.
Arteriogenic Therapy by Intramyocardial Sustained Delivery of a Novel Growth Factor Combination Prevents Chronic Heart Failure (2011)

Our data showing the selective advantage of using fibroblast growth factor-2 together with hepatocyte growth factor suggest that this growth factor combination may constitute an efficient novel treatment for chronic heart failure.
Masked Chimeric Antigen Receptor for Tumor-Specific Activation (2017)

Adoptive cellular therapy based on chimeric antigen receptor (CAR)-engineered T (CAR-T) cells is a powerful form of cancer immunotherapy. CAR-T cells can be redirected to specifically recognize tumor-associated antigens (TAAs) and induce high levels of antitumor activity. However, they may also display "on-target off-tumor" toxicities, resulting from low-level expression of TAAs in healthy tissues. These adverse effects have raised considerable safety concerns and limited the clinical application of this otherwise promising therapeutic modality. To minimize such side effects, we have designed an epidermal growth factor receptor (EGFR)-specific masked CAR (mCAR), which consists of a masking peptide that blocks the antigen-binding site and a protease-sensitive linker. Proteases commonly active in the tumor microenvironment can cleave the linker and disengage the masking peptide, thereby enabling CAR-T cells to recognize target antigens only at the tumor site. In vitro mCAR showed dramatically reduced antigen binding and antigen-specific activation in the absence of proteases, but normal levels of binding and activity upon treatment with certain proteases. Masked CAR-T cells also showed antitumor efficacy in vivo comparable to that of unmasked CAR. Our study demonstrates the feasibility of improving the safety profile of conventional CARs and may also inspire future design of CAR molecules targeting broadly expressed TAAs.
Rationale and Design of a Pilot Randomized Controlled Trial to Assess the Role of Intravenous Ferric Carboxymaltose in Asian Patients With Heart Failure (Practice-Asia-HF) (2015)

Preliminary efficacy data on i.v. FCM therapy in Asian HF are expected from this pilot study to support larger-scale multicentre therapeutic i.v. FCM trials within Asia.
Modeling of thin film solar cells: Uniform field approximation (1983)

A model of a p-i-n thin-film solar cell is presented that can be easily used to analyze solar cell properties. The continuity equations are solved using the regional approximation, producing elementary solutions that give insight into the physics of the transport in the cell. The steady-state solutions are compared with measurements on typical hydrogenated amorphous silicon, a-Si:H, solar cells. The ac solutions are used to explain a new source of photocapacitance due to mobile carriers.
Modulation of cell proliferation and gene expression by a p53-estrogen receptor hybrid protein. (1993)

We report that p53her, a chimeric protein consisting of the complete human wild-type p53 and the human estrogen receptor hormone-binding domain, strongly suppresses proliferation and induces characteristic morphological changes in Saos-2 human osteosarcoma cells when induced by 17 beta-estradiol. In contrast, p53her constitutively transactivates a p53-responsive promoter in transfection assays, so that transactivation is not regulated by estradiol. However, coexpression of p53her and oncoprotein MDM-2, which associates with and presumably inactivates p53, results in suppression of p53her-mediated transactivation in the absence, but not the presence, of estradiol. Similarly, p53her induces expression of an endogenous MDM-2 transcript only in the presence of estradiol. These results suggest a correlation between the growth suppressor function of p53her and release of a transactivation block mediated by MDM-2.
Triton Surfactant as an Additive to KOH Silicon Etchant (2013)

Anisotropic etching of Si (100) and (110) planes in alkaline solutions containing the nonionic surfactant is studied in this paper. Triton X-100 surfactant, normally used for the modification of TMAH (tetramethylammonium hydroxide) etchant, is added to KOH (potassium hydroxide) solution. As a result, the (100) and (110) etch rates are significantly reduced and the etch rate ratio is obtained. The influence of KOH concentration (at 10 and 100 ppm (v/v) of the surfactant) on the etching process is also investigated. Low roughness of (110) surface is achieved in the 2M KOH solution containing Triton. The smooth {110} sidewall planes inclined at 45° toward the (100) substrate are fabricated by etching in the KOH + Triton solution. The 45° {110} sidewalls are potentially attractive as MEMS micromirrors for optical beam reflection at an angle of 90°. The low etch rate of (100) plane is kind of a disadvantage of the fabrication method, but it can be fairly overcome by elevating the process temperature and stirring the etching solution.
Tethered oligonucleotide probes. A strategy for the recognition of structured RNA (1991)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTTethered oligonucleotide probes. A strategy for the recognition of structured RNAPaul L. Richardson and Alanna SchepartzCite this: J. Am. Chem. Soc. 1991, 113, 13, 5109–5111Publication Date (Print):June 1, 1991Publication History Published online1 May 2002Published inissue 1 June 1991https://pubs.acs.org/doi/10.1021/ja00013a083https://doi.org/10.1021/ja00013a083research-articleACS PublicationsRequest reuse permissionsArticle Views138Altmetric-Citations23LEARN 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-AlertscloseSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts
Creating and Detecting Shaped Rydberg Wave Packets (1997)

Inherently quantum mechanical, transient nanostructures with dynamics on a picosecond time scale can be produced by controlling the quantum dynamics of Rydberg electrons. Ultrashort, tailored light pulses are used to build structures in position and/or momentum space from the wave function of an electron. The optimal laser pulses required to make these structures can be computed and synthesized in the laboratory. As an example, we present a structure consisting of five peaks which acts as a time-dependent grating and can be detected via ultrafast extreme ultraviolet diffraction.
Immunologic correlates of protection induced by vaccination (2001)

Vaccine design and licensing depend on the choice of protective antigens and the demonstration of their efficacy. Ideally efficacy correlates with some measurement of immune response, although occasionally the correlation is weak and in the case of some vaccines uncertain. This paper attempts to review what is known about correlates of vaccine-induced protection. Although mucosal and cellular immune responses are clearly important to protection by some vaccines, most vaccines licensed today depend for their efficacy on serum antibodies. Particular levels of antibodies can be identified that confer protection most of the time. A condition for the efficacy of antibodies is functionality, i.e. their ability to kill or inactivate pathogens. The immune system is redundant, and the different types of responses to vaccines act synergistically.
A novel method for identifying downstream signals in tumor-reactive T cells following PD-1 engagement and monitoring endogenous tumor immunity and immunotherapy. (2014)

3049 Background: Therapies targeting programmed cell death 1 (PD-1) or its ligand B7-H1 (aka PD-L1) have yielded promising therapeutic effects in various solid and hematologic malignancies. A reliable method to determine whether PD-1 on T cells has engaged its ligand B7-H1 on tumor cells is highly desirable as it may have significance as a predictive marker for PD-1 targeted therapy. Methods: Endogenous tumor-reactive CD8+ T cells were identified by their high expression of PD-1 and CD11a CD8+ T cells and their expression of Bim, a pro-apoptotic molecule, in the peripheral blood of 26 patients with metastatic melanoma and 11 patients with metastatic prostate cancer or healthy donors using flow cytometry. Soluble PD-L1 in patients’ sera was quantified using ELISA. Results: The target-cell engaged CD8+ T cell population was significantly higher in patients with melanoma and prostate cancer compared to healthy donors, as assessed by CD11a and PD-1 expression. Bim expression was higher in CD8+ T cells in both cancer patients than healthy controls (p<0.01). In patients with advanced melanoma, Bim was significantly higher in the PD-1(+) target cell-engaged CD8+ T cells than the PD-1(-) CD-8+ T cells (P<0.01). Bim levels above the base line levels of healthy donors in the CD8+ T cells correlated with decreased survival in patients with melanoma (8.9 months v. 13.8 months, p<0.05). Our data suggest that the Bim level is dependent on PD-1 expression, and that higher Bim expression may be indicative of PD-1(+) CD8+ T cells which have engaged B7-H1 (PD-L1), either soluble (peripheral blood) or membrane bound (tumor cells), and are susceptible to apoptotic death. Conclusions: PD-1+ CD11a high CD8+ T cells identify a unique population of effector cells responsive to target tumor cells in cancer patients. Elevated Bim expression in CD8+ T cells may indicate the active immune inhibiting effects of PD-1/B7-H1 signaling on endogenous antitumor T cell responses. Bim expression can serve as a signaling biomarker for PD-1 function and may be useful in selecting patients who may benefit from checkpoint blockade therapy.
Use of antibodies for detection of phosphorylated proteins separated by two-dimensional gel electrophoresis (2001)

Protein phosphorylation and dephosphorylation are key regulatory mechanisms in prokaryotic and eukaryotic cells. Considering the role of phosphorylation in many human diseases, it appears a major challenge to refine on the methods to analyze the phospho-proteome. Here we review the use of monoclonal antibodies directed against specific phosphorylated amino acid residues to visualize phosphoproteins separated by two-dimensional gel electrophoresis. Strategies are described how this method can successfully be applied to create phospho-proteome maps of mammalian cells.
Design and Synthesis of Lipophilic Phosphoramidate d4T-MP Prodrugs Expressing High Potency Against HIV in Cell Culture:  Structural Determinants for in Vitro Activity and QSAR (1999)

A series of new substituted-aryl phosphoramidate derivatives of the anti-HIV drug d4T were synthesized as membrane-soluble nucleotide prodrugs, to extend and quantify the SAR observed for an earlier series of related derivatives. All of the compounds were found to be significantly more potent against HIV in cell culture than the nucleoside analogue d4T, and most were also found to be significantly more potent than the parent phosphoramidate. A Hansch type QSAR analysis was applied to the combined series of 21 compounds. The results of this analysis revealed anti-HIV activity to be principally dependent on lipophilicity in a quadratic manner, with terms representing substituent steric bulk and electronic effects having a minimal significance.
The role of immunotherapy in pediatric allergic disease (1995)

Knowledge of the mechanisms of immunotherapy has increased substantially in recent years. The development of better extracts for both injection immunotherapy and local immunotherapy continues, and techniques for the production of recombinant allergens and peptides will be important for future vaccines. Immunotherapy with conventional commercially available extracts is best documented in childhood pollen allergy and is useful in children with severe hay fever symptoms or seasonal asthma. Immunotherapy for perennial allergy has so far been most beneficial in dust mite- and cat-allergic children with asthma. Dust mite therapy is most efficacious in children with isolated dust mite allergy. Appropriate environmental measures should, however, precede immunotherapy when possible. Recent data indicate that immunotherapy has no additional benefit in children with multiple allergies and asthma who receive optimal pharmacotherapy. It is therefore preferable that immunotherapy be combined with anti-inflammatory drug therapy in most children with asthma. For safety reasons, it is important that immunotherapy be administered by physicians well acquainted with standardized extracts in a clinic or hospital where treatment for systemic reactions is available. Long-term treatment for 3 to 5 years results in a more sustained effect than short-term therapy.
Anti-galectin-1 autoantibodies in humanTrypanosoma cruziinfection: differential expression of thisβ-galactoside-binding protein in cardiac Chagas' disease (2001)

The pathogenesis of Chagas' disease has been subject of active research and still remains to be ascertained. Galectin-1 (Gal-1), a member of a conserved family of animal beta-galactoside-binding proteins, localized in human heart tissue, has been suggested to play key roles in immunological and inflammatory processes. In the present study we demonstrated the occurrence of anti-Gal-1 autoAb in sera from patients in the acute and chronic stages of Chagas' disease (ACD and CCD) by means of ELISA and Western blot analysis. We found a marked increase in the level and frequency of Ig E anti-Gal-1 antibodies in sera from patients with ACD, but a low frequency of Ig M anti-Gal-1 immunoreactivity. Moreover, Ig G immunoreactivity to this beta-galactoside-binding protein was found to be correlated with the severity of cardiac damage in CCD, but was absent in nonrelated cardiomyopathies. We could not detect immunoreactivity with Trypanosoma cruzi antigens using a polyclonal antibody raised to human Gal-1 and no hemagglutinating activity could be specifically eluted from a lactosyl-agarose matrix from parasite lysates. Moreover, despite sequence homology between Gal-1 and shed acute phase antigen (SAPA) of T. cruzi, anti-Gal-1 antibodies eluted from human sera failed to cross-react with SAPA. In an attempt to explore whether Gal-1 immunoreactivity was originated from endogenous human Gal-1, we finally investigated its expression levels in cardiac tissue (the main target of Chagas' disease). This protein was found to be markedly upregulated in cardiac tissue from patients with severe CCD, compared to cardiac tissue from normal individuals.
Tissue-Specific Transcriptional Targeting of a Replication-Competent Retroviral Vector (2002)

The inability of replication-defective viral vectors to efficiently transduce tumor cells in vivo has prevented the successful application of such vectors in gene therapy of cancer. To address the need for more efficient gene delivery systems, we have developed replication-competent retroviral (RCR) vectors based on murine leukemia virus (MLV). We have previously shown that such vectors are capable of transducing solid tumors in vivo with very high efficiency. While the natural requirement of MLV infection for cell division imparts a certain degree of specificity for tumor cells, additional means for confining RCR vector replication to tumor cells are desirable. Here, we investigated the parameters critical for successful tissue-specific transcriptional control of RCR vector replication by replacing various lengths of the MLV enhancer/promoter with sequences derived either from the highly prostate-specific probasin (PB) promoter or from a more potent synthetic variant of the PB promoter. We assessed the transcriptional specificity of the resulting hybrid long terminal repeats (LTRs) and the cell type specificity and efficiency of replication of vectors containing these LTRs. Incorporation of PB promoter sequences effectively restricted transcription from the LTR to prostate-derived cells and imparted prostate-specific RCR vector replication but required the stronger synthetic promoter and retention of native MLV sequences in the vicinity of the TATA box for optimal replicative efficiency and specificity. Our results have thus identified promoter strength and positioning within the LTR as important determinants for achieving both high transduction efficiency and strict cell type specificity in transcriptionally targeted RCR vectors.
Identification of type I interferon‐associated inflammation in the pathogenesis of cutaneous lupus erythematosus opens up options for novel therapeutic approaches (2007)

Cutaneous lupus erythematosus (CLE) is one of the most common dermatological autoimmune disorders worldwide. Recently, several studies provided evidence for a pathogenic role of type I interferons (IFNs) in this disease. Plasmacytoid dendritic cells are major type I IFN producers in CLE skin lesions. Type I IFNs are able to induce the expression of several proinflammatory chemokines, including CXCL9 and 10, and enhance the cytotoxic capacity of infiltrating cells. Additionally, adhesion molecules and chemokine receptors, such as intercellular adhesion molecule-1, cutaneous lymphocyte antigen, E-selectin, CCR4 and CXCR3, are involved in the recruitment of potentially autoreactive lymphocytes into the skin. Here, we review the role of type I IFNs, adhesion molecules and chemokine receptors in CLE and discuss options for novel therapeutic approaches.