gebhart/patrepeval huggingface dataset:
Caries detection and prevention with laser energy. (2000)

Laser light can be used in the visible region (blue or red) as a tool for the detection of carious lesions. Techniques developed to date for early caries detection by laser light rely on fluorescence naturally from the tooth material or from bacterial by-products. Fluorescence techniques have been introduced clinically in Europe and show great promise for improved management of dental caries. Laboratory studies have shown that specific laser irradiation that is absorbed strongly by the carbonated hydroxyapatite mineral of the teeth can heat a thin layer at the surface briefly, altering its composition and making it strongly resistant to subsequent acid attack in the caries process. This resistance leads to major inhibition of subsequent subsurface caries progression and shows great promise for the treatment of susceptible sites on the tooth. This technology, if used in conjunction with ablation of carious lesions by specific laser irradiation, could prevent secondary progression around restorations.
Reactivation of Mutant p53 and Induction of Apoptosis in Human Tumor Cells by Maleimide Analogs (2005)

Reactivation of mutant p53 is likely to provide important benefits for treatment of chemotherapy- and radiotherapy-resistant tumors. We demonstrate here that the maleimide-derived molecule MIRA-1 can reactivate DNA binding and preserve the active conformation of mutant p53 protein in vitro and restore transcriptional transactivation to mutant p53 in living cells. MIRA-1 induced mutant p53-dependent cell death in different human tumor cells carrying tetracycline-regulated mutant p53. The structural analog MIRA-3 showed antitumor activity in vivo against human mutant p53-carrying tumor xenografts in SCID mice. The MIRA scaffold is a novel lead for the development of anticancer drugs specifically targeting mutant p53.
The multifunctional Staufen proteins: conserved roles from neurogenesis to synaptic plasticity (2014)

Staufen (Stau) proteins belong to a family of RNA-binding proteins (RBPs) that are important for RNA localisation in many organisms. In this review we discuss recent findings on the conserved role played by Stau during both the early differentiation of neurons and in the synaptic plasticity of mature neurons. Recent molecular data suggest mechanisms for how Stau2 regulates mRNA localisation, mRNA stability, translation, and ribonucleoprotein (RNP) assembly. We offer a perspective on how this multifunctional RBP has been adopted to regulate mRNA localisation under several different cellular and developmental conditions.
Immobilized anti-CD3 monoclonal antibodies induce accessory cell-independent lymphokine production, proliferation and helper activity in human T lymphocytes. (1989)

Monoclonal antibodies (mAb) directed against the human CD3 molecular complex are able, when immobilized on the plastic of microtitre wells, to induce accessory cell-independent T-cell proliferation. In this study, we show that the anti-CD3 mAb CLB-T3/3 induces strong T-cell stimulation that is proportional to the density of the immobilized antibody. T cells, optimally stimulated with plastic-immobilized CLB-T3/3, showed a five-fold higher proliferation compared to cells that were stimulated with soluble anti-CD3 in the presence of accessory cells. The difference in magnitude of proliferation was found to be correlated with the expression of the CD25 (TAC) antigen and the production of interleukin (IL)-2, but not with the number of high-avidity IL-2 receptors expressed on the surface of these differentially activated cells. In addition, immobilized CLB-T3/3 initiated the production of interferon-gamma (IFN-gamma), but not of IL-4, in purified T lymphocytes. Coated anti-CD3 mAb induced helper activity in T cells for IgM and IgG production by B lymphocytes. Whereas addition of IL-1 or IL-2 had only a moderate effect on T-cell proliferation induced by immobilized anti-CD3 mAb, helper activity was strongly enhanced in the presence of these factors. This T-cell activation system may prove useful for a standardized analysis of both activation requirements and immunoregulatory capacities of human T cells.
CardioClasp: A New Passive Device to Reshape Cardiac Enlargement (2002)

In dilated heart failure, geometric distortions place an extra load on the myocardial cells. If this extra burden can be eliminated, the myocardial wall stress would decrease leading to improved systolic ventricular performance. In a dilated heart failure model, we wanted to see whether the CardioClasp (which uses two indenting bars to reshape the left ventricle [LV] as two widely communicating "lobes" of reduced radius) could improve systolic performance by passively reshaping the LV and reducing the wall stress. In mongrel dogs (n = 7; 25-27 kg), rapid ventricular pacing (210 ppm 1st week to 240 ppm 4th week) induced dilated heart failure. After 4 weeks, LV performance was evaluated at baseline and with the CardioClasp by measuring LV end-diastolic and peak LV systolic pressure, LV +dP/dt, LV -dP/ dt, and cardiac output. With the Clasp on, LV wall stress was reduced to 58.6+/-3.5 from 108.3+/-8.2 g/cm2. The fractional area of contraction (FAC) with the Clasp on (28.4+/-4.4) was significantly increased (p < 0.05) from baseline (20.8+/-4.6) and consistent with improved systolic performance. Cardiac output, LV peak systolic and end-diastolic pressures, and regional myocardial blood flow were unaltered. The Clasp was able to acutely reshape the left ventricle, while preserving the contractile mass, and reduced the tension on the myocardial cells and increased the fractional area of contraction without decreasing the systolic blood pressure.
Characterization of the technique involved in isolating Schwann cells from adult human peripheral nerve (1996)

Only recently has it been possible to isolate large quantities of adult derived Schwann cells (SCs) from peripheral nerves in cell culture. These techniques can be easily applied to the isolation of human SCs. We evaluated the influence of donor age and length of explant culture time on the purity of the human SC preparations obtained from a large number (n = 35) of live organ donors ranging in age from 1 to 63 years. The average SC purity from all donors was 92.7 +/- 2.73% and did not appear to be influenced by donor age or duration of culture time in excess of 1 week. Myelin debris was a prominent feature of human SCs prepared in culture and could be detected within histological sections of cultured peripheral nerve segments as well as within human SCs obtained from enzymatic dissociation of the peripheral nerves. This report supports the reproducibility of the techniques involved in isolating human SCs from peripheral nerve from a large series of donors and addresses the mechanism in which a period of cell culture permits the isolation of large quantities of adult human SCs.
Interaction context (ICON) (2015)

We introduce a contextual descriptor which aims to provide a geometric description of the functionality of a 3D object in the context of a given scene. Differently from previous works, we do not regard functionality as an abstract label or represent it implicitly through an agent. Our descriptor, called interaction context or ICON for short, explicitly represents the geometry of object-to-object interactions. Our approach to object functionality analysis is based on the key premise that functionality should mainly be derived from interactions between objects and not objects in isolation. Specifically, ICON collects geometric and structural features to encode interactions between a central object in a 3D scene and its surrounding objects. These interactions are then grouped based on feature similarity, leading to a hierarchical structure. By focusing on interactions and their organization, ICON is insensitive to the numbers of objects that appear in a scene, the specific disposition of objects around the central object, or the objects' fine-grained geometry. With a series of experiments, we demonstrate the potential of ICON in functionality-oriented shape processing, including shape retrieval (either directly or by complementing existing shape descriptors), segmentation, and synthesis.
Mammalian Golgi apparatus UDP- N- acetylglucosamine transporter: Molecular cloning by phenotypic correction of a yeast mutant (1998)

Transporters in the Golgi apparatus membrane translocate nucleotide sugars from the cytosol into the Golgi lumen before these can be substrates for the glycosylation of proteins, lipids, and proteoglycans. We have cloned the mammalian Golgi membrane transporter for uridine diphosphate-N-acetylglucosamine by phenotypic correction with cDNA from MDCK cells of a recently characterized Kluyveromyces lactis mutant deficient in Golgi transport of the above nucleotide sugar. Phenotypically corrected transformants were separated from mutants in a fluorescent-activated cell sorter after labeling of K. lactis cells with fluorescein isothiocyanate (FITC) conjugated to Griffonia simplicifolia II lectin, which binds terminal N-acetylglucosamine. A 2-kb DNA fragment was found to restore the wild-type cell lectin binding phenotype, which reverted to the mutant one upon loss of the plasmid. The DNA fragment contained an ORF encoding a hydrophobic, multitransmembrane spanning protein of 326 aa that had only 22% amino acid sequence identity with the corresponding transporter from K. lactis but showed 53% amino acid sequence identity to the mammalian UDP-galactose transporters and 40% to the CMP-sialic acid transporter. Golgi vesicles from the transformant regained their ability to transport UDP-GlcNAc in an assay in vitro. The above results demonstrate that the mammalian Golgi UDP-GlcNAc transporter gene has all of the necessary information for the protein to be expressed and targeted functionally to the Golgi apparatus of yeast and that two proteins with very different amino acid sequences may transport the same solute within the same Golgi membrane.
Expression of Fas and Fas ligand in the testes and testicular germ cell tumors: an immunohistochemical study. (1998)

The Fas-Fas ligand system plays a crucial role in the production of a signal for apoptosis in the immune system. In the present study, expression of Fas and Fas ligand in the testes and testicular germ cell tumors was examined immunohistochemically. Expression of both Fas and Fas ligand was found on Leydig cells, Sertoli cells, and germ cells in the testis, and on epithelial cells in the epidydimal duct. Expression of both Fas and Fas ligand was also found in all 23 seminomas, 8 embryonal carcinomas, and 3 yolk sac tumors which were examined in this study. Western blot analysis after sodium dodecyl sulfate (SDS) polyacrylamide gel electrophoresis under a reducing condition with tissues of the thymus, the testis, and a seminoma showed a single major band bound to the antibody for Fas or Fas ligand at the position of molecular weight slightly more than 47.5 kilodalton. Since both Fas and Fas ligand are expressed on normal testicular cells, and on cells of testicular germ cell tumors, the Fas-Fas ligand system in these cells seems to play a role other than producing a signal for apoptosis.
Networked virtual environments: design and implementation (1999)

1. The Promises and Challenges of Networked Virtual Environments. What Is a Networked Virtual Environment? Graphics Engines and Displays. Control and Communication Devices. Processing Systems. Data Network. Challenges in Net-VE Design and Development. Network Bandwidth. Heterogeneity. Distributed Interaction. Real-Time System Design and Resource Management. Failure Management. Scalability. Deployment and Configuration. Conclusion. References. 2. The Origin of Networked Virtual Environments. Department of Defense Networked Virtual Environments. SIMNET. Distributed Interactive Simulation. Networked Games and Demos. SGI Flight and Dogfight. Doom. Other Games. Academic Networked Virtual Environments. NPSNET. PARADISE. DIVE. Brick Net. MR Toolkit Peer Package. Others. Conclusion. References. 3. A Networking Primer. Fundamentals of Data Transfer. Network Latency. Network Bandwidth. Network Reliability. Network Protocol. The BSD Sockets Architecture. Sockets and Ports. The Internet Protocol. Introducing the Internet Protocols for Net-Ves. Transmission Control Protocol. User Datagram Protocol. IP Broadcasting Using UDP. IP Multicasting. Selecting a Net-VE Protocol. Using TCP/IP. Using UDP/IP. Using IP Broadcasting. Using IP Multicasting. Conclusion. References. 4. Communication Architectures. Two Players on a LAN. Multiplayer Client-Server Systems. Multiplayer Client-Server, with Multiple-Server Architectures. Peer-to-Peer Architectures. Conclusion. References. 5. Managing Dynamic Shared State. The Consistency-Throughput Tradeoff. Maintaining Shared State Inside Centralized Repositories. Reducing Coupling through Frequent State Regeneration. Dead Reckoning of Shared State. Conclusion. References. 6. Systems Design. One Thread, Multiple Threads. Important Subsystems. Conclusion. References and Further Reading. 7. Resource Management for Scalability and Performance. An Information-Centric View of Resources. Optimizing the Communications Protocol. Controlling the Visibility of Data. Taking Advantage of Perceptual Limitations. Enhancing the System Architecture. Conclusion. References. 8. Internet Networked Virtual Environments. VRML-Based Virtual Environments. Virtual Reality Transfer Protocol. Internet Gaming. Conclusion. References. 9. Perspective and Predictions. Better Library Support. Toward a Better Internet. Research Frontiers. Past, Present, and Future. References. Appendix: Network Communication in C, C++, and Java. Using TCP/IP from C and C++. Managing Concurrent Connections in C and C++. Using TCP/IP from Java. Managing Concurrent Connections in Java. Using UDP/IP from C and C++. Using UDP/IP from Java. Broadcasting from C and C++. Broadcasting from Java. Multicasting from C and C++. Multicasting from Java. References. Index. 0201325578T04062001
Immunotherapy and immunoescape in colorectal cancer (2007)

Immunotherapy encompasses a variety of interventions and techniques with the common goal of eliciting tumor cell destructive immune responses. Colorectal carcinoma often presents as metastatic disease that impedes curative surgery. Novel strategies such as active immunization with dendritic cells (DCs), gene transfer of cytokines into tumor cells or administration of immunostimulatory monoclonal antibodies (such as anti-CD137 or anti-CTLA-4) have been assessed in preclinical studies and are at an early clinical development stage. Importantly, there is accumulating evidence that chemotherapy and immunotherapy can be combined in the treatment of some cases with colorectal cancer, with synergistic potentiation as a result of antigens cross-presented by dendritic cells and/or elimination of competitor or suppressive T lymphocyte populations (regulatory T-cells). However, genetic and epigenetic unstable carcinoma cells frequently evolve mechanisms of immunoevasion that are the result of either loss of antigen presentation, or an active expression of immunosuppressive substances. Some of these actively immunosuppressive mechanisms are inducible by cytokines that signify the arrival of an effector immune response. For example, induction of 2, 3 indoleamine dioxygenase (IDO) by IFNgamma in colorectal carcinoma cells. Combinational and balanced strategies fostering antigen presentation, T-cell costimulation and interference with immune regulatory mechanisms will probably take the stage in translational research in the treatment of colorectal carcinoma.
Bone tissue ultrastructural response to elastic deformation probed by Raman spectroscopy (2003)

Raman spectroscopy is used as a probe of ultrastructural (molecular) changes in both the mineral and matrix (protein and glycoprotein, predominantly type I collagen) components in real time of murine cortical bone as it responds to elastic deformation. Because bone is ia composite material, its mechanical properties are dependent on the structure and composition at a variety of dimensional scales. At the ultrastructural level, crystal structure and protein secondary structure distort as the tissue is loaded. These structural changes are followed as perturbations to tissue spectra. We load murine femora in a custom-made mechanical tester that fits on the stage of a Raman microprobe and can accept hydrated tissue specimens. As the specimen is loaded in tension, the shifts in mineral P-O4 v1 are followed with the microprobe. Average load and strain are measured using a load cell. These devices ensure that specimens are not loaded to or beyond the yield point. Changes occur in the mineral component of bone as a response to loading in the elastic regime. We propose that the mineral apatitic crystal lattice is deformed by movement of calcium and other ions. Raman microspectroscopy shows that bone mineral is not a passive contributor to tissue strength. The mineral active response to loading may function as a local energy storage and dissipation mechanism, thus helping to protect tissue from catastrophic damage.
Regulation of production of the antifungal metabolite 2,4-diacetylphloroglucinol in Pseudomonas fluorescens F113: genetic analysis of phlF as a transcriptional repressor The GenBank accession number for the sequence reported in this paper is AF129856. (2000)

The antifungal metabolite 2,4-diacetylphloroglucinol plays a major role in the biocontrol capabilities of Pseudomonas fluorescens. The phloroglucinol biosynthetic locus of P. fluorescens F113 has been isolated previously. From nucleotide sequence data, a putative regulator gene (phlF) was identified upstream and divergently transcribed from the phlACBD phloroglucinol biosynthetic genes. PhlF shows similarity to various transcriptional repressors in the EMBL database and exhibits a helix-turn-helix motif in its amino acid sequence. phlF was cloned into an expression vector and the PhlF protein product was purified. Gel retardation experiments demonstrated PhlF to be a DNA-binding protein and showed that it binds to the phlA-phlF intergenic region. Introduction of phlF into P. fluorescens F113 in multiple copies resulted in repression of phloroglucinol production in this strain. This effect was mediated at the transcription level since the expression of a phloroglucinol biosynthetic gene fusion in this background was equally repressed. Furthermore, the inactivation of phlF results in derepression of phloroglucinol production in this strain.
Three Novel Terpenoids from Schisandra pubescens var. pubinervis (2006)

Abstract Three new terpenoids, pubinernoids A–C ( 1 – 3 ), together with six known sesquiterpenoids, were isolated from the leaves and stems of Schisandra pubescens var. pubinervis. The structures of the new compounds were established on the basis of extensive spectroscopic analyses, including application of 2D‐NMR spectroscopic techniques. A plausible formation of the sesquiterpenoid 2 is proposed ( Scheme 2 ), starting from guaianediol ( 4 ) as the biogenetic precursor, which was also present in the extract.
FDA Approval Summary: Pembrolizumab for the Treatment of Patients With Metastatic Non-Small Cell Lung Cancer Whose Tumors Express Programmed Death-Ligand 1 (2016)

This report presents key information on the U.S. Food and Drug Administration (FDA) accelerated approval of pembrolizumab for the treatment of patients with metastatic non-small cell lung cancer whose tumors express programmed death-ligand 1, as determined by an FDA-approved test, and who have disease progression on or after platinum-containing chemotherapy or targeted therapy against anaplastic lymphoma kinase or epidermal growth factor receptor, if appropriate. The report discusses the data supporting the approval decision, specifically highlighting the incorporation of a companion diagnostic in the key study and the optimal dose of pembrolizumab.
Induction of Microsomal Antigen and Comparison with Histologic Localization of HLA—Dr in Graves' Thyroid Tissue (1989)

We have characterized thyroid microsomal antigen (M-Ag) prepared from Graves' and normal thyroid tissues using 100,000 x g thyroid membrane fractions in enzyme-linked immunosorbent assays with pooled polyclonal human sera containing high titers of antibody to M-Ag. A ten-fold parallel increase in dose inhibition potencies occurred with M-Ag preparations from Graves' as compared to normal thyroid tissue. The M-Ag preparations were further evaluated by SDS-polyacrylamide gel electrophoresis and proteins visualized by Western blot using high titer microsomal antibody (M-Ab) sera (n = 2) devoid of thyroglobulin antibody activity. We found discrete 100 kD relative molecular mass bands in Graves' M-Ag preparations (n = 3) under nonreducing conditions which were only poorly resolved in normal thyroid M-Ag (n = 3) using up to 100 micrograms of protein per lane. The cellular localization of M-Ag was then investigated using the avidin-biotin-peroxidase technique on frozen sections of Graves' and normal human thyroid tissue with a murine monoclonal antibody reactive with human M-Ag and thyroid peroxidase. M-Ag reactivity was similar in both Graves' and normal thyroid tissues and localized to the entire follicular cell membrane with more intense staining occurring on the inner follicular cell membrane. This was in contrast to follicular cell staining for HLA-DR antigen which was present in 6 of 10 Graves' tissues examined and absent in normal thyroid tissue. Staining for HLA-DR antigen also occurred on the follicular cell surface membrane with occasional enhancement at the thyrocyte apical cell membrane. We conclude: a) M-Ag is induced approximately 10-fold in Graves' thyroid tissue and can be objectively quantified in ELISA systems, 2) There were no detectable qualitative differences between M-Ag from Graves' and normal thyroid tissue, and 3) HLA-DR antigen was detected on 60% Graves' tissues in a cell surface distribution similar to that observed for M-Ag in both Graves' and normal tissues.
Genetic transposition and insertional mutagenesis in Bacillus subtilis with Streptococcus faecalis transposon Tn917. (1983)

The Streptococcus faecalis transposon Tn917 was introduced into Bacillus subtilis by transformation of competent cells with the plasmid pAM alpha 1::Tn917 and was tested for transposition activity by selection for insertions into the temperate phage SP beta. Insertions were obtained at a frequency indicating relatively efficient movement of the element, and Southern hybridization analysis of a particular insertion confirmed it to be the result of a genuine transposition event. A restriction fragment from pAM alpha 1::Tn917 containing the transposon sequences was ligated into a temperature-sensitive plasmid (pBD95), and transpositions into the B. subtilis chromosome were selected by requiring the transposon drug resistance to be maintained at temperatures nonpermissive for plasmid replication. Insertions have been recovered at many chromosomal sites, including ones that produced auxotrophy of different kinds and ones that produced various different sporulation-defective phenotypes, indicating good prospects for the use of Tn917 as a tool for insertional mutagenesis in B. subtilis.
Discriminative Reranking of Discourse Parses Using Tree Kernels (2014)

In this paper, we present a discriminative approach for reranking discourse trees generated by an existing probabilistic discourse parser. The reranker relies on tree kernels (TKs) to capture the global dependencies between discourse units in a tree. In particular, we design new computational structures of discourse trees, which combined with standard TKs, originate novel discourse TKs. The empirical evaluation shows that our reranker can improve the state-of-the-art sentence-level parsing accuracy from 79.77% to 82.15%, a relative error reduction of 11.8%, which in turn pushes the state-of-the-art documentlevel accuracy from 55.8% to 57.3%.