gebhart/patrepeval huggingface dataset:
Immunotherapy for Gastrointestinal Malignancies (2013)

To date, monoclonal antibody therapy is the only immunotherapy approved by the US Food and Drug Administration for GI cancers. Initial trials validating new immunotherapeutic approaches, including vaccination-based and adoptive cell therapy strategies, for GI malignancies have demonstrated safety and the induction of antitumor immune responses. Therefore, immunotherapy is at the forefront of neoadjuvant as well as adjuvant therapies for the treatment and eradication of GI malignancies.
Long-term survival of pig-to-rhesus macaque renal xenografts is dependent on CD4 T cell depletion (2019)

The shortage of available organs remains the greatest barrier to expanding access to transplant. Despite advances in genetic editing and immunosuppression, survival in experimental models of kidney xenotransplant has generally been limited to <100 days. We found that pretransplant selection of recipients with low titers of anti-pig antibodies significantly improved survival in a pig-to-rhesus macaque kidney transplant model (6 days vs median survival time 235 days). Immunosuppression included transient pan-T cell depletion and an anti-CD154-based maintenance regimen. Selective depletion of CD4<sup>+</sup> T cells but not CD8<sup>+</sup> T cells resulted in long-term survival (median survival time >400 days vs 6 days). These studies suggested that CD4<sup>+</sup> T cells may have a more prominent role in xenograft rejection compared with CD8<sup>+</sup> T cells. Although animals that received selective depletion of CD8<sup>+</sup> T cells showed signs of early cellular rejection (marked CD4<sup>+</sup> infiltrates), animals receiving selective CD4<sup>+</sup> depletion exhibited normal biopsy results until late, when signs of chronic antibody rejection were present. In vitro study results suggested that rhesus CD4<sup>+</sup> T cells required the presence of SLA class II to mount an effective proliferative response. The combination of low pretransplant anti-pig antibody and CD4 depletion resulted in consistent, long-term xenograft survival.
A Parallel-Hierarchical Model for Machine Comprehension on Sparse Data (2016)

Understanding unstructured text is a major goal within natural language processing. Comprehension tests pose questions based on short text passages to evaluate such understanding. In this work, we investigate machine comprehension on the challenging MCTest benchmark. Partly because of its limited size, prior work on MCTest has focused mainly on engineering better features. We tackle the dataset with a neural approach, harnessing simple neural networks arranged in a parallel hierarchy. The parallel hierarchy enables our model to compare the passage, question, and answer from a variety of trainable perspectives, as opposed to using a manually designed, rigid feature set. Perspectives range from the word level to sentence fragments to sequences of sentences; the networks operate only on word-embedding representations of text. When trained with a methodology designed to help cope with limited training data, our Parallel-Hierarchical model sets a new state of the art for MCTest, outperforming previous feature-engineered approaches slightly and previous neural approaches by a significant margin (over 15 percentage points).
p27KIP1 is abnormally expressed in Diffuse Large B-Cell Lymphomas and is associated with an adverse clinical outcome (1999)

Cell cycle progression is regulated by the combined action of cyclins, cyclin-dependent kinases (CDKs), and CDK-inhibitors (CDKi), which are negative cell cycle regulators. p27KIP1 is a CDKi key in cell cycle regulation, whose degradation is required for G1/S transition. In spite of the absence of p27KIP1 expression in proliferating lymphocytes, some aggressive B-cell lymphomas have been reported to show an anomalous p27KIP1 staining. We analysed p27KIP1 expression in a series of Diffuse Large B-cell Lymphoma (DLBCL), correlating it with the proliferative index and clinical outcome, to characterize the implications of this anomalous staining in lymphomagenesis in greater depth. For the above mentioned purposes, an immunohistochemical technique in paraffin-embedded tissues was employed, using commercially available antibodies, in a series of 133 patients with known clinical outcomes. Statistical analysis was performed in order to ascertain which clinical and molecular variables may influence outcome, in terms of disease-free survival (DFS) and overall survival (OS). The relationships between p27KIP1 and MIB-1 (Ki-67) were also tested. An abnormally high expression of p27KIP1 was found in lymphomas of this type. The overall correlation between p27KIP1 and MIB-1 showed there to be no significant relationship between these two parameters, this differing from observations in reactive lymphoid and other tissues. Analysis of the clinical relevance of these findings showed that a high level of p27KIP1 expression in this type of tumour is an adverse prognostic marker, in both univariate and multivariate analysis. These results show that there is abnormal p27KIP1 expression in DLBCL, with adverse clinical significance, suggesting that this anomalous p27KIP1 protein may be rendered non-functional through interaction with other cell cycle regulator proteins.
Catalytic Coupling of Aryl Sulfonates with sp2-Hybridized Nitrogen Nucleophiles: Palladium- and Nickel-catalyzed Synthesis of N-Aryl Sulfoximines (2000)

Several sulfoximines have been arylated in good to high yield by palladium catalysis using aryl nonaflates and aryl triflates. Moreover, the successful synthesis of N-aryl sulfoximines from aryl tosylates is described using a Ni(COD)2/BINAP catalyst.
Coding Variation in ANGPTL4, LPL, and SVEP1 and the Risk of Coronary Disease (2016)

We found that carriers of loss-of-function mutations in ANGPTL4 had triglyceride levels that were lower than those among noncarriers; these mutations were also associated with protection from coronary artery disease. (Funded by the National Institutes of Health and others.).
A framework for geometric warps and deformations (2002)

We present a framework for geometric warps and deformations. The framework provides a conceptual and mathematical foundation for analyzing known warps and for developing new warps, and serves as a common base for many warps and deformations. Our framework is composed of two components: a generic modular algorithm for warps and deformations; and a concise, geometrically meaningful formula that describes how warps are evaluated. Together, these two elements comprise a complete framework useful for analyzing, evaluating, designing, and implementing deformation algorithms. While the framework is independent of user-interfaces and geometric model representations and is formally capable of describing any warping algorithm, its design is geared toward the most prevalent class of user-controlled deformations: those computed using geometric operations. To demonstrate the expressive power of the framework, we cast several well-known warps in terms of the framework. To illustrate the framework's usefulness for analyzing and modifying existing warps, we present variations of these warps that provide additional functionality or improved behavior. To show the utility of the framework for developing new warps, we design a novel 3-D warping algorithm: a mesh warp ---useful as a modeling and animation tool---that allows users to deform a detailed surface by manipulating a low-resolution mesh of similar shape. Finally, to demonstrate the mathematical utility of the framework, we use the framework to develop guarantees of several mathematical properties such as commutativity and continuity for large classes of deformations.
<title>Synthesis of substituted thiophene-benzobisthiazole oligomers for molecular weight: third-order NLO property correlations</title> (1992)

In an effort to better understand the relationship between molecular weight and third-order nonlinear optical activity for condensation polymers, a series of oligomeric thiophene containing benzobisthiazoles were synthesized via a trimethylsilylpolyphosphate catalysed condensation of a bis-o-aminothiophenol monomer and a didecyloxythiophene dicarboxylic acid. The physical and chemical characterization of these oligomers, including molecular weight determinations, are summarized. The enhancement of the bulk susceptibility and second molecular hyperpolarizability are demonstrated to increase with increasing oligomer length. Based on the data from femtosecond degenerate four-wave mixing experiments the second hyperpolarizability of the oligomers is enhanced by two-photon resonance.
Autocrine Tumor Necrosis Factor Alpha Links Endoplasmic Reticulum Stress to the Membrane Death Receptor Pathway through IRE1α-Mediated NF-κB Activation and Down-Regulation of TRAF2 Expression (2006)

NF-kappaB is critical for determining cellular sensitivity to apoptotic stimuli by regulating both mitochondrial and death receptor apoptotic pathways. The endoplasmic reticulum (ER) emerges as a new apoptotic signaling initiator. However, the mechanism by which ER stress activates NF-kappaB and its role in regulation of ER stress-induced cell death are largely unclear. Here, we report that, in response to ER stress, IKK forms a complex with IRE1alpha through the adapter protein TRAF2. ER stress-induced NF-kappaB activation is impaired in IRE1alpha knockdown cells and IRE1alpha(-/-) MEFs. We found, however, that inhibiting NF-kappaB significantly decreased ER stress-induced cell death in a caspase-8-dependent manner. Gene expression analysis revealed that ER stress-induced expression of tumor necrosis factor alpha (TNF-alpha) was IRE1alpha and NF-kappaB dependent. Blocking TNF receptor 1 signaling significantly inhibited ER stress-induced cell death. Further studies suggest that ER stress induces down-regulation of TRAF2 expression, which impairs TNF-alpha-induced activation of NF-kappaB and c-Jun N-terminal kinase and turns TNF-alpha from a weak to a powerful apoptosis inducer. Thus, ER stress induces two signals, namely TNF-alpha induction and TRAF2 down-regulation. They work in concert to amplify ER-initiated apoptotic signaling through the membrane death receptor.
Increased Protein Stability of FGF1 Can Compensate for Its Reduced Affinity for Heparin (2009)

Human FGF1 (fibroblast growth factor 1) is a powerful signaling molecule with a short half-life in vivo and a denaturation temperature close to physiological. Binding to heparin increases the stability of FGF1 and is believed to be important in the formation of FGF1.fibroblast growth factor receptor (FGFR) active complex. In order to reveal the function of heparin in FGF1.FGFR complex formation and signaling, we constructed several FGF1 variants with reduced affinity for heparin and with diverse stability. We determined their biophysical properties and biological activities as well as their ability to translocate across cellular membranes. Our study showed that increased thermodynamic stability of FGF1 nicely compensates for decreased binding of heparin in FGFR activation, induction of DNA synthesis, and cell proliferation. By stepwise introduction of stabilizing mutations into the K118E (K132E) FGF1 variant that shows reduced affinity for heparin and is inactive in stimulation of DNA synthesis, we were able to restore the full mitogenic activity of this mutant. Our results indicate that the main role of heparin in FGF-induced signaling is to protect this naturally unstable protein against heat and/or proteolytic degradation and that heparin is not essential for a direct FGF1-FGFR interaction and receptor activation.
Phase controllability improvement for alternating phase shift mask (1998)

An alternating phase shift masks can improve resolution and lithographic latitude. However, Alt-PSMs have not yet become practical because of difficulty in their tight phase and defect control. In this paper, we focused on how to control both phase uniformity and phase mean value of etched quartz shifters. We found that a material of a dry-etching tale (cover plate of work electrode) was strongly affected for phase uniformity. By choosing an adequate material, phase uniformity of 1.9% could be achieved. Micro-loading effect and loading effect degrade phase controllability. Loading effect was not observed in our etching conditions. But micro-loading effect was observed. Back exposure process was useful to prevent micro-loading effect. To improve mean value controllability, 2 step etching process was adopted. By using this method, mean value cold be controlled within plus or minus 2 degrees.
Chemical and Biosynthetic Approaches to the Production of Novel Polypeptide Materials (1990)

Three approaches to the synthesis of the repetitive copolypeptide [(GlyAla)3-GlyProGlu]n (1) are described. Direct chemical synthesis of 1 via classical solution methods required 18 steps and afforded a polydisperse product with an average molecular weight of less than 10,000. Two alternative genetic strategies were also explored. In the first, chemically synthesized DNA oligomers were self-ligated to produce a population of multimers, which were fitted with translational start and stop signals and inserted into an expression plasmid containing the lambda PL promoter and a synthetic ribosome binding site. Transformation of E. coli led to the isolation of a stable recombinant plasmid carrying an insert encoding 12 repeats of sequence 1. Attempts to identify polypeptide 1 after induction of transformed cultures were unsuccessful. A second strategy, generating a tripartite derivative of sequence 1 carrying short N- and C-terminal extensions, afforded excellent yields of product. The relative merits of chemical and genetic approaches to repetitive polypeptide materials are discussed.
Methylbenzenes Are the Organic Reaction Centers for Methanol-to-Olefin Catalysis on HSAPO-34 (2000)

ADVERTISEMENT RETURN TO ISSUEPREVCommunicationNEXTMethylbenzenes Are the Organic Reaction Centers for Methanol-to-Olefin Catalysis on HSAPO-34Weiguo Song, James F. Haw, John B. Nicholas, and Catherine S. HeneghanView Author Information Loker Hydrocarbon Research Institute and Department of Chemistry University of Southern California, University Park Los Angeles, California 90089-1661 Environmental Molecular Sciences Laboratory Pacific Northwest National Laboratory P.O. Box 999, Richland, Washington 99352 Cite this: J. Am. Chem. Soc. 2000, 122, 43, 10726–10727Publication Date (Web):October 13, 2000Publication History Received20 June 2000Published online13 October 2000Published inissue 1 November 2000https://pubs.acs.org/doi/10.1021/ja002195ghttps://doi.org/10.1021/ja002195grapid-communicationACS PublicationsCopyright © 2000 American Chemical SocietyRequest reuse permissionsArticle Views2615Altmetric-Citations340LEARN 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 SUBJECTS:Alcohols,Alkyls,Carbon,Catalysts,Hydrocarbons Get e-Alerts
S067 Successive Aberrations in Protein Expression From Healthy Mucosa to Invasive Head and Neck Cancer (2006)

Our website uses cookies to enhance your experience. By continuing to use our site, or clicking "Continue," you are agreeing to our Cookie Policy | Continue JAMA Otolaryngology–Head & Neck Surgery HomeNew OnlineCurrent IssueFor Authors Podcast Publications JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry (1919-1959) JN Learning / CMESubscribeJobsInstitutions / LibrariansReprints & Permissions Terms of Use | Privacy Policy | Accessibility Statement 2023 American Medical Association. All Rights Reserved Search All JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Forum Archive JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry Input Search Term Sign In Individual Sign In Sign inCreate an Account Access through your institution Sign In Purchase Options: Buy this article Rent this article Subscribe to the JAMA Otolaryngology–Head & Neck Surgery journal
Histone-mediated transfer and expression of the HIV-1 tat gene in Jurkat cells. (1999)

We studied the gene transfer efficiency of lipofection reagents in comparison to DEAE-Dextran. DOTAP, Dosper, and Lipofectin have lower transfection efficiency; Lipofectamine has a 2.5-fold better efficiency compared with DEAE-Dextran. We report a novel and highly efficient DNA transfer system based on the DNA-binding proteins histone 3 and histone 4. We have transferred the HIV-1 tat gene and measured the transactivation of HIV-1 LTR by the transactivator protein, expressed in Jurkat cells. The HIV-1 LTR was linked to the CAT gene as a reporter. Compared to DEAE-Dextran-mediated transfection, histone-mediated transfection resulted in a sevenfold higher expression of the CAT gene. The maximum transfection efficiency mediated by histones is dependent on the relative concentration (DNA:histone ratio) and the incubation time. In a gel-retardation assay, an optimal complex formation was observed under the same conditions that allowed the highest transfection efficiency. This ability of histones to increase the delivery and transgenic expression of foreign DNA in eukaryotic cells is not simply due to the positive ionic character of the histone proteins. Polylysine, histone H1, and histone H2A were unable to mediate gene transfection in our system. Monoclonal antibodies that recognize antigenic determinant present on all five histone proteins (anti-histone, pan) were able to neutralize the transfection-enhancing potential of histone 3 and histone 4. However, anti-histone IgG enhanced the retardation of mobility of histone-DNA complexes. The results of this study allow us to conclude that histones H3 and H4 can catalyze gene transfer and gene expression in eukaryotic cells without any requirement for additional constituents. For this reason, we have termed the new gene-delivery system as histonefection.
Effects of Resorbable Fixation on Craniofacial Skeletal Growth (1992)

The effects of fixation composed of resorbable polymers on craniofacial development was investigated in an animal model. Fourteen rabbits had amalgam markers placed bilaterally at the lambdoid, coronal, and frontonasal sutures at 28 days of age. Seven animals (group I) were not plated and served as controls. The other 7 animals (group II) were fixed across the left coronal suture with a 4-hole, compressive resorbable plate. After 6 months, intermarker distances (growth) were measured radiographically, and the amount of fixation degradation was determined by extracted plate weights. Resorbable plating across the coronal suture resulted in local marker constriction adjacent to fixation. Compensatory lengthening of the distal aspect of the frontal bone occurred, however resulting in unaltered total cranionasal lengths compared with that of control animals. Plate degradation occurred with a mean decrease of 7% from their original weights. Molecular weight analysis of the plate differences, however, was not done. This initial study indicates that a large plate size and slow resorption properties of polymer fixation can have a similar restrictive effect on bone growth as that of metal fixation. Whether thinner plates or more rapidly resorbing polymers will permit normal growth in this animal model awaits further testing.
Development of New Cell Lines for Animal Cell Biotechnology (1990)

Mammalian cell culture has been an important technique in laboratory-scale experimentation for many decades. Developments in large-scale culture have been due to the need to grow large numbers of cells to support the growth of viruses for vaccine production, and more recently, for growing hybridoma cells as a source of monoclonal antibody. Increasingly, however, pharmaceutical products such as hormones, enzymes, growth factors, and clotting factors are being produced from cell lines which have been manipulated by recombinant DNA techniques. It is clear, therefore, that the high cost of growing mammalian cells on a large scale does not necessarily prohibit their use for biotechnology, and indeed there is considerable evidence to suggest that animal cell biotechnology will continue to be a major growth area in the future.
Erythropoietin in the central nervous system, and its use to prevent hypoxic-ischemic brain damage (2002)

A new field of clinical and scientific interest has recently developed based on the discovery that the hematopoietic cytokine erythropoietin (Epo) has important non-hematopoietic functions in the brain and other organs, particularly during development. The biological effects of Epo in the central nervous system (CNS) involve activation of its specific receptor and corresponding signal transduction pathways. Epo receptor expression is abundant in the developing mammalian brain, and decreases as term approaches. Epo has been identified as a neurotrophic and neuroprotective agent in a wide variety of experimental paradigms, from neuronal cell culture to in vivo models of brain injury. Several mechanisms by which Epo produces neuroprotection are recognized. Epo (i) decreases glutamate toxicity, (ii) induces the generation of neuronal anti-apoptotic factors, (iii) reduces inflammation, (iv) decreases nitric oxide-mediated injury, and (v) has direct antioxidant effects. Conclusion: Collectively, the evidence suggests that Epo may provide a new approach to the treatment of a variety of CNS disorders in adults and children, especially as a possible therapy for perinatal asphyxia. This review summarizes the current knowledge on the neurotrophic and neuroprotective functions of Epo in the developing and injured brain.
A Study of Simulated Vitreous Hemorrhages Using Labeled Blood (1968)

Rabbit eyes were injected with radioactive chromium (<sup>51</sup>Cr) tagged whole, or lysed blood, or<sup>51</sup>Cr in simple solution. Serial radiation counts showed that the rates of removal of these injected materials were significantly different, indicating that particle size is the most important factor in removal of material from the vitreous, and that hemolysis is a rate-determining step in the absorption of vitreous hemorrhages. Ophthalmoscopic studies showed that the vitreous of the eyes injected with lysed blood cleared more rapidly than those injected with whole blood, but residual opacity remained in both.