gebhart/patrepeval huggingface dataset:
Requirement of IFI16 for the Maximal Activation of p53 Induced by Ionizing Radiation (2004)

IFI16 is a member of the PYRIN superfamily that has been implicated in BRCA1-mediated apoptosis and inflammation signaling pathways. Here we report that most breast cancer cell lines examined expressed decreased mRNA and protein levels of IFI16, although IFI16 is expressed in human primary normal mammary epithelial cells. Significantly, immunohistochemical analysis of tissues from 25 breast cancer patients demonstrated that carcinoma cells showed negative or weaker staining of IFI16 compared with positive nuclear staining in normal mammary duct epithelium. si-RNA-mediated reduction of IFI16 resulted in perturbation of p53 activation when treated with ionizing radiation (IR). Expression of IFI16 enhanced p53 transcriptional activity in cells exposed to IR. Adenovirus expression of IFI16 in IFI16-deficient MCF7 induced apoptosis, which was enhanced by radiomimetic neocarcinostatin treatment. Tetracycline-regulated IFI16 also induced apoptosis when coexpressed with p53 in p53-deficient EJ cells subjected to IR, suggesting that IFI16 is involved in p53-mediated transmission of apoptosis signaling. Consistent with these results, expression of IFI16 enhanced activation of the known p53 target genes, including p21, Hdm2, and bax in MCF7 cells. These results suggest that loss of IFI16 results in deregulation of p53-mediated apoptosis, leading to cancer development.
Prolonged nausea and vomiting after high dose chemotherapy and autologous peripheral stem cell transplantation in the treatment of high risk breast carcinoma (1997)

PPNV is a frequent complication of high dose chemotherapy with the aforementioned regimen. It may be due to gastroparesis and represents a form of gastrointestinal toxicity to chemotherapy not previously reported.
The Azaindole Framework in the Design of Kinase Inhibitors (2014)

This review article illustrates the growing use of azaindole derivatives as kinase inhibitors and their contribution to drug discovery and innovation. The different protein kinases which have served as targets and the known molecules which have emerged from medicinal chemistry and Fragment-Based Drug Discovery (FBDD) programs are presented. The various synthetic routes used to access these compounds and the chemical pathways leading to their synthesis are also discussed. An analysis of their mode of binding based on X-ray crystallography data gives structural insights for the design of more potent and selective inhibitors.
Influence of Adsorbed Oxygen on the Emission Properties of Nanocrystalline ZnO Particles (2000)

This paper discusses the influence of electron scavengers (such as oxygen) on the emission properties of colloidal suspensions of nanocrystalline ZnO particles. Emission measurements are performed on deaerated suspensions of ZnO particles in alcohols (2-propanol and ethanol) and other organic solvents (DMF and propylene carbonate). Upon UV irradiation the visible emission quenches while the intensity of the exciton emission increases. Admission of oxygen into the colloidal suspension restores the initial emission properties. The role of oxygen in the quenching of the visible emission is accounted for by assuming that oxygen scavenges photogenerated electrons. In the absence of oxygen, excess photogenerated electrons are present resulting in a passivation of / centers, which are involved in the visible emission process in ZnO.
Escherichia coli carbamoyl-phosphate synthetase: domains of glutaminase and synthetase subunit interaction. (1989)

Three catalytic domains of the Escherichia coli carbamoyl-phosphate synthetase (EC 6.3.5.5) have been identified in previous studies. These include the glutamine amide-N transfer domain in the carboxyl-terminal half of the glutaminase component and at least two adenine nucleotide binding sites in the synthetase component. To delineate the domains involved in subunit interactions, we have examined the effects of deletions and point mutations in the glutaminase and synthetase subunits on formation of the alpha beta holoenzyme. Deletion of the amino-terminal third of the glutaminase subunit abolishes interactions with the synthetase subunit, suggesting that this domain functions to stabilize the complex. Two subunit binding domains have been identified in the synthetase subunit. They are homologous to one another and are located in the amino-terminal and central regions of the synthetase component. These domains are adjacent to regions of the synthetase previously proposed to be involved in ATP binding and, possibly, activation of CO2. The new data enlarge the definition of the structural and functional domains in the two interdependent components of carbamoyl-phosphate synthetase.
Aryl-β-C-LNA Monomers as Universal Hybridization Probes[1] [2] (2003)

High-affinity universal hybridization is demonstrated for oligonucleotides containing the pyrenyl-LNA monomer 6b, 2'-O-Me-RNA monomers and LNA monomers.
Immunologically mediated regression of a murine lymphoma after treatment with anti-L3T4 antibody. A consequence of removing L3T4+ suppressor T cells from a host generating predominantly Lyt-2+ T cell-mediated immunity. (1988)

This study shows that intravenous injection of 1 mg of anti-L3T4 mAb (GK1.5) into thymectomized mice bearing the syngeneic L5178Y lymphoma results, after a delay of 2-3 d, in complete regression of this tumor and in long-term host survival. A flow cytofluorometric examination of the spleen cells of mAb-treated mice revealed that antibody treatment resulted in the elimination of greater than 98% of L3T4+ T cells, but had no effect on the Lyt-2+ T cells subset. Tumor regression was immunologically mediated, because L5178Y lymphoma cells were shown to be L3T4-, and regression of the tumor failed to occur in mice that had been lethally irradiated before anti-L3T4 mAb was given. Tumor regression was mediated by tumor-sensitized Lyt2+ T cells, as evidenced by the finding that treatment of tumor-bearing mice with anti-Lyt-2 mAb alone, or in combination with anti-L3T4 mAb, resulted in enhancement of tumor growth and a significant decrease in host survival time. Moreover, the spleens of mice whose tumors were undergoing regression in response to anti-L3T4 mAb treatment contained Lyt-2+ T cells capable, on passive transfer, of causing regression of a tumor in recipient mice. These results can be interpreted as showing that removal of tumor-induced L3T4+ suppressor T cells results in the release of Lyt-2+ effector T cells from suppression, and consequently in the generation of enough Lyt-2+ T cell-mediated immunity to cause tumor regression. This can only be achieved, however, if immunity to the tumor is mediated exclusively by Lyt-2+ T cells, as is the case for the L5178Y lymphoma. In the case of the P815 mastocytoma, treatment with anti-L3T4 mAb was without a therapeutic effect, and this was in keeping with the finding that immunity to this tumor is mediated by L3T4+, as well by Lyt-2+ T cells.
Advancing swine models for human health and diseases. (2013)

Swine models are relatively new kids on the block for modeling human health and diseases when compared to rodents and dogs. Because of the similarity to humans in size, physiology, and genetics, the pig has made significant strides in advancing the understanding of the human condition, and is thus an excellent choice for an animal model. Recent technological advances to genetic engineering of the swine genome enhance the utility of swine as models of human genetic diseases.
Nanostructure Formation and Transition from Surface to Bulk Degradation in Polyethylene Glycol Gels Chain-Extended with Short Hydroxy Acid Segments (2013)

Degradable, in situ gelling, inert hydrogels with tunable properties are very attractive as a matrix for cell encapsulation and delivery to the site of regeneration. Cell delivery is generally limited by the toxicity of gelation and degradation reactions. The objective of this work was to investigate by simulation and experimental measurement gelation kinetics and degradation rate of star acrylated polyethylene glycol (PEG) macromonomers chain-extended with short hydroxy acid (HA) segments (SPEXA) as a function of HA monomer type and number of HA repeat units. HA monomers included least hydrophobic glycolide (G), lactide (L), p-dioxanone (D), and most hydrophobic ε-caprolactone (C). Chain extension of PEG with short HA segments resulted in micelle formation for all HA types. There was a significant decrease in gelation time of SPEXA precursor solutions with HA chain-extension for all HA types due to micelle formation, consistent with the simulated increase in acrylate-acrylate (Ac-Ac) and Ac-initiator integration numbers. The hydrolysis rate of SPEXA hydrogels was strongly dependent on HA type and number of HA repeat units. SPEXA gels chain-extended with the least hydrophobic glycolide completely degraded within days, lactide within weeks, and p-dioxanone and ε-caprolactone degraded within months. The wide range of degradation rates observed for SPEXA gels can be explained by large differences in equilibrium water content of the micelles for different HA monomer types. A biphasic relationship between HA segment length and gel degradation rate was observed for all HA monomers, which was related to the transition from surface (controlled by HA segment length) to bulk (controlled by micelle equilibrium water content) hydrolysis within the micelle phase. To our knowledge, this is the first report on transition from surface to bulk degradation at the nanoscale in hydrogels.
Mechanistic Aspects in the Generation of Apparent Ultrahigh Efficiencies for Colloidal (Microbial) Electrokinetic Separations (2002)

Under specific experimental conditions, the electrokinetic separation of certain microorganisms can produce peaks of very high apparent efficiencies (approximately 10(6)-10(10) theoretical plates/m). This is unusual in that no deliberate focusing mechanism was employed. To investigate this process further, the separation was monitored in real time using a charge-coupled device (CCD) imaging system. At least two different processes seem to be operative when these narrow peaks are observed. The initial field-induced association of cells appears to require a dilute polymer solution, electroosmotic flow (preferably countercurrent to the direction of cell electrophoresis), and a direct current electric field. Three possible models are presented that may explain aspects of the observed behavior. The balance between dispersive forces and intercellular adhesive forces also affects the observed bandwidths. Understanding and controlling the dynamic and aggregation of cells in microfluidic processes is essential, since it can be beneficial for some experiments and detrimental to others.
Effect of prostaglandin F-2α on ovarian enzyme activity in the hysterectomized guinea-pig (1979)

The enzymes studied were cholesterol esterase, cholesterol ester synthetase 3 beta-hydroxysteroid dehydrogenase and 20 alpha-hydroxysteroid dehydrogenase. PGF-2 alpha reduced the activities of 3 beta-hydroxysteroid dehydrogenase and cholesterol esterase but did not affect those of cholesterol ester synthetase of 20 alpha-hydroxysteroid dehydrogenase.
Rac1 is the small GTPase responsible for regulating the neutrophil chemotaxis compass (2004)

Although both of the small Rho guanosine triphosphatases (GTPases) Rac1 and Rac2 have been demonstrated to play a role in chemotaxis, the precise and possible unique roles performed by each of these 2 Rac isoforms in neutrophil chemotaxis have not been defined. To elucidate the specific roles of Rac1 and Rac2 in neutrophils during the process of chemotaxis, we generated mice deficient in Rac1, Rac2, or in both Rac1 and Rac2 in cells of myeloid lineage including neutrophils by mating Rac2 null mice with mice carrying a conditional allele for Rac1 and expressing the Cre recombinase downstream of a specific myeloid promoter, lysozyme M. We demonstrate here that although Rac1 null neutrophils display normal chemokinesis, they are unable to migrate toward the source of the chemoattractant. By contrast, Rac2 null neutrophils can orient toward the chemoattractant source but are unable to migrate efficiently. We show that Rac1 is essential for gradient detection and orientation toward the chemoattractant source through spatially constrained regulation of phosphoinositol-3,4,5-trisphosphate (PIP(3)) and Akt in the leading edge and confirm that Rac2 is the primary regulator of actin assembly providing the molecular motor for neutrophil translocation during chemotaxis.
The effect of interleukin-1 receptor antagonist therapy on markers of inflammation in non-ST elevation acute coronary syndromes: the MRC-ILA Heart Study (2014)

2006-001767-31-GB: www.clinicaltrialsregister.eu/ctr-search/trial/2006-001767-31/GB.
Characterization and Purification of Membrane-associated Phosphatidylinositol-4-phosphate Kinase from Human Red Blood Cells (1989)

The membrane-bound form of phosphatidylinositol-4-phosphate (PtdInsP) kinase was purified 4,300-fold from human red blood cells to a specific activity of 117 nmol min-1 mg-1. Although this enzyme copurified with red blood cell membranes, it was solubilized by high salt extraction in the absence of detergent indicating that it is a peripheral membrane protein. The major protein seen in the most purified preparation migrated at 53,000 daltons on sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE). The major PtdInsP kinase activity in this preparation was also coincident with this 53,000-dalton band upon renaturation of activity from SDS-PAGE. To test further whether the 53,000-dalton protein contained PtdInsP kinase activity, antibodies were prepared against the gel-purified 53,000-dalton protein. This antiserum was able to precipitate both the 53,000-dalton peptide and PtdInsP kinase activity from red blood cell membranes. The apparent size of the native enzyme in the most purified preparation was determined to be 150,000 +/- 25,000 daltons by gel filtration. This PtdInsP kinase activity was at least 100-fold more active in phosphorylating PtdInsP than phosphatidylinositol and was easily separated from the red cell membrane phosphatidylinositol kinase by salt extraction. Analysis of the reaction product, phosphatidylinositol 4,5-bisphosphate, indicates that the enzyme phosphorylates phosphatidylinositol 4-phosphate specifically at the 5'-hydroxyl of the inositol ring. The apparent Km for ATP was 2 microM, and the concentrations of Mg2+ and Mn2+ giving half-maximal activity were 2 and 0.2 mM, respectively. Mg2+ supported 3-fold higher activity than Mn2+ at optimal concentrations. The enzymatic activity was inhibited by its product, phosphatidylinositol 4,5-bisphosphate and enhanced by phosphatidylserine.
Very low threshold current density in vertical-cavity surface-emitting laser diodes with periodically doped distributed Bragg reflectors (1992)

A new periodically doped distributed Bragg reflector is examined. This new structure is expected to reduce the electrical resistivity without optical absorption increase. A very low threshold current density of 450 A/cm2 is obtained in vertical-cavity surface-emitting lasers with periodically doped distributed Bragg reflectors.
Molecularly imprinted polymer sensors for pesticide and insecticide detection in water (2001)

Antibodies, peptides, and enzymes are often used as molecular recognition elements in chemical and biological sensors. However, their lack of stability and signal transduction mechanisms limits their use as sensing devices. Recent advances in the field of molecularly imprinted polymers (MIPs) have created synthetic materials that can mimic the function of biological receptors but with less stability constraints. These polymers can provide high sensitivity and selectivity while maintaining excellent thermal and mechanical stability. To further enhance the advantages of the traditional imprinted polymer approach, an additional fluorescent component has been introduced into these polymers. Such a component provides enhanced chemical affinity as well as a method for signal transduction. In this type of imprinted polymer, binding of the target analyte invokes a specific spectral signature from the reporter molecule. Previous work has provided molecularly imprinted polymers that are selective for the hydrolysis products of organophosphorus species such as the nerve agents sarin and soman. (A. L. Jenkins, O. M. Uy and G. M. Murray, Anal. Chem., 1999, 71, 373). In this paper the direct imprinting of non-hydrolyzed organophosphates including pesticides and insecticides is described. Detection limits for these newly developed MIP sensors are less than 10 parts per trillion (ppt) with long linear dynamic ranges (ppt to ppm) and response times of less than 15 min.
Fiber Optic Probe Applications Using Near-Infrared Compounds: Determination of NaOH (1995)

Abstract The development of a near-infrared fiber optic probe (FOPP) for the determination of caustic soda will be reported. The utility of the FOPP is demonstrated using an NIR non-commercially available tetrasubstituted chloroaluminum naphthalocyanine NIR dye which is susceptible to pH changes in solutions. The naphthalocyanine derivatives have been synthesized in our laboratories. The spectral characteristics of these NIR dyes, are above 700 nm and the absorbance maximum is a perfect match for the use of semiconductor laser diodes as the excitation source. The response of the Q-band against solution pHs and caustic soda will be reported. The FOPP consists of a semiconductor laser diode (λmax=780 nm), an NIR dye and a detector. The probe made of poly(methyl methacrylate) serves as a support for a permeable polymer that is used for the entrapment of the NIR dye (about < 2mm in diameter). The permeable polymers used were Nafion and Gelatin. As hydrogen ions diffuse through the permeable polymer, a complex is formed with the dye, accompanied by changes in the spectral characteristics of the dye. Excitation of the complex is induced with a semiconductor laser diode at 780 nm. The probe shows good reproducibility of the data in NaOH measurements. Also the molar absorption coefficient of these dyes at different concentrations of polymer will be reported. The effect of Nafion on the spectral characteristics of the NIR dyes will be presented. The general procedure used for the attachment of the dye to the distal end of the probe can be used to construct compact non-invasive detectors. The use of photodiodes as detertors will be discussed. Use of smaller components shown here will allow for the manufacturing of portable instruments for applications in medicine and industry.
Structured Models for Fine-to-Coarse Sentiment Analysis (2007)

In this paper we investigate a structured model for jointly classifying the sentiment of text at varying levels of granularity. Inference in the model is based on standard sequence classification techniques using constrained Viterbi to ensure consistent solutions. The primary advantage of such a model is that it allows classification decisions from one level in the text to influence decisions at another. Experiments show that this method can significantly reduce classification error relative to models trained in isolation. 1
Efficient priming of CD8+ memory T cells specific for a subdominant epitope following Sendai virus infection (1997)

Abstract The relationship between the primary effector CTL response to viral infection and the subsequent pool of memory CTL precursors (CTLp) is poorly understood. Here, we have analyzed the induction of both effector CTL and memory CTLp to dominant and subdominant epitopes following Sendai virus infection of C57BL/6 mice. A single peptide derived from the Sendai virus nucleoprotein (NP(324-332)) binds to both H-2 Kb and Db MHC class I molecules, generating both immunodominant (NP(324-332)/Kb) and subdominant (NP(324-332)/Db) epitopes. Following intranasal Sendai virus infection, NP(324-332)/Kb-specific CTL dominated the primary effector CTL response in the lung and were present at high frequency in the memory CTLp pool. In contrast, NP(324-332)/Db-specific CTL were not a detectable component of the effector response to primary Sendai virus infection. However, memory CTLp specific for this subdominant epitope were induced at frequencies approaching those of CTLp specific for the immunodominant epitope. These data indicate that memory CTLp specific for subdominant epitopes can be primed by Sendai virus infection in the absence of a detectable effector response. To determine whether CTLp memory to subdominant epitopes is functional in the context of Sendai virus infection, memory CTLp specific for a subdominant epitope were selectively primed by vaccination. These cells dominated the subsequent effector CTL response to Sendai virus infection, demonstrating that memory CTLp primed against subdominant epitopes can participate in an immune response and effectively compete with T cells specific for immunodominant epitopes. These data have implications for the development of vaccines designed to emphasize cellular immunity.
Alternative assessment in a mathematics course (2004)

Abstract Sometimes a radical shift in assessment procedures may uncover a whole new set of objectives that neither the students nor the instructor expected. Such an experience is described in the context of freshman mathematics.
Filter design for polyphase filter banks with arbitrary number of subband channel (2003)

Consideration is given to the filter design problem for a recently proposed polyphase filter bank with an arbitrary number of subband channels. On the basis of the perfect reconstruction condition for the 1-D case, an analytical formula for the filter design is developed. Compared with direct numerical design algorithms, this analytical formula allows one to design the required low-pass FIR prototype filter with much less computational complexity and to obtain better filter bank performance. A design example is given for illustration.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Structure of the Human Interleukin-2 Receptor Gene (1985)

The gene encoding the human interleukin-2 (IL-2) receptor consists of 8 exons spanning more than 25 kilobases on chromosome 10. Exons 2 and 4 were derived from a gene duplication event and unexpectedly also are homologous to the recognition domain of human complement factor B. Alternative messenger RNA (mRNA) splicing may delete exon 4 sequences, resulting in a mRNA that does not encode a functional IL-2 receptor. Leukemic T cells infected with HTLV-I and normal activated T cells express IL-2 receptors with identical deduced protein sequences. Receptor gene transcription is initiated at two principal sites in normal activated T cells. Adult T cell leukemia cells infected with HTLV-I show activity at both of these sites, but also at a third transcription initiation site.
CpG ODN enhances immunization effects of hepatitis B vaccine in aged mice. (2004)

Oligodeoxynucleotides (ODN) containing unmethylated CpG dinucleotides in contexts of unique sequence (CpG motifs) is active as adjuvant in induction of cellular and humoral immune responses in young mice. To date, there are only limited reports about effect of CpG ODN on immune responses against hepatitis B (HB) infection in aged mice. Our studies demonstrated there were significant increases in secreting of total anti-HB IgG, IgG1 and IgG2a, as well as of IL-12 and IFN-gamma, when CpG ODNs were injected together with hepatitis B antigen in aged mice. Moreover, CpG ODN could stimulate proliferation of spleen lymphocytes in a dose-dependent manner. Taken together, the results we obtained indicate that the adding of CpG ODN into the vaccine antigen might be useful in development of more effective vaccination for inducing anti-HB virus responses in the elderly.