gebhart/patrepeval huggingface dataset:
Infrequent Mutations of the hOGG1 Gene, That Is Involved in the Excision of 8‐Hydroxyguanine in Damaged DNA, in Human Gastric Cancer (1998)

DNA glycosylase, encoded by the hOGG1 gene, repairs 8-hydroxyguanine (oh8Gua), which is an oxidatively damaged mutagenic base. To clarify whether the DNA repair activity of hOGG1 protein is involved in gastric carcinogenesis, we examined 9 gastric cancer cell lines and 35 primary gastric cancers for mutations and genetic polymorphisms of the hOGG1 gene by polymerase chain reaction-single strand conformation polymorphism analysis. A G-to-A transition was detected in a gastric cancer cell line, MKN1. This nucleotide change caused the conversion of the amino acid from Arg to His at codon 154, which is located in a domain highly conserved among human, mouse, and yeast OGG1 proteins. No mutation was detected in primary gastric cancers. We compared the distribution of the polymorphic alleles associated with enzymatic activity (hOGG1-Ser326 vs. hOGG1-Cys326) between 35 gastric cancer patients and 42 healthy individuals. Although the frequency of the Cys326 allele, associated with low enzymatic activity, in gastric cancer patients was a little higher than that in healthy individuals, the difference did not reach statistical significance. These results suggest that low hOGG1 activity due to mutations and genetic polymorphisms is involved in the development of only a small subset of gastric cancers.
Combined effect of ALK and MEK inhibitors in EML4–ALK-positive non-small-cell lung cancer cells (2012)

Our results indicate that interruption of both STAT3-survivin and ERK-BIM pathways is required for induction of apoptosis in NSCLC harbouring EML4-ALK, providing a rationale for combination therapy with ALK and MEK inhibitors in EML4-ALK-positive NSCLC patients for whom ALK inhibitors alone are ineffective.
Efficient RDMA-based multi-port collectives on multi-rail QsNet/sup II/ clusters (2006)

Many scientific applications use MPI collective communications intensively. Therefore, efficient and scalable implementation of collective operations is critical to the performance of such applications running on clusters. Quadrics QsNet/sup II/ is a high-performance interconnect for clusters that implements some collectives at the Elan level. These collectives are directly used by their corresponding MPI collectives. Quadrics software supports point-to-point striping over multi-rail QsNet/sup II/ networks. However, multi-rail collectives have not been supported. In this work, we propose a number of RDMA-based multi-port collectives over multi-rail QsNet/sup II/ clusters directly at the Elan level. Our performance results indicate that the proposed multi-port gather gains an improvement of up to 6.35 for 1MB message over the native elan/spl I.bar/gather. The proposed multi-port all-to-all performs better than the native elan/spl I.bar/alltoall by a factor of 2.19 for 16KB message. Moreover, we have also proposed two algorithms for the scatter operation.
Storage Estimation for Multidimensional Aggregates in the Presence of Hierarchies (1996)

To speed up multidimensional data analysis, database systems frequently precompute aggregates on some subsets of dimensions and their corresponding hierarchies. This improves query response time. However, the decision of what and how much to precompute is a difficult one. It is further complicated by the fact that precomputation in the presence of hierarchies can result in an unintuitively large increase in the amount of storage required by the database. Hence, it is interesting and useful to estimate the storage blowup that will result from a proposed set of precomputations without actually computing them. We propose three strategies for this problem: one based on sampling, one based on mathematical approximation, and one based on probabilistic counting. We investigate the accuracy of these algorithms in estimating the blowup for different data distributions and database schemas. The algorithm based upon probabilistic counting is particularly attractive, since it estimates the storage...
Histoincompatible Bone Marrow Transplants in Humans (1987)

Exhausted CD8 T (Tex) cells are a distinct cell lineage that arise during chronic infections and cancers in animal models and humans. Tex cells are characterized by progressive loss of effector functions, high and sustained inhibitory receptor expression, ...Read More
Adjuvants and herbicidal efficacy – present status and future prospects (2000)

The influence of adjuvants on spray liquid behaviour and herbicide performance is reviewed. Total formulation efficacy can be expressed as a function of [deposition:retention:uptake: translocation:a.i. toxicity]. Adjuvants influence the physico‐chemical and plant interactions involved for each factor. Deposition efficiency of spray droplets on to a target is dependent largely on the droplet spectrum, whereas retention performance is dependent on plant leaf surface character, orientation and canopy architecture, as well as droplet volume, velocity and dynamic surface tension effects. Uptake into plant foliage is affected by the leaf surface wax, cuticle age and composition and species variability. Uptake can be improved through appropriate formulation to provide either stomatal infiltration or much greater and faster cuticular absorption of the active ingredient. The inherent translocation capability of the a.i. is not affected directly by adjuvants, which are relatively immobile, but they can increase the mass of absorbed a.i. translocated, as a consequence of improved uptake or may reduce it as a result of localized contact phytotoxicity. Considerable progress has been made in developing models of spray droplet deposition, adhesion and retention, as well as uptake. In future, individual models may be combined to provide an integrated formulation efficacy decision support system.
Interleukin 7 induces CD4+ T cell-dependent tumor rejection. (1991)

The potential of interleukin 7 (IL-7) to induce an antitumor response in vivo was analyzed. Therefore, the IL-7 gene was expressed in the plasmacytoma cell line J558L. Although the growth of IL-7-producing cells was not retarded in vitro, the IL-7-producing cells were completely rejected upon injection into mice. Tumor rejection was observed only in syngeneic but not in nude mice. The tumor-suppressive effect could be abolished by the parallel injection of an anti-IL-7 monoclonal antibody. Immunohistochemical analysis revealed IL-7-dependent infiltration of the tumor tissue by CD4+ and CD8+ T lymphocytes, and also type 3 complement receptor-positive (CR3+) cells, predominantly macrophages. Depletion of T cell subsets in tumor-bearing mice showed the absolute dependence of the antitumor response on CD4+ cells, whereas tumor rejection was unaffected by depletion of CD8+ cells. In addition to CD4+ cells, CR3+ cells were also needed for tumor rejection. The antitumor effect of IL-7 was confirmed by expression of the IL-7 gene in a second tumor cell line of different cellular origin. Together, our results demonstrate that a high local IL-7 concentration at the tumor site obtained by tumor cell-targeted gene transfer leads to tumor rejection involving a cellular mechanism that seems to be different from the ones observed in analogous experiments with other cytokines.
Novel enzymes for the degradation of cellulose (2012)

The bulk terrestrial biomass resource in a future bio-economy will be lignocellulosic biomass, which is recalcitrant and challenging to process. Enzymatic conversion of polysaccharides in the lignocellulosic biomass will be a key technology in future biorefineries and this technology is currently the subject of intensive research. We describe recent developments in enzyme technology for conversion of cellulose, the most abundant, homogeneous and recalcitrant polysaccharide in lignocellulosic biomass. In particular, we focus on a recently discovered new type of enzymes currently classified as CBM33 and GH61 that catalyze oxidative cleavage of polysaccharides. These enzymes promote the efficiency of classical hydrolytic enzymes (cellulases) by acting on the surfaces of the insoluble substrate, where they introduce chain breaks in the polysaccharide chains, without the need of first "extracting" these chains from their crystalline matrix.
A Replicating Single-Cycle Adenovirus Vaccine Against Ebola Virus (2018)

Recent West African Ebola virus (EBOV) epidemics have led to testing different anti-EBOV vaccines, including a replication-defective adenovirus (RD-Ad) vector (ChAd3-EBOV) and an infectious, replication-competent recombinant vesicular stomatitis virus expressing the EBOV glycoprotein (rVSV-EBOV; also known as rVSV-ZEBOV). While RD-Ads elicit protection, when scaled up to human trials, the level of protection may be much lower than that of vaccines containing viruses that can replicate. Although a replication-competent Ad (RC-Ad) vaccine might generate a level of protection approximating that of rVSV, this infectious vector would also risk causing adenovirus disease. We recently described a "single-cycle" adenovirus (SC-Ad) vector that amplifies antigen genes like RC-Ad, but that avoids the risk of adenovirus infection. Here we have tested an SC-Ad6 vector expressing the glycoprotein (GP) from a 2014 EBOV strain in mice, hamsters, and rhesus macaques. We show that SC-Ad6-EBOV GP induces a high level of serum antibodies in all species and mediates significant protection against pseudo-challenge with rVSV-EBOV expressing luciferase in mice and hamsters. These data suggest that SC-Ad6-EBOV GP may be useful during future EBOV outbreaks.
Capturing dynamic memory reference behavior with adaptive cache topology (1998)

Memory references exhibit locality and are therefore not uniformly distributed across the sets of a cache. This skew reduces the effectiveness of a cache because it results in the caching of a considerable number of less-recently-used lines which are less likely to be re-referenced before they are replaced. In this paper, we describe a technique that dynamically identifies these less-recently-used lines and effectively utilizes the cache frames they occupy to more accurately approximate the global least-recently-used replacement policy while maintaining the fast access time of a direct-mapped cache. We also explore the idea of using these underutilized cache frames to reduce cache misses through data prefetching. In the proposed design, the possible locations that a line can reside in is not predetermined. Instead, the cache is dynamically partitioned into groups of cache lines. Because both the total number of groups and the individual group associativity adapt to the dynamic reference pattern, we call this design the adaptive group-associative cache. Performance evaluation using trace-driven simulations of the TPC-C benchmark and selected programs from the SPEC95 benchmark suite shows that the group-associative cache is able to achieve a hit ratio that is consistently better than that of a 4-way set-associative cache. For some of the workloads, the hit ratio approaches that of a fully-associative cache.
A new planar stacked technology (PST) for scaled and embedded DRAMs (2002)

We report a Planar Stack Technology (PST) suitable for scaling and combining DRAM with logic circuits. Key features of PST technology are retrograde twin well, shallow trench isolation (STI), self-aligned poly plug structure, damascene W bit-line, Ta/sub 2/O/sub 5/ capacitor dielectric and planarized capacitor formation. This new architecture provides planar surfaces for all the lithographic steps and is easy to combine CMP-based backend processes. Although the process margin and electrical performance are proven using full density, 256 M DRAM chip, this technology can be applied to 1 G bit DRAM and beyond with simple photo lithographic scaling.
Fusion of simian immunodeficiency virus with liposomes and erythrocyte ghost membranes: effects of lipid composition, pH and calcium (1990)

Simian immunodeficiency virus from macaques (SIVmac) is closely related in its structure and biological activity to human immunodeficiency virus, and is the best animal model for the acquired immunodeficiency syndrome. We investigated the kinetics of membrane fusion between SIVmac and phospholipid vesicles and the effects of various parameters on this process. Purified SIVmac was labelled with octadecyl rhodamine B chloride, and fusion was continuously monitored as the dilution of the probe in target membranes. These studies show that SIVmac fusion is strongly dependent upon the liposome composition. Fusion with pure cardiolipin (CL) liposomes is significantly faster than with CL/dioleoylphosphatidylcholine (DOPC) (3:7), phosphatidylserine (PS) or disialoganglioside (GD1a)/DOPC (1.5:8.5) vesicles. SIVmac does not fuse appreciably with pure DOPC liposomes. Reduction of pH from 7.5 to 4.5 greatly enhances the rate of SIVmac fusion with CL, CL/DOPC and PS membranes, but does not affect fusion with DOPC or GD1a/DOPC membranes. Calcium stimulates viral fusion with CL liposomes, but not with CL/DOPC or DOPC liposomes. SIVmac fuses with human erythrocyte ghost membranes only slowly at reduced pH. Our results indicate that SIVmac can fuse with membranes lacking the known viral receptor, CD4. Although the mechanism of SIVmac fusion with model and biological membranes remains to be determined, the fusion activity of SIVmac shares similarities with other lipid-enveloped viruses such as Sendai and influenza viruses.
Multiple forms of porcine pancreatic phospholipase A2: Isolation and specificity (1973)

Abstract Porcine pancreatic phospholipase A 2 was purified from commercial pancreatin by a method involving heat denaturation, trichloroacetic acid precipitation, and DEAE‐cellulose chromatography. Assaying the eluate of the chromatography step by a new titrimetric method using vegetable lecithin‐albumin emulsion as the substrate, several species of phospholipase A were found. Some of these went undetected when the conventional egg yolk emulsion assay was used. Two phospholipases A 2 were isolated in a homogeneous form and shown to have similar chemical and physical properties. Catalytic specificity of the two enzymes differs remarkably toward lecithins in different emulsified states.
Job Completion Prediction in Grid Using Distributed Case-based Reasoning (2006)

Grid allows several entities to share their computational resources. Selecting the best resource to run a job can become a complex and inadequate task for the user since grid is a distributed, dynamic, and heterogeneous network. The current frameworks for this problem still face some challenges. Users never know when the job will finish and what the service provider guarantees. Moreover, job scheduling for a future time is unavailable in most existing framework solutions since they lack performance prediction techniques. This paper presents an approach to job execution time prediction in grid using the case-based reasoning paradigm. The prediction module presented is part of a multi-agent system that selects the best resource to run a job in the grid environment. Case retrieval algorithms involving relevance and geometric matching are presented. We also elaborate adaptation algorithms that use prediction techniques for job workload forecasting.
Performance of low-loss RF MEMS capacitive switches (1998)

'This letter details the construction and performance of metal membrane radio frequency MEMS switches at microwave and millimeter-wave frequencies. These shunt switches possess a movable metal membrane which pulls down onto a metal/dielectric sandwich to form a capacitive switch. These switches exhibit low loss (<0.25 dB at 35 GHz) with good isolation (35 dB at 35 GHz). These devices possess on-off capacitance ratios in the range of 80-110 with a cutoff frequency (figure of merit) in excess of 9000 GHz, significantly better than that achievable with electronic switching devices.
Screening for Inhibitors of Tau Polymerization (2005)

The histopathological diagnosis of Alzheimer's disease relies on two kinds of proteinaceous aggregates: the extracellular plaques built from filaments of the Abeta-peptide and the intracellular tangles consisting of tau polymerized into Paired Helical Filaments (PHFs). The order of aggregation events is still under debate, but it is well accepted that tau-related changes have an important impact on the viability of neurons. In neurons, early morphological changes are seen in axons which begin to loose and retract synapses. This process is accompanied by an increase of aggregated tau protein. Thus the prevention of tau aggregation seems to be a valuable target for therapy of Alzheimer's disease. Here we present a screening procedure by which we identified inhibitors of tau polymerization. In the primary screen we used a thioflavin-S based assay which detects PHF formation in solution. These initial hits were further analyzed for their capacity to depolymerize preformed PHFs. These results were confirmed by several secondary assays (tryptophan fluorescence, pelleting, filter trapping and electron microscopy). By this approach it is possible to identify small molecule compounds which prevent or reverse the aggregation of tau and thereby might improve the viability of neurons in a therapeutic approach.
Methotrexate analogs. 33. N.delta.-Acyl-N.alpha.-(4-amino-4-deoxypteroyl)-L-ornithine derivatives. Synthesis and in vitro antitumor activity (1988)

N delta-Acyl derivatives of the potent folylpolyglutamate synthetase (FPGS) inhibitor N alpha-(4-amino-4-deoxypteroyl)-L-ornithine (APA-L-Orn) were synthesized from N alpha-(4-amino-4-deoxy-N10-formylpteroyl)-L-ornithine by reaction with an N-(acyloxy)succinimide or acyl anhydride, followed by deformylation with base. The N delta-hemiphthaloyl derivative was also prepared from 4-amino-4-deoxy-N10-formylpteroic acid by reaction with persilylated N delta-phthaloyl-L-ornithine, followed by simultaneous deformylation and ring opening of the N delta-phthaloyl moiety with base. The products were potent inhibitors of purified dihydrofolate reductase (DHFR) from L1210 murine leukemia cells, with IC50's ranging from 0.027 and 0.052 microM as compared with 0.072 microM for APA-L-Orn. Several of the N delta-acyl-N10-formyl intermediates also proved to be good DHFR inhibitors. One of them, N alpha-(4-amino-4-deoxy-N10-formylpteroyl)-N delta-(4-chlorobenzoyl)-L- ornithine, had a 2-fold lower IC50 than its deformylated product, confirming that the N10-formyl group is well tolerated for DHFR binding. While N delta-acylation of APA-L-Orn did not significantly alter anti-DHFR activity, inhibition of FPGS was dramatically diminished, supporting the view that the basic NH2 on the end of the APA-L-Orn side chain is essential for the activity of this compound against FPGS. N delta-Acylation of APA-L-Orn markedly enhanced toxicity to cultured tumor cells. However, N delta-acyl derivatives also containing an N10-formyl substituent were less cytotoxic than the corresponding N10-unsubstituted analogues even though their anti-DHFR activity was the same, suggesting that N10-formylation may be unfavorable for transport. Two compounds, the N delta-benzoyl and N delta-hemiphthaloyl derivatives of APA-L-Orn, with IC50's against L1210 cells of 0.89 and 0.75 nM, respectively, were more potent than either methotrexate (MTX) or aminopterin (AMT) in this system. These compounds were also more potent than MTX against CEM human lymphoblasts and two human head and neck squamous cell carcinoma cell lines (SCC15, SCC25) in culture. Moreover, in assays against SCC15/R1 and SCC25/R1 sublines with 10-20-fold MTX resistance, the N delta-hemiphthaloyl derivative of APA-L-Orn showed potency exceeding that of MTX itself against the parental cells.(ABSTRACT TRUNCATED AT 400 WORDS)
Growth and characterization of progesterone crystallites (2004)

Un monocristal de progesterona fue crecido, mediante el metodo de crecimiento de cristales en solucion, empleando una mezcla de acetona y eter etilico como solventes y posteriormente calentando la solucion a 40±C durante 2 horas. Varios cristales transparentes fueron obtenidos por este metodo y caracterizados mediante difraccion de rayos X, microscopia optica y microscopia electronica de barrido. La tecnica de difraccion de rayos X permitio determinar que la estructura atomica del cristal es ortorrombica. Una serie de micrografias mostraron un patron de crecimiento lateral de los cristales asi preparados
Analysis of CD28 cytoplasmic tail tyrosine residues as regulators and substrates for the protein tyrosine kinases, EMT and LCK (1997)

The CD28 cell surface receptor provides an important costimulatory signal for T cells necessary for their response to Ag. Early events in CD28 signaling include recruitment and activation of phosphatidylinositol 3-kinase (PI3-kinase) and activation of the protein tyrosine kinases (PTKs), LCK and EMT. Recruitment and activation of PI3-kinase is known to be dependent upon phosphorylation of tyrosine 173 of the CD28 cytoplasmic tail contained within a YMNM motif. By contrast, little is known of which residues of the CD28 tail, including tyrosines, are required for the activation of PTKs. To address this we studied the ability of truncation mutants and tyrosine to phenylalanine substitution mutants of the CD28 cytoplasmic tail to activate LCK and EMT in Jurkat T leukemia cells. Our results indicate that 1) activation of EMT is partially dependent upon tyrosine 173 of the CD28 tail, although it does not require PI3-kinase activation; 2) activation of LCK is independent of CD28 cytoplasmic tail tyrosine residues; and 3) elements sufficient for the activation of both kinases are contained within the first half of the tail. In addition we studied the CD28 tail as a substrate for both PTKs in in vitro kinase assays. We demonstrate that EMT can phosphorylate all four tyrosines of the CD28 tail, in contrast to LCK, which phosphorylates only tyrosine 173. Together with evidence that in vivo, tyrosines other than tyrosine 173 become phosphorylated following CD28 stimulation, this finding suggests that, like LCK, one function of EMT during CD28 signaling is phosphorylation of the receptor.
Impaired muscarinic endothelium-dependent relaxation and cyclic guanosine 5'-monophosphate formation in atherosclerotic human coronary artery and rabbit aorta. (1987)

The dependence of vascular relaxation on an intact endothelium and the relationship between relaxation and cyclic GMP accumulation were determined in coronary arteries isolated from cardiac transplantation patients with or without coronary atherosclerosis. In nonatherosclerotic arteries, the endothelium-dependent agent acetylcholine produced concentration-related relaxations. In atherosclerotic arteries, endothelium-dependent relaxations were abolished with acetylcholine, partly suppressed with substance P and histamine, and completely preserved with the ionophore A23187. In these arteries, the endothelium-independent agent nitroglycerin remained fully active. Accumulation of cyclic GMP in atherosclerotic strips was suppressed with acetylcholine but unattenuated with A23187 and nitroglycerin. In aortas from rabbits with diet-induced atherosclerosis, there was likewise an impaired cholinergic relaxation and cyclic GMP accumulation in the presence of preserved responses to A23187 and nitroglycerin. The results demonstrate that impaired cholinergic responses in atherosclerotic arteries reflect a muscarinic defect and not an inability of endothelium to release endothelial factor or smooth muscle to respond to it.
Aptamer‐Directed Self‐Assembly of Protein Arrays on a DNA Nanostructure (2005)

Sauber ausgerichtet: Die Selbstorganisation von Proteinen an rational entworfenen Nanostrukturen zu periodischen linearen Systemen wurde gezeigt. Tripel-Crossover-DNA-Fliesen 1, die eine spezifisch Thrombin bindende Aptamersequenz (AS) enthalten, bildeten lineare Systeme 2; diese steuern die Platzierung der Thrombinproteine (grüne Kugeln) in 3. Der Ansatz könnte auf die Konstruktion anderer programmierbarer nanoskaliger Proteinanordnungen übertragbar sein.