gebhart/patrepeval huggingface dataset:
Chromosome rearrangement associated inactivation of tumour suppressor genes in prostate cancer. (2011)

Prostate cancer, the most common male cancer in Western countries, is commonly detected with complex chromosomal rearrangements. Following the discovery of the recurrent TMPRSS2:ETS fusions in prostate cancer and EML4:ALK in non-small-cell lung cancer, it is now accepted that fusion genes not only are the hallmark of haematological malignancies and sarcomas, but also play an important role in epithelial cell carcinogenesis. However, previous studies aiming to identify fusion genes in prostate cancer were mainly focused on expression changes and fusion transcripts. To investigate the genes recurrently affected by the chromosome breakpoints in prostate cancer, we analysed Affymetrix array 6.0 and 500K SNP microarray data from 77 prostate cancer samples. While the two genes most frequently affected by genomic breakpoints were, as expected, ERG and TMPRSS2, surprisingly more known tumour suppressor genes (TSGs) than known oncogenes were identified at recurrent chromosome breakpoints. Certain well-characterised TSGs, including p53, PTEN, BRCA1 and BRCA2 are recurrently truncated as a result of chromosome rearrangements in prostate cancer. Interestingly, many of the genes residing at recurrent breakpoint sites have not yet been implicated in prostate carcinogenesis such as HOOK3, PPP2R2A and TCBA1. We have confirmed the generally reduced expression of selected genes in clinical samples using quantitative RT-PCR analysis. Subsequently, we further investigated the genes associated with the t(4:6) translocation in LNCaP cells and reveal the genomic fusion of SNX9 and putative TSG UNC5C, which led to the reduced expression of both genes. This study reveals another common mechanism that leads to the inactivation of TSGs in prostate cancer and the identification of multiple TSGs inactivated by chromosome rearrangements will lead to new direction of research for the molecular basis of prostate carcinogenesis.
Scattering of 2-D conducting concave object by MoM matrix decomposition technique (2000)

Recently, fast computational methods based on directly thinning the method-of-moments (MoM) matrix have been introduced. In this paper, we propose a simple matrix decomposition technique, based on the concept of the measured equation of invariance (MEI), to thin the MoM matrix numerically. This technique is referred to as matrix decomposition by MEI (MDMEI). Some effort is required to add MDMEI to any of a variety of MoM programs for electromagnetic problems, such as electrostatic problems, wire antennas, and 2-D conducting object scattering. However, in this paper, we only show the results of a 2-D conducting concave object scattering under a plane-wave incidence. © 2000 John Wiley & Sons, Inc. Microwave Opt Technol Lett 25: 149–152, 2000.
Clinical Applications of MAO-Inhibitors (2004)

Monoamine oxidase inhibitors (MAO-I) have been useful in the treatment of both psychiatric and neurological disorders over centuries. Here we focus on the development of this drug treatment. Focus is given on the use of irreversible MAO-I's as well as on reversible ones. Benefit and side effects are reported for Parkinson's disease, Alzheimer's dementia, depression syndrome and panic disorders. The preclinical and clinical effects of selegiline with regard to neuroprotection are highlightened and the conclusion is drawn that there is good evidence for a clinical neuroprotective capacity based on the assumption that the 50 percent recovery of MAO-B is obtained already after a 10 days withdrawal of selegiline. There is also a focus on selegilines metabolism to amphetamine and metamphetamine. In order to avoid any such effects of metabolic compounds on the cardiovascular system Zydis Selegiline, a melt-tablet avoid of major metabolism to amphetamine and metamphetamine is described in detail. Developments in MAO-I research are discussed in detail as there are moclobemide, lacabemide, rasagiline. Interactions of MAO-I' with tricyclics and serotonin selective reuptake inhibitors (SSRI's) are described as there is mentioning of interactions of MAO-I's with other compounds in general. Tables and figures report on clinical studies and on pharmacological properties of MAO-I's.
Modeling Player Retention in Madden NFL 11 (2011)

Video games are increasingly producing huge datasets available for analysis resulting from players engaging in interactive environments. These datasets enable investigation of individual player behavior at a massive scale, which can lead to reduced production costs and improved player retention. We present an approach for modeling player retention in Madden NFL 11, a commercial football game. Our approach encodes gameplay patterns of specific players as feature vectors and models player retention as a regression problem. By building an accurate model of player retention, we are able to identify which gameplay elements are most influential in maintaining active players. The outcome of our tool is recommendations which will be used to influence the design of future titles in the Madden NFL series.
Iridium Cyclometalates with Tethered o-Carboranes: Impact of Restricted Rotation of o-Carborane on Phosphorescence Efficiency (2015)

Iridium(III) cyclometalates (1c and 2c) in which the two carborane units on the 4- or 5-positions of 2-phenylpyridine (ppy) ligands were tethered by an alkylene linker were prepared to investigate the effect of free rotation of o-carborane on phosphorescence efficiency. In comparison with the unlinked complex, tethering the o-carboranes to the 5-positions of ppy ligands (2c) enhanced phosphorescence efficiency by over 30-fold in polar medium (Φ(PL) = 0.37 vs 0.011 in THF), while restricting the rotation of o-carborane at the 4-positions (1c) negatively affected the phosphorescence efficiency. The different effects of restricted rotation of o-carborane on phosphorescence efficiency were likely a result of the different variations of the carboranyl C-C bond distances in the excited state.
Systematic Review of the Registered Clinical Trials of Coronavirus Disease 2019 (COVID-19) (2020)

Abstract Background Since the outbreak of coronavirus disease 2019 (COVID-19), many researchers in China have immediately carried out clinical research scheme of the COVID-19. But, there is still a lack of systematic review of registered clinical trials. Therefore, we conducted a systematic review of the clinical trials of COVID-19 to summarize the characteristics of the COVID-19 registered clinical trials. Methods This study is based on the recommendations of the PRISMA in the Cochrane handbook. The databases from the Chinese Clinical Registration Center and the ClinicalTrials.gov were searched to collect the registered clinical trials of COVID-19. The retrieval inception date is February 9, 2020. Two researchers independently selected the literature based on inclusion and exclusion criteria, extracted data and evaluated the risk of bias. Results A total of 75 registered clinical trials (63 interventional studies and 12 observational studies) of COVID-19 were obtained. A majority of clinical trials were sponsored by Chinese hospitals. Only 11 trials have begun to recruit patients, and none of the registered clinical trials had been completed; 34 trials were early clinical exploratory trials or in a pre-experiment stage, 15 trials belonged to phrase III and 4 trials were phrase IV. The methods of intervention included traditional Chinese medicine involving 26 trials, Western medicine involving 30 trials, and integrated traditional Chinese medicine and Western medicine involving 19 trials. The subjects were mainly non-critical adult patients (≥ 18 years old). The median sample size of the trials was 100 (IQR: 60 - 200), and the median execute time of the trials was 179 d (IQR: 94 - 366 d). The main outcomes were clinical observation and examinations. Overall, both the methodology quality of interventional trials and observational studies were low. Conclusions Disorderly and intensive clinical trials of COVID-19 using traditional Chinese medicine and western medicine are ongoing or will being carried out in China. However, based on the low methodology quality and small sample size and long studies execute time, we will not be able to obtain reliable, high-quality clinical evidence about COVID-19 treatment in the near future. Improving the quality of study design, prioritizing promising drugs, and using different designs and statistical methods are worth advocating and recommending for the clinical trials of COVID-19 in China.
Acetoxymethyl 4-Chloro-N-furfuryl-5-sulfamoylanthranilate, an Absorption Furosemide Prodrug (1996)

The title compound, C15H15ClN2O7S, which was synthesized and characterized as the acetoxylmethyl ester of 4-chloro-N-furfuryl-5-sulfamoylanthranilic acid (furosemide) and is an absorption furosemide prodrug. The molecule has been crystallized in a triclinic unit cell and the space group is P\overline{1}. The crystal structure is stabilized by one intramolecular and two intermolecular hydrogen bonds.
Grammar-like functional rules for representing query optimization alternatives (1988)

Extensible query optimization requires that the “repertoire” of alternative strategies for executing queries be represented as data, not embedded in the optimizer code. Recognizing that query optimizers are essentially expert systems, several researchers have suggested using strategy rules to transform query execution plans into alternative or better plans. Though extremely flexible, these systems can be very inefficient at any step in the processing, many rules may be eligible for application and complicated conditions must be tested to determine that eligibility during unification. We present a constructive, “building blocks” approach to defining alternative plans, in which the rules defining alternatives are an extension of the productions of a grammar to resemble the definition of a function in mathematics. The extensions permit each token of the grammar to be parametrized and each of its alternative definitions to have a complex condition. The terminals of the grammar are base-level database operations on tables that are interpreted at run-time. The non-terminals are defined declaratively by production rules that combine those operations into meaningful plans for execution. Each production produces a set of alternative plans, each having a vector of properties, including the estimated cost of producing that plan. Productions can require certain properties of their inputs, such as tuple order and location, and we describe a “glue” mechanism for augmenting plans to achieve the required properties. We give detailed examples to illustrate the power and robustness of our rules and to contrast them with related ideas.
Isolation and Characterization of the Ribosomal RNA Genes of (1989)

Ribosomal RNA (rRNA) genes of Campylobacter jejuni have been isolated from a pBR322 C. jejuni genomic library by screening with radioactively labeled C. jejuni rRNA. Eleven clones isolated by this method were all shown to contain at least the 16S region of the C. jejuni rRNA gene, and at least 3 of the 11 clones isolated contained both the 16S and 23S regions. Southern blot analysis performed with the cloned genes supported the presence of three rRNA gene loci in C. jejuni.
Breast cancer special types: why bother? (2008)

Breast cancer is a heterogeneous disease, encompassing multiple entities associated with distinct biological features and clinical behaviours. Microarray-based expression profiling analysis has been used to unravel the molecular underpinning of several characteristics of breast cancer, including its proclivity to disseminate to distant sites and the molecular basis of histological grade. Furthermore, a breast cancer molecular classification based on transcriptional analysis has been proposed. However, microarray studies have primarily analysed invasive ductal carcinomas of no special type. Histological special types of breast cancer, which account for up to 25% of all invasive breast cancers, have not been systematically studied. Despite the limited interest, in recent years it has become apparent that the histopathological characteristics of these cancers may be underpinned by distinct arrays of genetic changes, providing direct evidence for genotypic-phenotypic correlations between morphological patterns and molecular changes in breast cancer (eg t(12;15) in secretory carcinoma of the breast). Here we review the molecular characteristics of special types of breast cancer, with special emphasis on their microarray-based expression profiles and their impact on our understanding of breast cancer.
Insertion of enhanced green fluorescent protein into the lysozyme gene creates mice with green fluorescent granulocytes and macrophages (2000)

Pluripotent hematopoietic stem cells have been studied extensively, but the events that occur during their differentiation remain largely uncharted. To develop a system that allows the differentiation of cultured multipotent progenitors by time-lapse fluorescence microscopy, myelomonocytic cells were labeled with green fluorescent protein (GFP) in vivo. This was achieved by knocking the enhanced GFP (EGFP) gene into the murine lysozyme M (lys) locus and using a targeting vector, which contains a neomycin resistant (neo) gene flanked by LoxP sites and "splinked" ends, to increase the frequency of homologous recombination. Analysis of the blood and bone marrow of the lys-EGFP mice revealed that most myelomonocytic cells, especially mature neutrophil granulocytes, were fluorescence-positive, while cells from other lineages were not. Removal of the neo gene through breeding of the mice with the Cre-deleter strain led to an increased fluorescence intensity. Mice with an inactivation of both copies of the lys gene developed normally and were fertile. (Blood. 2000;96:719-726)
432-nm source based on efficient second-harmonic generation of GaAlAs diode-laser radiation in a self-locking external resonant cavity (1989)

Using a potassium niobate crystal in a modified self-locking power-buildup cavity, we have frequency doubled the 865-nm output from a GaAlAs laser diode. With 12.4 mW of input power we have obtained a unidirectional output of 0.215 mW at 432 nm. In contrast to previous diode doubling experiments, the output was both single frequency and circular Gaussian. With better optics, substantially higher conversion efficiencies should be possible using this technique.
TiN 혹은 Al 코팅층과 HSS 기판간의 부착력 측정을 위한 새로운 기술 (1995)

The adhesion strength of do magnetron sputtered TiN or Al coatings on polished high speed steel(HSS) substrates have been measured by two new methods. The most critical problem for the application of new developed three point bend test and modified shear test is to prepare a sample with a notch which initiates crack propagation at the coating/substrate interface. Three point bend test and modified shear test provide interface fracture toughness K_c and interface shear strength τ_B, respectively. These data were compared with results obtaind by the scratch test in order to show the applicability of the individual techniques for the determination of the adhesion strength. The results obtaind so far demonstrate that the new methds are good applicable to measuring the adhesion strength of various coating systems.
Preclinical evaluation of WR-151327: an orally active chemotherapy protector. (1994)

Clinical trials are in progress to evaluate radio- and chemoprotection by the aminothiol 2-[(3-aminopropyl)amino]ethanethiol-dihydrogen phosphate ester (WR-2721; amifostine). Phase II and III clinical studies have demonstrated that i.v. administered WR-2721 protects against the toxicities of cis-diamminedichloroplatinum (II) and cyclophosphamide. In preclinical murine studies, we have now further characterized the chemoprotective properties of WR-2721, and have evaluated the protective ability of the related aminothiol S-3-(3-methylaminopropylamino)propylphosphorothioic acid (WR-151327) following p.o. administration. The P388 leukemia (i.p. tumor-i.p. cytotoxic drug on Day 1 after tumor) was used to determine antitumor efficacy. Single dose pretreatment with i.p. WR-2721 protects normal mouse tissues against the chemotoxicities of mitomycin C, cis-diammine(cyclobutanedicarboxylato)platinum (II), and doxorubicin. Bone marrow suppression and cytotoxic drug-induced lethality were reduced, without compromising P388 antitumor activity. Pretreatment with a single p.o. dose of WR-151327 was as effective as i.p. WR-2721 in protecting against the myelotoxicity and lethality of mitomycin C, cis-diamminedichloroplatinum (II), and cis-diammine(cyclobutanedicarboxylato)platinum (II), while P388 antitumor activity was maintained. These data support the clinical development of WR-151327 as a p.o. administered chemotherapy protector.
Orally administered bovine lactoferrin systemically inhibits VEGF165-mediated angiogenesis in the rat (2000)

Lactoferrin (Lf) systemically suppresses tumor growth and metastasis by unknown mechanisms. We have studied the effect of orally administered iron-unsaturated bovine Lf on angiogenesis induced by VEGF165 and IL-1-alpha in adult rats using the mesenteric-window angiogenesis assay. VEGF165 is a major angiogenic factor in most, if not all, tumors and other angiogenesis diseases of clinical relevance. A number of objective angiogenesis variables were analyzed using microscopic morphometry and image analysis. Lf treatment significantly inhibited the VEGF165-mediated response in terms of microvessel spatial extension, overall vascularity and incidence of crossover. The response to IL-1-alpha decreased significantly only in terms of microvessel crossover. In vitro, Lf exerted an antiproliferative effect on endothelial cells. To our knowledge, Lf is the first endogenous protein that has been shown to be antiangiogenic following oral administration. The oral administration of Lf thus appears to be of potential interest as an antiangiogenesis treatment modality in the clinical setting. Since tumor growth is angiogenesis dependent, the extensive therapeutic potential warrants further study to elucidate the mechanisms responsible for the angiostatic effect of Lf. © 2001 Wiley-Liss, Inc.
Proteoglycan production by human glomerular visceral epithelial cells and mesangial cells in vitro (1995)

Proteoglycans metabolically labelled with [35S]sulphate and [3H]glucosamine or [3H]leucine were isolated from the incubation medium and cell layer of human adult mesangial cells and glomerular visceral epithelial cells using sequential DEAE chromatography purification steps followed by gel-filtration chromatography. The proteoglycan composition of each peak was analysed by treatment with HNO2, chondroitinase ABC or chondroitinase AC followed by chromatography on Sephadex G-50 columns. Heparan sulphate proteoglycan (HSPG) and dermatan sulphate proteoglycan were detected in both the culture medium and cell layer of mesangial cells. Culture medium of glomerular visceral epithelial cells contained HSPG and a second proteoglycan with the properties of a hybrid molecule containing HS and chondroitin sulphate (CS). The cell layer contained HSPG and CSPG. Detailed analysis of the hybrid molecule revealed that it had an apparent molecular mass of 400 kDa. SDS/PAGE of hybrid molecules, after treatment with heparitinase and chondroitinase ABC, revealed a core protein of 80 kDa. Using 1.8% polyacrylamide/0.6% agarose-gel electrophoresis, we deduced that the HS and CS were independently attached to one core protein. Because glomerular-basement-membrane HSPG is thought to be derived from mesangial cells and glomerular visceral epithelial cells and this molecule is involved in several kidney diseases, we investigated its synthesis in more detail. Anti-(rat glomerular-basement-membrane HSPG) monoclonal antibodies (JM403) and anti-(human glomerular-basement-membrane HSPG) polyclonal antibodies (both antibodies known to react with the large basement-membrane HSPG, perlecan) reacted strongly with HSPG obtained from both mesangial cells and glomerular visceral epithelial cells. However, the hybrid molecule did not react with these antibodies, suggesting that the HS side chain and the core protein were different from glomerular-basement-membrane HSPG. To quantify HS we performed an inhibition ELISA using mouse antibodies specific for glomerular-basement-membrane HS glycosaminoglycan side chains. Glomerular visceral epithelial cells produced significantly higher levels of HS (between 197.56 and 269.40 micrograms/72 h per 10(6) cells) than mesangial cells (between 29.8 and 45.5 micrograms/72 h per 10(6) cells) (three different cell lines; n = 3; P < 0.001). HS production by these cells was inhibited by cycloheximide, revealing that it was synthesized de novo. Expression of perlecan mRNA, demonstrated using reverse transcriptase PCR, was different in the two cell types. We conclude that glomerular visceral epithelial cells and mesangial cells have characteristic patterns of proteoglycan production. Glomerular visceral epithelial cells produced a hybrid proteoglycan containing CS and HS independently attached to its core protein.(ABSTRACT TRUNCATED AT 250 WORDS)
Simultaneous Pressure, Flow and Diameter of the Vena Cava with Fright and Exercise (1966)

The diameter, distending pressure and flow in the superior vena cava and aortic flow were recorded simultaneously in unanesthetized dogs. Atrial systole produced a regurgitant flow pulse and an increase in pressure and diameter. Ventricular systole produced a sharp decrease in caval diameter and a large increase in flow. A second flow pulse occurred during ventricular diastole. Inspiration accelerated flow in the cava. During exercise, the caval diameter invariably decreased. Venoconstriction, however, could be unequivocally demonstrated in only 26% of the treadmill runs. In 88% of 33 recorded treadmill runs, the flow in the vena cava increased before the heart rate increased which, in turn, preceded the increase in aortic stroke volume. Frightening the animal produced a prompt decrease in caval diameter and distending pressure; this gave way to increased pressure, but without a corresponding increase in diameter. Epinephrine and norepinephrine produced a sustained increase in distending pressure and an initial decrease and a more sustained increase in diameter. Isoproterenol produced tachycardia and a decrease in distending pressure and diameter. Acetylcholine caused an initial bradycardia which was associated with an increase in diameter and pressure in the vena cava followed quickly by prolonged tachycardia which was associated with a decrease in pressure and diameter.
Use of bacterial expression cloning to define the amino acid sequences of antigenic determinants on the G2 glycoprotein of Rift Valley fever virus (1986)

Four distinct antigenic determinants along the G2 glycoprotein encoded by the M segment RNA of the Phlebovirus Rift Valley fever virus were localized. These epitopes were defined by four monoclonal antibodies, three of which were capable of neutralizing virus infectivity; one was nonneutralizing. Immunoprecipitation by these monoclonal antibodies of either denatured or native antigen characterized the epitopes as having linear or higher order structure. Molecular cloning of G2 glycoprotein-coding sequences into a bacterial expression plasmid utilizing a beta-galactosidase fusion protein system was employed for epitope localization. A nuclease BAL 31 plasmid expression library, in which processive regions of the 3' end of the G2 glycoprotein coding sequences were deleted, allowed for approximation of the carboxy-terminal limit of the antigenic determinants. Further subcloning of limited G2 polypeptide sequences into the bacterial expression vector permitted more refined localization of the epitopes. The characteristics of the immunoreactivity of these small peptide regions (between 11 and 34 amino acids) produced in bacteria as G2-beta-galactosidase fusion proteins were similar to those of the authentic Rift Valley fever virus G2 glycoprotein. These defined antigenic determinants and their importance in virus infectivity are discussed.