gebhart/patrepeval huggingface dataset:
LSC Abstract – The expression and function of BPIFA1 in the pulmonary innate immune response to influenza A virus infection (2015)

BPIFA1 is a member the bactericidal/permeability-increasing (BPI) protein family and is structurally similar to other BPIF family members with demonstrated innate immune roles. It is produced mainly in the mammalian respiratory tract and has been implicated in airway host defense against respiratory pathogens. However, the function of this protein is yet unresolved in many species and by elucidating this will aid to clarify its physiological role within the lungs. The objective of this study was to assess BPIFA1 expression and function in the respiratory tract in response to Influenza A virus. Using BPIFA1 knockout mice, we have shown increased virus load and inflammation in the lungs of these mice infected with the X31 strain (H3N2) as compared with wild-type controls. Interestingly, there were large peri-vascular aggregations of B cells in the lungs of BPIFA1<sup>-/-</sup> mice suggesting a role of BPIFA1 in modulating antibody responses. Lung tissues from mice infected with different strains of varying pathogenicities of Influenza A virus were analysed by immunohistochemical methods at specific time points during the infection period. Imaging software was then used to quantify the level of protein expression within the respiratory epithelium. It was found that the level of BPIFA1 decreased in response to highly pathogenic H5N1 and H7N9 infections but not to low pathogenicity H5N1 or H1N1 viruses. This alteration in expression was associated with an inflammatory response within the respiratory tissue surrounding the epithelium. Our data indicate that BPIFA1 influences inflammation and possibly signals to immune cells during Influenza A virus infection.
<title>Perchloroethylene detection in air: a comparative study using polymer sensor elements and catalyst/sensor systems</title> (1993)

In a first approach, perchloroethylene (C<SUB>2</SUB>Cl<SUB>4</SUB> or 'PER') was determined quantitatively in air by monitoring mass and temperature changes of polymer-coated quartz microbalance and calorimetric transducers. The different equilibrium and time-dependent sensor responses result from reversible interactions between perchloroethylene molecules from the gas phase and chemically sensitive polymers based upon modified siloxanes. In a second approach, we determined PER by applying pattern recognition methods to evaluate data from catalyst/electrochemical sensor-systems. Here, PER is decomposed at a heated catalytic filament. The molecular fragments are detected subsequently by an electrochemical or semiconductor gas sensor. The quantitative determination of perchloroethylene in air in the ppm-range is possible by applying mathematical procedures of pattern recognition. Finally, a comparative discussion of the different transducer and evaluation principles is given for specific applications.
The Effect of Aerobic Exercise on Concussion Recovery: A Pilot Clinical Trial (2021)

Results from this study indicate that the feasibility and tolerability of administering aerobic exercise via stationary cycling in the post-acute time frame following post-concussion (14-25 days) period are tentatively favorable. Aerobic exercise does not appear to negatively impact recovery trajectories of neurobehavioral outcomes; however, tolerability may be poorer for patients with high symptom burden.
Use of a simplified single-site PCR to facilitate cloning of genomic DNA sequences flanking a transgene integration site. (1991)

We have used a simplified single-site PCR based strategy to isolate genomic DNA flanking the transgenic insert in a line of transgenic mice. The flanking sequences, which were refractory to more conventional cloning techniques, were isolated and characterized within 1 week. This strategy begins with the annealing and ligation of a single-stranded oligonucleotide to recessed 5' ends of restriction endonu-clease-digested, size-selected transgenic DNA. Following denaturation, a second oligonucleotide is used to prime DNA synthesis from a position within the transgenic sequences to the end of the genomic restriction fragment, finally synthesizing a complement of the ligated oligonucleotide sequence. Subsequently, a PCR is initiated which uses primers specific for the transgenic DNA and the newly synthesized DNA complementary to the ligated oligonucleotide. The only prerequisite data are sequence information for the transgenic DNA and Southern information regarding the size(s) of restriction fragments that contain the flanking genomic material. This report demonstrates one utility of this technique--enabling rapid isolation of specific mammalian genomic DNA sequences.
Fusion of Epstein-Barr Virus Nuclear Antigen-1-Derived Glycine–Alanine Repeat to Trans-Dominant HIV-1 Gag Increases Inhibitory Activities and Survival of Transduced Cells <i>In Vivo</i> (2008)

Trans-dominant human immunodeficiency virus type 1 (HIV-1) Gag derivatives have been shown to efficiently inhibit late steps of HIV-1 replication in vitro by interfering with Gag precursor assembly, thus ranking among the interesting candidates for gene therapy approaches. However, efficient antiviral activities of corresponding transgenes are likely to be counteracted in particular by cell-mediated host immune responses toward the transgene-expressing cells. To decrease this potential immunogenicity, a 24-amino acid Gly-Ala (GA) stretch derived from Epstein-Barr virus nuclear antigen-1 (EBNA1) and known to overcome proteasomal degradation was fused to a trans-dominant Gag variant (sgD1). To determine the capacity of this fusion polypeptide to repress viral replication, PM-1 cells were transduced with sgD1 and GAsgD1 transgenes, using retroviral gene transfer. Challenge of stably transfected permissive cell lines with various viral strains indicated that N-terminal GA fusion even enhanced the inhibitory properties of sgD1. Further studies revealed that the GA stretch increased protein stability by blocking proteasomal degradation of Gag proteins. Immunization of BALB/c mice with a DNA vaccine vector expressing sgD1 induced substantial Gag-specific immune responses that were, however, clearly diminished in the presence of GA. Furthermore, recognition of cells expressing the GA-fused transgene by CD8(+) T cells was drastically reduced, both in vitro and in vivo, resulting in prolonged survival of the transduced cells in recipient mice.
Enteropathy-associated T cell lymphoma subtypes are characterized by loss of function of SETD2 (2017)

Enteropathy-associated T cell lymphoma (EATL) is a lethal, and the most common, neoplastic complication of celiac disease. Here, we defined the genetic landscape of EATL through whole-exome sequencing of 69 EATL tumors. <i>SETD2</i> was the most frequently silenced gene in EATL (32% of cases). The JAK-STAT pathway was the most frequently mutated pathway, with frequent mutations in <i>STAT5B</i> as well as <i>JAK1</i>, <i>JAK3</i>, <i>STAT3</i>, and <i>SOCS1</i> We also identified mutations in <i>KRAS</i>, <i>TP53</i>, and <i>TERT</i> Type I EATL and type II EATL (monomorphic epitheliotropic intestinal T cell lymphoma) had highly overlapping genetic alterations indicating shared mechanisms underlying their pathogenesis. We modeled the effects of SETD2 loss in vivo by developing a T cell-specific knockout mouse. These mice manifested an expansion of γδ T cells, indicating novel roles for SETD2 in T cell development and lymphomagenesis. Our data render the most comprehensive genetic portrait yet of this uncommon but lethal disease and may inform future classification schemes.
UPPER AND LOWER BOUNDS FOR THE MINIMAL POSITIVE ENTROPY OF PURE BRAIDS (2005)

In this paper, the minimal positive entropy of pure braids is shown to be greater than log ( 2 + 5 ) , independent of the braid index. For pure 3-braids, the minimal entropy is shown to be equal to log ( 3 + 2 2 ) . 2000 Mathematics Subject Classification 37E30 (primary), 37B40 (secondary).
Analysis of kinematics of joints via three-dimensional imaging (1993)

The methodology reported here enables us to mathematically model and quantify the motion of each component bone, relative motion of bones, the contact surface of bones and their change during motion for complex joints, from a time sequence of MR image volumes acquired in vivo. Additionally, since we model the bone surfaces, we are able to display in vivo joint motion. Through a variety of new rendering techniques we are able to create realistic displays of bones from MR images and to combine these displays with the motion parameters. This approach opens an entirely new avenue for understanding true 3D joint kinetics and for the potential utilization of kinematic information for surgical planning.
Oxygenation patterns for iron(II) porphyrins. Peroxo and ferryl (FeIVO) intermediates detected by proton nuclear magnetic resonance spectroscopy during the oxygenation of (tetramesitylporphyrin)iron(II) (1984)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTOxygenation patterns for iron(II) porphyrins. Peroxo and ferryl (FeIVO) intermediates detected by proton nuclear magnetic resonance spectroscopy during the oxygenation of (tetramesitylporphyrin)iron(II)Alan L. Balch, Yee Wai Chan, Ru Jen Cheng, Gerd N. La Mar, Lechoslaw Latos-Grazynski, and Mark W. RennerCite this: J. Am. Chem. Soc. 1984, 106, 25, 7779–7785Publication Date (Print):December 1, 1984Publication History Published online1 May 2002Published inissue 1 December 1984https://pubs.acs.org/doi/10.1021/ja00337a022https://doi.org/10.1021/ja00337a022research-articleACS PublicationsRequest reuse permissionsArticle Views751Altmetric-Citations140LEARN 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 Get e-Alerts
Effect of zopiclone on sleep, night-time ventilation, and daytime vigilance in upper airway resistance syndrome (1997)

We have assessed the effects of zopiclone (7.5 mg), a new cyclopyrrolone hypnotic drug, on ventilation, sleep parameters, and daytime vigilance in snorers with upper airway resistance syndrome (UARS). Using a randomized double-blind design, eight male patients with UARS took either oral zopiclone or a placebo each evening for seven consecutive days and then crossed over to the other drug after a 7 day placebo period. Polysomnography followed by a multiple sleep latency test (MSLT) was performed during the last night of each treatment period. Zopiclone produced significant improvements in the sleep efficiency index (total sleep time/time in bed) (placebo 84+/-15% versus zopiclone 91+/-7%) and average MSLT (placebo 10.3+/-3.7 min versus zopiclone 14.9+/-2.8 min), as well as nonsignificant improvements in sleep onset latency and total sleep time. It had no effect on sleep architecture or on the arousal index (placebo 17+/-8 arousals x h(-1) versus zopiclone 17+/-4 arousals x h[-1]). Furthermore, none of the respiratory parameters were significantly affected by zopiclone. In conclusion, zopiclone has no adverse effects on sleep architecture, respiratory parameters during sleep, and daytime sleepiness in patients with UARS.
The development of a high-level synthesis system for concurrent vlsi systems (1988)

<p>The development, implementation and testing of a high-level synthesis system, for the automatic generation of concurrent VLSI systems, is described. Special attention was devoted to the following problems: the ability to implement concurrency efficiently; the application to a wide range of digital designs and the synthesis and technology mapping of combinational logic. The input to this system is a high-level functional description of the circuit to be synthesised, which may contain any configuration of sequential and parallel processes. These processes are specified in a single description and do not require to be partitioned or declared separately. This description is globally optimised by means of partitioning, compaction and local transformations, according to a dynamic programming approach. The primary optimisation goal is performance or the generation of a maximally parallel implementation. In the high-level synthesis part, this system is characterised by the use of a `no target architecture' approach, which is implemented by means of a distributed data path and a parallel controller (able to control any number of parallel processes). A technology-independent netlist of parameterised cells and Boolean equations is generated and mapped into a library-based design style. In the logic synthesis part, this system uses multiple level optimisation techniques and technology mapping algorithms to map the combinational logic, present in the design, into library cells. This mapping can be optimised for area or speed. Two distinctive features are the ability to use the more complex cells available in the library and the large degree of independence between the cell library and the synthesis algorithms. The cell library can be easily redefined by the user. These features are achieved by the use of a `string of numbers' representation for the Boolean expressions and the library cells alike, and by performing the mapping directly from the Boolean multiple level representation. The application areas of this system were greatly widened by the ability to optimise a unified parallel description, the generation of a distributed data path and a parallel controller and the use of efficient technology mapping algorithms.</p>
ChemInform Abstract: Synthesis, Crystal Structure and Characterization of Iron Pyroborate (Fe<sub>2</sub>B<sub>2</sub>O<sub>5</sub>) Single Crystals. (2009)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 200 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
ChemInform Abstract: ANTINEOPLASTIC PROPERTIES OF ARYLSULFONYLHYDRAZONES OF 3‐FORMYLPYRIDAZINE 2‐OXIDE AND 4‐FORMYLPYRIMIDINE 3‐OXIDE (1979)

Abstract Aus dem Methyl‐pyrimidin‐N‐oxid (II) erhält man über das 4‐Formyl‐N‐oxid die Hydrazone (III).
Real-time Metareasonin with Dynamic (1992)

urns @ nereid.jpl.nasa.gov This paper describes dynamic trade-off evaluation (DTE), a new technique that has been developed to improve the per-formance of real-time problem solving systems. The DTE technique is most suitable for automation environments in which the requirement for meeting time constraints is of equal importance to that of providing optimally intelligent solutions. In such environments, the demands of high input data vol-umes and short response times can rapidly overwhelm tradi-tional AI systems. DTE is based on the recognition that in time-constrained environments, compromises to optimal problem solving (in favor of timeliness) must often be made in the form of trade-offs. Towards this end, DTE combines knowledge-based techniques with decision theory to 1) dy-namically modify system behavior and 2) adapt the decision criteria that determine how such modifications are made. The performance of DTE has been evaluated in the context of sev-eral types of real-time trade-offs in spacecraft monitoring problems. One such application has demonstrated that DTE can be used to dynamically vary the data that is monitored, making it possible to detect and correctly analyze all anoma-lous data by examining only a subset of the total input data. In carefully structured experimental evaluations that use real spacecraft data and real decision making, DTE provides the ability to handle a three-fold increase in input data (in real-time) without loss of performance.
Implantable 400MHz PIFA for bio-telemetry system (2015)

A miniaturized implantable antenna, to be implanted in small animal, designed for Medical Implantable Communications Services (MICS), is presented in this paper. The proximity couple-fed technique is applied to enhance the bandwidth of the antenna to overcome the out-of-band probability of the antenna due to frequency detuning by the surrounding tissue and encapsulation. The aim of this research is to transmit the extracted physiological signals from the body of a small animal wirelessly to an external RFID reader (400MHz) connected to a computer via USB cable. The overall dimensions of the antenna are 32mm×22mm×4mm and the ground plane of RFID tag is utilized to improve the performance of the antenna. Animal tissue model has been developed and the antenna is encapsulated by a bio-compatible material before putting it in this model. Effect of encapsulation material is explored in this paper which may be utilized to retune the antenna if needed. The predicted bandwidth of the proposed implanted antenna is found as approximately 8%.
Mesenteric ischemia secondary to cocaine abuse: case reports and literature review. (1997)

In summary, we report two cases of mesenteric ischemia following cocaine abuse in young women. In such cases it is always difficult to prove a direct causal relationship between the abuse of cocaine and mesenteric ischemia. Both our patients were relatively young (in their thirties) and did not have any history of atherosclerosis, and their urine toxicity screens were positive for the use of cocaine. Cocaine-related hospital visits are on the increase. Mesenteric ischemia should be considered in the differential diagnosis when evaluating a young patient with a history of cocaine abuse presenting with an acute abdomen.
Duodenal bile acid profiles in patients with colorectal cancer or polyps (1993)

Objective To assess the detailed duodenal bile acid profile in patients with colorectal cancer or polyps compared with controls. Design Patients were matched where possible with controls excluding most factors known to affect the bile acid profile. Methods Thirty-three patients (11 in each group) had duodenal bile collected endoscopically and bile acids were measured by gas liquid chromatography. Results Patients with colorectal cancer had a higher proportion (median, range) of secondary bile acids (37.3, 24.1–50%) in their biliary bile compared with controls (25.2, 15.4–56.9%; P = 0.02; Mann—Whitney U-test) and also when compared with patients with polyps (28.2, 10.1–41.7%; P = 0.057). These differences were not significantly correlated to bowel transit time or daily stool weight. Patients with cancer had a lower proportion of cholic acid (28.7, 23–34.6%) than controls (34.3, 21.1–67.3%; P = 0.026) and patient with polyps (35.9, 28.3–51.8%; P = 0.007). The ratio of cholic acid to its metabolites was also found to be lower in the cancer group (0.54, 0.39–0.64) compared with both controls (0.61, 0.38–0.81; P = 0.03) and patients with polyps (0.64, 0.42–0.86; P = 0.012). No such differences were seen in the group with polyps compared with controls. Conclusions These results suggest that changes in the metabolism and/or absorption of bile acids may occur in patients with established colorectal cancer.
Identification of signaling pathways related to drug efficacy in hepatocellular carcinoma via integration of phosphoproteomic, genomic and clinical data (2013)

Hepatocellular Carcinoma (HCC) is one of the leading causes of death worldwide, with only a handful of treatments effective in unresectable HCC. Most of the clinical trials for HCC using new generation interventions (drug-targeted therapies) have poor efficacy whereas just a few of them show some promising clinical outcomes [1]. This is amongst the first studies where the mode of action of some of the compounds extensively used in clinical trials is interrogated on the phosphoproteomic level, in an attempt to build predictive models for clinical efficacy. Signaling data are combined with previously published gene expression and clinical data within a consistent framework that identifies drug effects on the phosphoproteomic level and translates them to the gene expression level. The interrogated drugs are then correlated with genes differentially expressed in normal versus tumor tissue, and genes predictive of patient survival. Although the number of clinical trial results considered is small, our approach shows potential for discerning signaling activities that may help predict drug efficacy for HCC.
Analysis and <i>in situ</i> observation of humidity dependent atomic layer deposited-Al2O3 degradation (2016)

The degradation of atomic layer deposited aluminum oxide (ALD-Al2O3) at high temperature and high humidity was investigated. The intrinsic hydroxyl concentration of as-deposited ALD-Al2O3 was evaluated using a temperature dependent deposition study and its impact on degradation behavior was analyzed. In addition, the degradation of ALD-Al2O3 was monitored in situ using a plate capacitor with ALD-Al2O3 as dielectric. A model for the ALD-Al2O3 degradation mechanism was proposed based on the penetration of water molecules into the ALD-Al2O3 and on the formation of aluminum hydroxide. Two parameters, delay-time (time till a change in capacitance occurs) and wetting speed (speed of molecular water penetration into the ALD-Al2O3), were extracted from the capacitance measurements in order to evaluate the dependence of ALD-Al2O3 degradation on temperature and humidity.
Experimental study of the interaction between localized and propagating surface plasmons (2009)

The interaction between localized and propagating surface plasmons is investigated in a structure consisting of a two-dimensional periodic gold nanoparticle array, an SiO2 spacer, and a gold film. The resonance wavelengths of the two types of surface plasmons supported by the structure are tailored by changing the gold nanoparticle size and the array period. An anticrossing of the resonance positions is observed in the reflection spectra, demonstrating the strong coupling between localized and propagating surface plasmons.