gebhart/patrepeval huggingface dataset:
Protein-Protein Interaction of Retinoic Acid Receptor α and Thyroid Transcription Factor-1 in Respiratory Epithelial Cells (2001)

Surfactant protein B (SP-B) is a 79-amino acid peptide critical to postnatal respiratory adaptation and is developmentally regulated. Previous studies demonstrated that retinoic acid receptors (RARs) and thyroid transcription factor 1 (TTF-1) stimulated SP-B gene expression in respiratory epithelial cells. Clustered retinoic acid-responsive element and TTF-1 binding sites were identified in the enhancer region of the SP-B gene and were required for retinoic acid stimulation of the human SP-B (hSP-B) promoter. In addition, RAR and TTF-1 were colocalized in mouse bronchiolar and alveolar type II epithelial cells, the cellular site of SP-B synthesis. In the present studies, RAR and TTF-1 were colocalized in the nucleus of H441 cells. RAR and TTF-1 synergistically stimulated the hSP-B promoter in H441 cells. Direct protein-protein interactions between RAR and TTF-1 were demonstrated by the glutathione S-transferase pull-down assay and the mammalian cell two hybrid assay. Truncation/deletion studies showed that the RAR-TTF-1 interaction was mediated through the RAR DNA binding domain (DBD) and the TTF-1 homeodomain. RAR DBD greatly enhanced TTF-1 homeodomain DNA binding activity to a hSP-B enhancer oligonucleotide, in which retinoic acid-responsive element and TTF-1 DNA binding sites overlap. Chromatin immunoprecipitation assay demonstrated that retinoic acid treatment of H441 cells greatly stimulated both RAR and TTF-1 DNA binding to the hSP-B enhancer region in H441 cells. These findings support a model in which RAR/retinoid X receptor, TTF-1, and coactivators (p160 members and CBP) form an enhanceosome in the enhancer region of the hSP-B gene.
Reviews (1969)

Reviews Get access WILLS, ADMINISTRATIONS AND INVENTORIES WITH THE WINCHESTER DIOCESAN RECORDS , with an Introduction by Arthur J. Willis . Published by A. J. Willis , Hambleden , Lyminge, Folkestone, Kent ; pp. 94 ; 30s M. H. PORT M. H. PORT Search for other works by this author on: Oxford Academic Google Scholar Notes and Queries, Volume 16, Issue 2, February 1969, Pages 78-a–78, https://doi.org/10.1093/nq/16-2-78a Published: 01 February 1969
RNA interference: a multifaceted innate antiviral defense (2008)

The RNA interference mechanism utilizes short RNA duplexes to either suppress or induce target gene expression. Post-transcriptional regulation mediated by microRNA is an integral component of innate antiviral defense. The magnitude and the efficiency of viral restriction guided by RNA-based defenses, as well as the full physiological implication of host-pathogen engagement, constitute exciting areas of investigation in the biology of non-coding RNAs.
Improving visibility depth in passive underwater imaging by use of polarization (2003)

Results are presented that demonstrate the effectiveness of using polarization discrimination to improve visibility when imaging in a scattering medium. The study is motivated by the desire to improve visibility depth in turbid environments, such as the sea. Most previous research in this area has concentrated on the active illumination of objects with polarized light. We consider passive or ambient illumination, such as that deriving from sunlight or a cloudy sky. The basis for the improvements in visibility observed is that single scattering by small particles introduces a significant amount of polarization into light at scattering angles near 90 degrees: This light can then be distinguished from light scattered by an object that remains almost completely unpolarized. Results were obtained from a Monte Carlo simulation and from a small-scale experiment in which an object was immersed in a cell filled with polystyrene latex spheres suspended in water. In both cases, the results showed an improvement in contrast and visibility depth for obscuration that was due to Rayleigh particles, but less improvement was obtained for larger scatterers.
Sliced linear zone plates for hard X-ray radiation (2012)

Linear zone plates for hard (E > 10 keV) X rays are considered. The technology of the plates includes cutting magnetron-sputtered W5Si3/Si multilayer coatings. The results of numerical computation suggest that this pair of materials provides a high efficiency in the first and second diffraction orders. It is found experimentally that good multilayer structures consisting of several hundreds of layers can be synthesized on silicon and glass substrates. It is shown that they can be cut by ion etching the multilayer coating through a mask.
Arboviruses and the Challenge to Establish Systemic and Persistent Infections in Competent Mosquito Vectors: The Interaction With the RNAi Mechanism (2019)

Arboviruses are capable to establish long-term persistent infections in mosquitoes that do not affect significantly the physiology of the insect vectors. Arbovirus infections are controlled by the RNAi machinery via the production of viral siRNAs and the formation of RISC complexes targeting viral genomes and mRNAs. Engineered arboviruses that contain cellular gene sequences can therefore be transformed to "viral silencing vectors" for studies of gene function in reverse genetics approaches. More specifically, "ideal" viral silencing vectors must be competent to induce robust RNAi effects while other interactions with the host immune system should be kept at a minimum to reduce non-specific effects. Because of their inconspicuous nature, arboviruses may approach the "ideal" viral silencing vectors in insects and it is therefore worthwhile to study the mechanisms by which the interactions with the RNAi machinery occur. In this review, an analysis is presented of the antiviral RNAi response in mosquito vectors with respect to the major types of arboviruses (alphaviruses, flaviviruses, bunyaviruses, and others). With respect to antiviral defense, the exo-RNAi pathway constitutes the major mechanism while the contribution of both miRNAs and viral piRNAs remains a contentious issue. However, additional mechanisms exist in mosquitoes that are capable to enhance or restrict the efficiency of viral silencing vectors such as the amplification of RNAi effects by DNA forms, the existence of incorporated viral elements in the genome and the induction of a non-specific systemic response by Dicer-2. Of significance is the observation that no major "viral suppressors of RNAi" (VSRs) seem to be encoded by arboviral genomes, indicating that relatively tight control of the activity of the RNA-dependent RNA polymerase (RdRp) may be sufficient to maintain the persistent character of arbovirus infections. Major strategies for improvement of viral silencing vectors therefore are proposed to involve engineering of VSRs and modifying of the properties of the RdRp. Because of safety issues (pathogen status), however, arbovirus-based silencing vectors are not well suited for practical applications, such as RNAi-based mosquito control. In that case, related mosquito-specific viruses that also establish persistent infections and may cause similar RNAi responses may represent a valuable alternative solution.
Cell Collective: Learning biology with modeling and simulations (2020)

Cell Collective is an online, research-grade modeling platform adapted to engage students in creating and simulating dynamic models of biological processes.
Flip-flop hardening for space applications (2002)

The purpose of this work is to design a flip-flop hardened to Single Event Upset (SEU) for space radiation environment. The design hardening technique is based on the use of two D-latch hardened both to static and dynamic SEU by the concepts of high impedance state and nMOS feedback.
Supporting Data - Niobium Tungsten Oxides for High-rate Lithium-ion Energy Storage (2018)

Supporting data for "Niobium Tungsten Oxides for High-rate Lithium-ion Energy Storage". Experimental details are given in the article.
A new performance evaluation technique for iteratively decoded magnetic recording systems (2005)

This paper proposes a performance evaluation technique for iteratively (turbo) equalized magnetic recoding systems. The technique decomposes the bit-error rate (BER) function into an integral of two functions. The first function has a closed form expression and is determined by the characteristics of the noise. The second function depends on the parameters of the concatenated system and can be approximated using an interpolation between sample points that rely on a small number of simulations. We present numerical and simulated BER results for coded PR4 and EPR4 channels with turbo equalization. In the "waterfall region" of the BER curves, the calculated and simulated results are within about 0.1 dB.
Biochemical Plant Responses to Ozone (IV. Cross-Induction of Defensive Pathways in Parsley (Petroselinum crispum L.) Plants) (1994)

Parsley (Petroselinum crispum L.) is known to respond to ultraviolet irradiation by the synthesis of flavone glycosides, whereas fungal or elicitor stress leads to the synthesis of furanocoumarin phytoalexins. We tested how these defensive pathways are affected by a single ozone treatment (200 nL L-1; 10 h). Assays were performed at the levels of transcripts, for enzyme activities, and for secondary products. The most rapid transcript accumulation was maximal at 3 h, whereas flavone glycosides and furanocoumarins were maximally induced at 12 and 24 h, respectively, after the start of ozone treatment. Ozone acted as a cross-inducer because the two distinct pathways were simultaneously induced. These results are consistent with the previously observed ozone induction of fungal and viral defense reactions in tobacco, spruce, and pine.
Electronic differential for tramcar bogies: system development and performance evaluation by means of numerical simulation (2014)

The dynamic behaviour of railway vehicles depends on the wheelset configuration, i.e. solid axle wheelset or independently rotating wheels (IRWs). The self-centring behaviour, peculiar of the solid axle wheelset, makes this kind of wheelset very suitable for tangent track running at low speed: the absence of the self-centring mechanism in the IRWs may lead to anomalous wheel/rail wear, reduced vehicle safety and passengers’ discomfort. On the contrary, during negotiation of the sharp curves typical of urban tramways, solid axle wheelsets produce lateral contact forces higher than those of IRWs. This paper illustrates an electronic differential system to be applied to tramcar bogies equipped with wheel-hub motors which allows switching from solid axle in tangent track to IRWs in sharp curve (and vice versa). An electro-mechanical vehicle model is adopted for the design of the control system and for the evaluation of the vehicle dynamic performances.
Doxycycline induces apoptosis in PANC-1 pancreatic cancer cells. (2009)

These data suggest that doxycycline exerts its antitumor effect by activating proapoptotic genes, inhibiting IL-8 expression, and suppressing antiapoptotic genes.
Parallel overexpression of seven kallikrein genes in ovarian cancer. (2003)

Recent evidence suggests that many members of the human kallikrein (KLK) gene family are differentially regulated in ovarian cancer and have potential as diagnostic and/or prognostic markers. We used the serial analysis of gene expression and expressed sequence tag databases of the Cancer Genome Anatomy Project to perform in silico analyses of the expression pattern of the 15 human KLK genes in normal and cancerous ovarian tissues and cell lines. We found that seven KLK genes (KLK5, KLK6, KLK7, KLK8, KLK10, KLK11, and KLK14) are up-regulated in ovarian cancer. Probing 2 normal and 10 ovarian cancer serial analysis of gene expression libraries with gene-specific tags for each KLK indicated that whereas no expression was detected in any normal libraries (with the exception of KLK10 and KLK11), these KLKs were found to be expressed with moderate densities (103-408 tags per million) in 40-60% of the ovarian cancer libraries analyzed. These data were verified by screening the expressed sequence tag databases, where 78 of 79 mRNA clones isolated for these genes were from ovarian cancer libraries. X-profiler comparison of the pools of normal and cancerous ovaries identified a significant difference in expression levels for six of the seven KLKs. We experimentally verified the overexpression of six KLK proteins in cancer versus normal or benign tissues with highly sensitive and specific immunofluorometric assays. A statistically significant stepwise increase in protein levels was found among normal, benign, and cancerous ovarian tissues. The expression of five KLKs showed a strong degree of correlation at the protein level, suggesting the existence of a common mechanism or pathway that controls the expression of this group of adjacent genes during ovarian cancer progression.
Efficient bayesian hierarchical user modeling for recommendation system (2007)

A content-based personalized recommendation system learns user specific profiles from user feedback so that it can deliver information tailored to each individual user's interest. A system serving millions of users can learn a better user profile for a new user, or a user with little feedback, by borrowing information from other users through the use of a Bayesian hierarchical model. Learning the model parameters to optimize the joint data likelihood from millions of users is very computationally expensive. The commonly used EM algorithm converges very slowly due to the sparseness of the data in IR applications. This paper proposes a new fast learning technique to learn a large number of individual user profiles. The efficacy and efficiency of the proposed algorithm are justified by theory and demonstrated on actual user data from Netflix and MovieLens.
Preparation and properties of nanoparticles of calcium phosphates with various Ca/P ratios (2010)

This study aimed at preparing and studying the properties of nanoparticles of calcium phosphate (nCaP) with Ca/P ratios ranging from 1.0 to 1.67 using a spray-drying technique. Micro-structural analyses suggested that the nCaPs with Ca/P ratios of 1.67 to 1.33 were nano-sized amorphous calcium phosphate (ACP) containing varying amounts of acid phosphate and carbonate. The nCaP with Ca/P ratio of 1 contained only nano-sized low crystalline dicalcium phosphate (DCP). BET measurements of the nCaPs showed specific surface areas of (12 ± 2 to 50 ± 1) m(2)/g, corresponding to estimated equivalent spherical diameters of (38 to 172) nm. However, dynamic light scattering measurements revealed much larger particles of (380 ± 49 to 768 ± 111) nm, owing to agglomeration of the smaller primary nano particles as revealed by Scanning Electron Microscopy (SEM). Thermodynamic solubility measurements showed that the nCaPs with Ca/P ratio of 1.33 - 1.67 all have similar solubility behavior. The materials were more soluble than the crystalline hydroxyapatite (HA) at pH greater than about 4.7, and more soluble than β-tricalcium phosphate (β-TCP), octacalcium phosphate (OCP) and DCP at pH above 5.5. Their solubility approached that of α-tricalcium phosphate (α-TCP) at about pH 7. These nCaPs, which cannot be readily prepared by other currently available methods for nanoparticle preparation, have potential biomedical applications.
Development of a Three-Dimensional Bird's-eye View Map Drawing Technique for Car Navigation Systems (1998)

&lt;div class="htmlview paragraph"&gt;In this paper, a newly developed three-dimensional (3D) bird's-eye view map drawing technique for car navigation systems is described. Conventional navigation systems give pseudo-perspective views which can not express ruggedness like hills and valleys. Our newly developed navigation system can display undulation of the land from viewpoints above and behind the current position, so that ups and downs of roads along with the driver's destination can be seen easily. The 3D-road map is not only effective during navigation but also during route planning, because it assists in searching for fine views before travel.&lt;/div&gt; &lt;div class="htmlview paragraph"&gt;In order to achieve the 3D-map view, we developed graphics software libraries, which work on a 32-bit RISC processor and on a low-cost graphics accelerator LSI with texture mapping capability. The graphics software libraries are constructed with three stages, the perspective projection stage, visible-surface determination stage, and rendering stage. In the perspective projection stage, 3D objects are projected onto a two-dimensional projection plane quickly. In the visible-surface determination stage, the background rectangles generated by the digital elevation model and polyline data of the road map are selected in the order of row-by-row or column-by-column so that a simple painter's algorithm can be applied. This algorithm can be implemented without additional memories or specialized hardware. In the rendering stage, the background rectangles are rendered by the determined color based on height. To eliminate intensity discontinuities at the rectangle edge, the background rectangles are shaded smoothly. This process is implemented by using texture mapping which works on the graphics accelerator LSI quickly.&lt;/div&gt;
The relationship of microRNAs to clinical features of Huntington's and Parkinson's disease (2016)

MicroRNAs (miRNAs) represent a major system of post-transcriptional regulation, by either preventing translational initiation or by targeting messenger RNA transcripts for storage or degradation. miRNA deregulation has been reported in neurodegenerative disorders, such as Huntington’s disease (HD) and Parkinson’s disease (PD), which may impact gene expression and modify disease progression and/or severity. To assess the relationship of miRNA levels to HD, small RNA sequence analysis was performed for 26 HD and 36 non-disease control samples derived from human prefrontal cortex. 75 miRNAs were differentially expressed in HD brain as compared to controls at genome-wide significance (FDR q&lt;0.05). Among HD brains, nine miRNAs were significantly associated with the extent of neuropathological involvement in the striatum and three of these significantly related to a continuous measure of striatal involvement, after statistical adjustment for the contribution of HD gene length. Five miRNAs were identified as having a significant, inverse relationship to age of motor onset, in particular, miR-10b-5p, the mostly strongly over-expressed miRNA in HD cases. Although prefrontal cortex was the source of tissue profiled in these studies, the relationship of miR-10b-5p levels to striatal involvement in the disease was independent of cortical involvement. In blood plasma from 26 HD, 4 asymptomatic HD gene carriers and 8 controls, miR-10b-5p levels were significantly elevated in HD as compared to non-diseased and preclinical HD subjects, demonstrating that miRNA alterations associated with diseased brain may be detected peripherally. Using small RNA sequence analysis for 29 PD brains, 125 miRNAs were identified as differentially expressed at genome-wide significance (FDR q&lt;0.05) in PD versus controls. A set of 29 miRNAs accurately classified PD from non-diseased brain (93.9% specificity, 96.6% sensitivity, 4.8% absolute error). In contrast to HD, among PD cases, miR-10b-5p was significantly decreased and had a significant, positive association to onset age independent of age at death. These studies provide a detailed miRNA profile for HD and PD brain, identify miRNAs associated with disease pathology and suggest miRNA changes observed in brain can be detected in blood. Together, these findings support the potential of miRNA biomarkers for the diagnosis and assessment of progression for neurodegenerative diseases.
Alterations of Gluconeogenesis by Ischemic Renal Injury in Rats (1992)

This study was designed to determine changes in one metabolic function, gluconeogenesis (GLG), after ischemic renal injury. Tubule suspensions were prepared by collagenase treatment of SD rat kidneys on 1, 3, and 7 days after left renal artery and vein occlusion for 0-90 min and incubated in Krebs-Henseleit buffer with or without 2 mM pyruvate or malate aerobically. Glucose contents were assayed photometrically. On days 1 and 3 after ischemia for longer than 60 min, serum creatinine levels rose significantly. The tendency of increase of GLG was observed on days 1 and 3 after 10-60 min of ischemia. GLG increased significantly on day 1 after 30-min ischemia. On the other hand, GLG decreased significantly on day 1 after 90-min treatment. Morphologic damage was limited to the corticomedullary region on days 1 and 3 after ischemic times of 30 and 60 min. These results suggest that renal GLG is stimulated to supply energy for ATP decrease by ischemia and for further regeneration in extraproximal segments along the nephron.
Preliminary identification of areas subject to construction bans under the Clean Air Act and analysis of related issues. Final report (1983)

Geographical areas potentially and likely to be subject to a construction ban for failure to attain air quality standards by the end of 1982 as set forth in the Clean Air Act are identified. An estimated 146 countries, or portions of counties, are likely to be subject to the construction ban based on criteria under consideration by EPA in December 1982. This figure includes the 76 countries currently subject to the construction ban. Based on discussions with state air pollution agency personnel in all 50 states and EPA regional and national staff, the impacts of the sanctions are not likely to affect energy facilities significantly. This conclusion is supported by both a review of the relevant literature and an analysis of the collected data. This report also identifies and briefly discusses several legal, regulatory, and policy issues which relate to factors influencing the degree to which energy facilities could be impacted by Clean Air Act sanctions.
National population-based reference data for the Hip Disability and Osteoarthritis Outcome Score (HOOS) (2023)

This study provides reference values for the HOOS and its short form HOOS-12. Results show that older patients and patients with a BMI over 40 have worse HOOS and HOOS-12 scores that may be of clinical importance in the interpretation of scores both when evaluating potential for improvement and post-treatment results.
Adaptive Support Ventilation (ASV). (2002)

Adaptive Support Ventilation is a novel ventilation mode, a closed-loop control mode that may switch automatically from a PCV-like behaviour to an SIMV-like or PSV-like behaviour, according to the patient status. The operating principles are based on pressure-controlled SIMV with pressure levels and SIMV rate automatically adjusted according to measured lung mechanics at each breath. ASV provided a safe and effective ventilation in patients with normal lungs, restrective or obstructive diseases. In cardiac surgery tracheal extrubation was faster in ASV patients then in controls. In the early weaning phase of acute ventilatory insufficiency the need of resetting ventilator parameters was decreased, suggesting potential benefit for patient care.