gebhart/patrepeval huggingface dataset:
Ontological self-organizing maps for cluster visualization and functional summarization of gene products using Gene Ontology similarity measures (2008)

This paper presents an ontological self-organizing map (OSOM), which is used to produce visualization and functional summarization information about gene products using gene ontology (GO) similarity measures. The OSOM is an extension of the self-organizing map as initially developed by Kohonen, which trains on data composed of sets of terms. Term-based similarity measures are used as a distance metric as well as in the update of the OSOM training procedure. We present an OSOM-based visualization method that shows the cluster tendency of the gene products. Also demonstrated is an OSOM-based functional summarization which produces the most representative term(s) (MRT) from the GO for each OSOM prototype and, subsequently, each gene product cluster. We validated the results of our method by applying the OSOM to a well-studied set of gene products.
Telemedicine Use Among Physiatrists During the Early Phase of the COVID-19 Pandemic and Potential for Future Use (2022)

<b>Introduction:</b> With the coronavirus disease 2019 (COVID-19) pandemic causing the need for social distancing, telemedicine saw a significant increase in use to provide routine medical care. As a field, physiatry had already been implementing telemedicine prior to the pandemic. In this study, we characterized the use of telemedicine among physiatrists during the early phase of the COVID-19 pandemic to understand the barriers and facilitators to implementing telemedicine use in the field of physiatry in the future. <b>Methods:</b> Online survey of a cross-sectional sample of physiatrists. Analysis was conducted using logistic regression. <b>Results:</b> One hundred seventy one (<i>n</i> = 171) participants completed the survey. Before the pandemic, only 17.5% of respondents used telemedicine. In the logistic regression, physicians who used a hospital-provided platform were more likely to use telemedicine in the future compared with those who used their own secure platform, conducted a phone visit, and used a non-secure platform or other platforms. The three most popular barriers identified were "inability to complete the physical examination," "patients lack of access to technology," and "patients lack of familiarity with the technology." <b>Discussion:</b> Focus on education on telemedicine functional examination strategies and technology strategies for patients and providers (including addressing the digital divide and hospital-provided secure platforms) are potential targets of implementation strategies for greater telemedicine uptake for physiatrists in the future.
Thermo-optical and -mechanical parameters of Nd:GdVO4 and Nd:YVO4 (2007)

We measured thermal conductivity, thermal expansion coefficient, and thermal refractive index coefficient of Nd:GdVO4 and Nd:YVO4. Superiority comparisons of laser media under high power laser operations were also discussed from the viewpoints of thermal characteristics.
Degradation characteristics of poly(ϵ‐caprolactone)‐based copolymers and blends (2006)

Abstract The hydrolytic degradation of various bioresorbable copolymers and blends derived from ϵ‐caprolatcone, D,L ‐lactide and poly(ethylene glycol) (PEG) was investigated at 37°C in a pH 7.4 phosphate buffer. Poly(ϵ‐caprolatcone) (PCL) followed a slow degradation profile due to its hydrophobicity and crystallinity. The hydrophilicity and degradability of the materials can be improved by copolymerization with PEG and/or poly‐( D,L ‐lactide) (PLA). Homogenous degradation was shown in the cases of PCL, PCL/PEG copolymers and their blends, whereas PLA‐containing copolymers followed a heterogenous degradation due to internal autocatalysis. It was also shown that PCL‐based materials gradually turned to PCL‐enriched residues during degradation due to preferential hydrolysis of PLA segments and to diffusion of soluble species such as PLA oligomers and detached PEG blocks bearing short PLA segments. The results are discussed in comparison with literature data. © 2006 Wiley Periodicals, Inc. J Appl Polym Sci 102: 1681–1687, 2006
Progress and Applications of Laser Plasmas Accelerators (2005)

Get PDF Email Share Share with Facebook Tweet This Post on reddit Share with LinkedIn Add to CiteULike Add to Mendeley Add to BibSonomy Get Citation Copy Citation Text V. Malka, J. Faure, and Y. Glinec, "Progress and Applications of Laser Plasmas Accelerators," in Frontiers in Optics, OSA Technical Digest Series (Optica Publishing Group, 2005), paper JTuB1. Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article
Estrogen-Induced Activation of Mammalian Target of Rapamycin Is Mediated via Tuberin and the Small GTPase Ras Homologue Enriched in Brain (2006)

Inhibitors of the mammalian target of rapamycin (mTOR) are currently in clinical trials for the treatment of breast cancer. The mechanisms through which mTOR are activated in breast cancer and the relationship of mTOR activation to steroid hormones, such as estrogen, that are known to influence breast cancer pathogenesis, are not yet understood. Using MCF-7 cells as a model, we found that 17-beta estradiol (E(2)) rapidly increased the phosphorylation of downstream targets of mTOR: p70 ribosomal protein S6 kinase, ribosomal protein S6, and eukaryotic initiation factor 4E-binding protein 1. The phosphoinositide-3-kinase inhibitor, wortmannin, and the mTOR inhibitor, rapamycin, blocked E(2)-induced activation of p70 ribosomal protein S6 kinase. We hypothesized that tuberin and the small GTPase Ras homologue enriched in brain (Rheb), regulators of the mTOR pathway, mediate E(2)-induced activation of mTOR. Consistent with this hypothesis, E(2) rapidly (within 5 minutes) stimulated tuberin phosphorylation at T1462, a site at which Akt phosphorylates and inactivates tuberin. E(2) also rapidly decreased the inactive, GDP-bound form of Rheb. Finally, we found that small interfering RNA down-regulation of endogenous Rheb blocked the E(2)-stimulated proliferation of MCF-7 cells, demonstrating that Rheb is a key determinant of E(2)-dependent cell growth. Taken together, these data reveal that the TSC/Rheb/mTOR pathway plays a critical role in the regulation of E(2)-induced proliferation, and highlight Rheb as a novel molecular target for breast cancer therapy.
Neointimal formation in two apolipoprotein E-deficient mouse strains with different atherosclerosis susceptibility (2004)

C57BL/6 (B6) and C3H/HeJ (C3H) are two commonly used mouse strains that differ markedly in atherosclerosis susceptibility. In this study, we determined plaque formation after removal of the endothelium in the two strains carrying the mutant apolipoprotein E gene (apoE(-/-)). At 10 weeks of age, male B6.apoE(-/-) and C3H.apoE(-/-) mice underwent endothelial denudation of the left common carotid artery. Two weeks after injury, B6.apoE(-/-) mice developed significantly larger neointimal lesions in the vessel than their C3H.apoE(-/-) counterparts, although they had comparable plasma cholesterol levels on a chow diet. Feeding of a Western diet aggravated lesion formation in both strains, but the increase was more dramatic in B6.apoE(-/-) mice than in C3H.apoE(-/-) mice. Immunohistochemical and histological analyses demonstrated the presence of macrophage foam cells in neointimal lesions. We then compared neointimal growth in F1 mice reconstituted with bone marrow from B6.apoE(-/-) and C3H.apoE(-/-) mice. No significant lesions were observed 2 weeks after endothelial denudation in the mice reconstituted with bone marrow from either donor. Thus, these data indicate that foam cell formation contributes to neointimal growth in the hyperlipidemic apoE(-/-) model and that neither endothelial cells nor blood cells alone explain the dramatic difference between B6 and C3H mice in plaque formation.
The simultaneous addition of styrene maleic anhydride copolymer and multiwall carbon nanotubes during melt‐mixing on the morphology of binary blends of polyamide6 and acrylonitrile butadiene styrene copolymer (2014)

The effect of simultaneous addition of multiwall carbon nanotubes (MWNTs) and a reactive compatibilizer (styrene maleic anhydride copolymer, SMA) during melt‐mixing on the phase morphology of 80/20 (wt/wt) PA6/ABS blend has been investigated. Morphological analysis through scanning and transmission electron microscopic analysis revealed finer morphology of the blends in presence of SMA + MWNTs. Fourier transform infrared spectroscopic analysis indicated the formation of imide bonds during melt‐mixing. Non‐isothermal crystallization studies exhibited the presence of a majority faction of MWNTs in the PA6 phase of 80/20 (wt/wt) PA6/ABS blend in presence of SMA + MWNTs. Rheological analysis, dynamic mechanical thermal analysis, and thermogravimetric analysis have demonstrated the compatibilization action of simultaneous addition of a reactive compatibilizer (SMA copolymer) and MWNTs in PA6/ABS blends. An attempt has been made to investigate the role of simultaneous addition of SMA copolymer and MWNTs on the morphology of 80/20 (wt/wt) PA6/ABS blend through various characterization techniques. POLYM. ENG. SCI., 55:457–465, 2015. © 2014 Society of Plastics Engineers
An Introductory Study of House Spiders (Araneae) in Belgium (2016)

More than 800 spiders were collected in 43 houses heated in winter, distributed mainly in the northern part of Belgium. Information required for the collections to be eligible for the project was: address, construction year, type of house, and surroundings. The spiders were qualified as ‘house spiders’ or ‘garden spiders’. Of the 93 species collected, 19 could be defined as house spiders. Pholcus phalangioides was the most common, followed by Eratigena atrica and Steatoda triangulosa. Garden spiders enter the house much more often in houses in a rural environment than in those situated in clusters, and mainly in spring. The spiders are most common in autumn when many of them are breeding. The common house spiders colonize houses shortly after their construction.
Optical Fiber Cavity Ring Down Measurement of Refractive Index With a Microchannel Drilled by Femtosecond Laser (2009)

A microchannel was inscribed in the fiber of a ring cavity which was constructed using two 0.1% : 99.9% couplers and a 10-m fiber loop. Cavity ring down spectroscopy was used to measure the refractive index (RI) of gels infused into the microchannel. The ring down time discloses a nonlinear increase with respect to RI of the gel and sensitivity up to 300 mus/RI unit and an index resolution of 1.4 times10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-4</sup> was obtained.
An Extended Role-based Access Controls Model: Temporal, Spatial, Workflowed and Attributed Role-based Access Controls Model (2010)

According to the respective advantages of RBAC model and UCON model, Subject, Object, Role, Permission and Operation are all regarded as the instance of the class with attributes and methods on object-oriented programming, role-based access control model with the constraints of Temporal, spatial, attribute and workflow (TSAW-RBAC model) is proposed, the Observer Entity is introduced that assigns the operations to the Object according to the attributes of the Object and the Supervisor Entity is introduced that assigns the roles to the user according to the attributes of the user. It Can implement access control based on temporal and spatial constraints in the distributed computing environment, can implement user's role-assign automatically based on Subject's attributes and object's attributes, can implement workflow based on the constraints of Subject's attributes and object's attributes, can implement the Digital Rights Management (DRM) and Trust Management.
Creation of web-based interactive virtual experiments on microelectronics for early engineering students (2003)

One of the greatest challenges to attracting and retaining early engineering students is the lack of "hands-on" experiences early in the university curriculum. This paper describes a project aimed at introducing early university students to the high-tech field of microelectronics through the use of web-based "virtual experiments". The website allows for exploration of microelectronics at levels ranging from underlying science, device physics, processes and processing tools. New pages even recreate the layout and operation of an actual microelectronics factory site. Virtual reality is also used to support a real university lab in which a student can fabricate actual devices in a few short lab sessions. The web material is presented in an intuitive and highly visual 3D form that is accessible to a diverse group of students. It has already been tested with high school science students, engineering students, and graduate business students. This paper describes the modules developed as well as the tools used.
Skin Antiageing and Systemic Redox Effects of Supplementation with Marine Collagen Peptides and Plant‐Derived Antioxidants: A Single‐Blind Case‐Control Clinical Study (2016)

Recently, development and research of nutraceuticals based on marine collagen peptides (MCPs) have been growing due to their high homology with human collagens, safety, bioavailability through gut, and numerous bioactivities. The major concern regarding safety of MCPs intake relates to increased risk of oxidative stress connected with collagen synthesis (likewise in fibrosis) and to ROS production by MCPs-stimulated phagocytes. In this clinical-laboratory study, fish skin MCPs combined with plant-derived skin-targeting antioxidants (AO) (coenzyme Q10 + grape-skin extract + luteolin + selenium) were administered to volunteers (n = 41). Skin properties (moisture, elasticity, sebum production, and biological age) and ultrasonic markers (epidermal/dermal thickness and acoustic density) were measured thrice (2 months before treatment and before and after cessation of 2-month oral intake). The supplementation remarkably improved skin elasticity, sebum production, and dermal ultrasonic markers. Metabolic data showed significant increase of plasma hydroxyproline and ATP storage in erythrocytes. Redox parameters, GSH/coenzyme Q10 content, and GPx/GST activities were unchanged, while NO and MDA were moderately increased within, however, normal range of values. Conclusions. A combination of MCPs with skin-targeting AOs could be effective and safe supplement to improve skin properties without risk of oxidative damage.
A new MOSFET & IGBT gate drive insulated by a piezoelectric transformer (2002)

In this paper, a new gate drive for MOSFET'S and IGBT'S is presented based on the use of a piezoelectric transformer. The characterisation of the transformer and the analysis of the energy transferred to the grid of the transistor are achieved in order to determine the optimal physical structure of the transformer. Satisfactory results have been obtained in driving a 6A/100V/10kHz chopper.
Impatient Online Matching (2018)

We investigate the problem of Min-cost Perfect Matching with Delays (MPMD) in which requests are pairwise matched in an online fashion with the objective to minimize the sum of space cost and time cost. Though linear-MPMD (i.e., time cost is linear in delay) has been thoroughly studied in the literature, it does not well model impatient requests that are common in practice. Thus, we propose convex-MPMD where time cost functions are convex, capturing the situation where time cost increases faster and faster. Since the existing algorithms for linear-MPMD are not competitive any more, we devise a new deterministic algorithm for convex-MPMD problems. For a large class of convex time cost functions, our algorithm achieves a competitive ratio of O(k) on any k-point uniform metric space. Moreover, our deterministic algorithm is asymptotically optimal, which uncover a substantial difference between convex-MPMD and linear-MPMD which allows a deterministic algorithm with constant competitive ratio on any uniform metric space.
Frustrated Rotator Crystals and Glasses of Brownian Pentagons (2009)

Two-dimensional Brownian dispersions of microscale pentagonal platelets exhibit rich structural and dynamical behavior as the particle area fraction, phi(A), is increased. As phi(A) is raised above 0.66, a rotator crystal forms, and while in an equilateral hexagonal lattice, pentagons still explore all angles as they rotationally diffuse. At larger phi(A), the interference of the tips of neighboring pentagons causes rotational dynamical heterogeneity; particle rotations become nonergodic, the hallmark of a frustrated rotator crystal. Upon further compression, the quenched-in rotational disorder and inability of pentagons to fully tile a flat plane creates spatial defects, precluding access to a dense striped crystalline packing.
A delayed fractionated dose RTS,S AS01 vaccine regimen mediates protection via improved T follicular helper and B cell responses (2020)

Malaria-071, a controlled human malaria infection trial, demonstrated that administration of three doses of RTS,S/AS01 malaria vaccine given at one-month intervals was inferior to a delayed fractional dose (DFD) schedule (62.5% vs 86.7% protection, respectively). To investigate the underlying immunologic mechanism, we analyzed the B and T peripheral follicular helper cell (pTfh) responses. Here, we show that protection in both study arms was associated with early induction of functional IL-21-secreting circumsporozoite (CSP)-specific pTfh cells, together with induction of CSP-specific memory B cell responses after the second dose that persisted after the third dose. Data integration of key immunologic measures identified a subset of non-protected individuals in the standard (STD) vaccine arm who lost prior protective B cell responses after receiving the third vaccine dose. We conclude that the DFD regimen favors persistence of functional B cells after the third dose.
Bioconjugated silica nanoparticles: Development and applications (2008)

Advanced bioanalysis, including accurate quantitation, has driven the need to understand biology and medicine at the molecular level. Bioconjugated silica nanoparticles have the potential to address this emerging challenge. Particularly intriguing diagnostic and therapeutic applications in cancer and infectious disease as well as uses in gene and drug delivery, have also been found for silica nanoparticles. In this review, we describe the synthesis, bioconjugation, and applications of silica nanoparticles in different bioanalysis formats, such as selective tagging, barcoding, and separation of a wide range of biomedically important targets. Overall, we envisage that further development of these nanoparticles will provide a variety of advanced tools for molecular biology, genomics, proteomics and medicine.
ChemInform Abstract: Asymmetric Synthesis of (2S,4R)‐4‐Hydroxypipecolic Acid. (2000)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 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.
Intermetallic Compound Nanoparticles Dispersed on the Surface of Oxide Support as Active and Selective Catalysts (2015)

Preparation of nanoparticles of intermetallic compounds and their application to various catalytic reactions are summarized. On the surface of silica support, single-phase nanoparticles of intermetallics with various combinations of elements were obtained by co-impregnation and/or successive impregnation procedures. On alumina support, its strong interaction with metal species requires another preparation procedure, liquid-phase reduction, to obtain intermetallic nanoparticles with high phase purity. Most of the particles formed on both supports had diameters of 3∼20 nm. Thus prepared intermetallic nanoparticles were used as catalysts for various reactions such as H2-D2 equilibration, selective hydrogenation, dehydrogenation, oxidation and isomerization. The catalytic activity and selectivity of nanoparticles differed from each other depending on the combination and composition of two elements. In some cases, the intermetallic catalysts gave much higher activity and/or selectivity than their component monometallic catalysts. The unique catalytic properties of intermetallic compounds were discussed in terms of the electronic and geometric factors compared with pure metals.
Combined Impact of Pre-sensitization and Delayed Graft Function on Allograft Rejection in Deceased Donor Kidney Transplantation: Nationwide Cohort Study (2021)

Abstract The aim of this study is to investigate whether or not delayed graft function (DGF) and pre-transplant sensitization has a synergistic adverse effect on allograft outcome after deceased donor kidney transplantation (DDKT) using the Korean Organ Transplantation Registry (KOTRY) database, the nationwide prospective cohort. The study included 1,370 cases between May 2014 and June 2019. The cases were divided into 4 subgroups according to pre-sensitization and the development of DGF post-transplant (non-pre-sensitized-DGF(-)(n=1100), non-pre-sensitized-DGF(+)(n=133), pre-sensitized-DGF(-)(n=116), and pre-sensitized-DGF(+)(n=21)). We compared the incidence of biopsy-proven allograft rejection (BPAR), time-related change in allograft function, allograft or patient survival, and post-transplant complications across 4 subgroups. The incidence of overall BPAR and acute antibody-mediated rejection (ABMR) was significantly higher in the pre-sensitized-DGF(+) subgroup than in other 3 subgroups. In addition, multivariable cox regression analysis demonstrated that pre-sensitization combined with DGF is an independent risk factor for both overall BPAR (hazard ratio 3.253, p = 0.005) and acute ABMR (hazard ratio 7.589, p &lt; 0.001). Moreover, DGF and pre-sensitization showed significant interaction. Pre-sensitization combined with DGF did not show significant impact on allograft function, and allograft or patient survival. In conclusion, pre-sensitization and DGF had a synergistic adverse impact on allograft rejection after DDKT.
The yeast SWISS‐2DPAGE database (1996)

The systematic sequencing of the yeast genome will soon be completed. A new challenge has been launched by the EUROFAN (European Functional Analysis) project whose goal is to elucidate the physiological and biochemical function of newly discovered open reading frames (ORF) from yeast. One of the approaches is to use protein-based technologies such as two-dimensional gel electrophoresis and protein identification in order to establish a yeast reference map. Modified protein patterns can be compared to the reference map which hopefully will help identify changes related, for example, to growth processes or developmental events. This paper describes the yeast SWISS-2DPAGE database in which charge separation was obtained using immobilized pH gradient (IPG). Proteins identified by gel comparison, amino acid composition analysis and/or microsequencing are recorded and described in an accessible uniform format. We have identified more than one hundred polypeptides, several of which were newly mapped. In addition, the yeast SWISS-2DPAGE database can be freely accessed through the World Wide Web (WWW) network on the ExPASy molecular biology server.
Megacrysts and Associated Xenoliths: Evidence for Migration of Geochemically Enriched Melts in the Upper Mantle beneath Scotland (1999)

We conclude that the Scottish lithospheric peridotites were locally metasomatized by alkali-rich carbonatitic
Interesting New High Explosives and Melt‐Casts (2023)

The recent developments with respect to the most promising new secondary explosives and melt-casts are discussed. The calculated explosive performance data are given, critically assessed, and compared with that of currently used secondary explosives. Furthermore, the strategies used to include explosophore groups within a compound are discussed, and the advantages and disadvantages of these groups are evaluated. Only compounds which show high calculated explosive performance are included.