gebhart/patrepeval huggingface dataset:
Modeling of the Complex between Transducin and Photoactivated Rhodopsin, a Prototypical G-Protein-Coupled Receptor (2007)

Obtaining a reliable 3D model for the complex formed by photoactivated rhodopsin (R*) and its G-protein, transducin (Gtalphabetagamma), would significantly benefit the entire field of structural biology of G-protein-coupled receptors (GPCRs). In this study, we have performed extensive configurational sampling for the isolated C-terminal fragment of the alpha-subunit of transducin, Gtalpha 340-350, within cavities of photoactivated rhodopsin formed by different energetically feasible conformations of the intracellular loops. Our results suggested a new 3D model of the rhodopsin-transducin complex that fully satisfied all available experimental data on site-directed mutagenesis of rhodopsin and Gtalphabetagamma as well as data from disulfide-linking experiments. Importantly, the experimental data were not used as a priori constraints in model building. We performed a thorough comparison of existing computational models of the rhodopsin-transducin complex with each other and with current experimental data. It was found that different models suggest interactions with different molecules in the rhodopsin oligomer, that providing valuable guidance in design of specific novel experimental studies of the R*-Gtalphabetagamma complex. Finally, we demonstrated that the isolated Gtalpha 340-350 fragment does not necessarily bind rhodopsin in the same binding mode as the same segment in intact Gtalpha.
Packaging design and test of cryogenic readout electronics for the Euclid near infrared spectrophotometer (2022)

We describe the design of the cryogenic packaging and testing of the Sensor Chip Electronics (SCE) delivered to the Near-Infrared Spectro-Photometer (NISP) instrument for the ESA <i>Euclid</i> mission. The <i>Euclid</i> mission will observe 15 000 deg<sup>2</sup> of extragalactic sky<sup>1</sup> from the Sun{Earth Lagrange point L2. The payload of the <i>Euclid</i> spacecraft consists of a telescope with 1.2m SiC primary mirror, passively cooled to ~ 125 K, and two focal plane instruments, the visible instrument (VIS) and NISP. At the heart of the NISP instrument is a 4 x 4 mosaic focal plane of Teledyne H2RG infrared detector arrays held at 100K linked using a cryogenic ex cable (CFC) to the SCE at as low as 130 K. The SCE uses the Teledyne SIDECAR Application Specific Integrated Circuit (ASIC) to provide timing, biases, communications, and data conversion for operation of the HAWAII 2 RG (H2RG) Sensor Chip Assembly (SCA) and interfaces to the NISP warm electronics. The SIDECAR ASIC is mounted onto a Silicon Fanout (SiFO) and Invar table support structure and then wirebonded to a printed wiring board assembly (PWB) with passive components and 91-pin nanoconnectors. The PWB is housed within an enclosure which serves as the mechanical and thermal interface to the NISP Support Structure. The qualification and flight SCE were assembled and subjected to environmental testing at the Jet Propulsion Laboratory and then calibrated and tested with the flight lot SCA and CFC at Goddard Space Flight Centers Detector Characterization Lab. The results of the qualification and reliability tests as well as the measured characteristics of the flight SCE will be summarized.
αvβ6 integrin is required for TGFβ1-mediated matrix metalloproteinase2 expression (2015)

Transforming growth factor (TGF) β1 activity depends on a complex signalling cascade that controls expression of several genes. Among others, TGFβ1 regulates expression of matrix metalloproteinases (MMPs) through activation of Smads. In the present study, we demonstrate for the first time that the αvβ6 integrin interacts with TGFβ receptor II (TβRII) through the β6 cytoplasmic domain and promotes Smad3 activation in prostate cancer (PrCa) cells. Another related αv integrin, αvβ5, as well as the αvβ6/3 integrin, which contains a chimeric form of β6 with a β3 cytoplasmic domain, do not associate with TβRII and fail to show similar responses. We provide evidence that αvβ6 is required for up-regulation of MMP2 by TGFβ1 through a Smad3-mediated transcriptional programme in PrCa cells. The functional relevance of these results is underscored by the finding that αvβ6 modulates cell migration in an MMP2-dependent manner on an αvβ6-specific ligand, latency-associated peptide (LAP)-TGFβ. Overall, these mechanistic studies establish that expression of a single integrin, αvβ6, is sufficient to promote activation of Smad3, regulation of MMP2 levels and consequent catalytic activity, as well as cell migration. Our study describes a new TGFβ1-αvβ6-MMP2 signalling pathway that, given TGFβ1 pro-metastatic activity, may have profound implications for PrCa therapy.
Removing a hair of doubt about BRAF targeting (2015)

In this issue of Blood, Pettirossi et al, including Drs Tiacci and Falini, who led the effort in 2011 defining the BRAF-V600E driving mutation in hairy cell leukemia (HCL),provide extensive laboratory studies showing that inhibitors of BRAF-V600E and/or mitogen-activated protein kinase kinase (MEK) reach their targets and cause HCL cell death
A Novel Wireless Wearable Volatile Organic Compound (VOC) Monitoring Device with Disposable Sensors (2016)

A novel portable wireless volatile organic compound (VOC) monitoring device with disposable sensors is presented. The device is miniaturized, light, easy-to-use, and cost-effective. Different field tests have been carried out to identify the operational, analytical, and functional performance of the device and its sensors. The device was compared to a commercial photo-ionization detector, gas chromatography-mass spectrometry, and carbon monoxide detector. In addition, environmental operational conditions, such as barometric change, temperature change and wind conditions were also tested to evaluate the device performance. The multiple comparisons and tests indicate that the proposed VOC device is adequate to characterize personal exposure in many real-world scenarios and is applicable for personal daily use.
Moisture Sorption Characteristics of Ground Sunflower Nutmeat and its Products (1990)

ABSTRACT Moisture sorption characteristics of sunflower nutmeat products (ground nutmeat, meal, protein concentrate and protein isolate) were investigated at temperatures 10°C, 20°C and 30°C, and the results were analyzed according to various sorption isotherm models. The best‐fit models were the G.A.B. (Guggenheim‐Anderson‐de Boer) model for the ground nutmeat and the cubic polynomial model for the meal, the protein concentrate and the protein isolate. The Chen‐Clayton model was the best‐fit model for describing temperature effect in all the materials studied. The G.A.B. monolayer values were higher than the B.E.T. monolayer values for the materials studied.
STEREOCHEMISTRY OF SUBSTITUTION TO ASYMMETRIC SILICON (1961)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSTEREOCHEMISTRY OF SUBSTITUTION TO ASYMMETRIC SILICONL. H. Sommer, C. L. Frye, M. C. Musolf, G. A. Parker, P. G. Rodewald, K. W. Michael, Y. Okaya, and R. PepinskyCite this: J. Am. Chem. Soc. 1961, 83, 9, 2210–2212Publication Date (Print):May 1, 1961Publication History Published online1 May 2002Published inissue 1 May 1961https://doi.org/10.1021/ja01470a051Request reuse permissionsArticle Views99Altmetric-Citations21LEARN 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 InReddit PDF (393 KB) Get e-Alertsclose Get e-Alerts
Theoretical Investigation of Inter-core Crosstalk Properties in Homogeneous Trench-Assisted Multi-Core Fibers (2014)

We derive analytical expressions for inter-core crosstalk, its dependence on core pitch and wavelength in homogeneous trench-assisted multi-core fibers. They are in excellent agreement with numerical simulation results.
A Linear Formulation for Power System State Estimation including RTU and PMU Measurements (2019)

In this paper, a novel linear formulation for power system state estimation that simultaneously treats conventional and synchrophasor measurements is proposed. A linear circuit model for conventional measurements is introduced to enable a fully linear equivalent circuit representation of the power system. The estimated system state is then obtained by formulating the optimization problem to minimize the measurement errors and solving the resulting linear set of optimality conditions. To evaluate the accuracy of the proposed method, simulations are performed on several test cases of various sizes and the results are presented and discussed.
Generative policy model for autonomic management (2017)

Policy-based mechanisms have been effectively used to realize autonomic behavior in the constituent elements of distributed systems. However, current prevalent policy models based on event-condition-action rules are not sufficient to deal with highly dynamic environments. They tend to rely on fixed policy structures for the automated enforcement of predefined directives. A higher level of autonomic behavior can be enabled if the managed system could be given greater flexibility in its operations, while maintaining the consistency and compliance with requirements that have led to the successes of the policy based management paradigm. In this paper, we present a new approach that employs policy structures that are more dynamic and contextual while still preserving the desired levels of control, thus allowing managed systems to take more autonomic decisions regarding their operations.
A wide sky coverage ferrofluid mercury telescope (1994)

Liquid mirror optical telescopes use rotating mercury to form precise paraboloidal primary reflectors. These telescopes, which represent an inexpensive alternative to traditional telescopes, to date have been limited in their sky coverage to a small viewing area (typically 1/4 sq. deg) centered on the zenith. We propose to increase the sky coverage area of a mercury optical telescope by at least two orders of magnitude, using the same concept as that employed in the 305 m diameter radio telescope at Arecibo, Puerto Rico, which has a spherical primary reflector. We have shown that it should be possible to deflect a 2.65 m diameter f/1.9 rotating mercury paraboloid into a precise spherical shape, by using ferrofluid mercury in a carefully tailored magnetic field. The 10 deg x 10 deg sky coverage of such a telescope could make it the instrument of choice in a number of astronomical observing programs.
Characterization of the RND family of multidrug efflux pumps: in silico to in vivo confirmation of four functionally distinct subgroups (2010)

We have developed a generalized profile that identifies members of the root-nodulation-cell-division (RND) family of efflux pumps and classifies them into four functional subfamilies. According to Z-score values, efflux pumps can be grouped by their metabolic function, thus making it possible to distinguish pumps involved in antibiotic resistance (group 1) from those involved in metal resistance (group 3). In silico data regarding efflux pumps in group 1 were validated after identification of RND efflux pumps in a number of environmental microbes that were isolated as resistant to ethidium bromide. Analysis of the Pseudomonas putida KT2440 genome identified efflux pumps in all groups. A collection of mutants in efflux pumps and a screening platform consisting of 50 drugs were created to assign a function to the efflux pumps. We validated in silico data regarding efflux pumps in groups 1 and 3 using 9 different mutants. Four mutants belonging to group 2 were found to be more sensitive than the wild-type to oxidative stress-inducing agents such as bipyridyl and methyl viologen. The two remaining mutants belonging to group 4 were found to be more sensitive than the parental to tetracycline and one of them was particularly sensitive to rubidium and chromate. By effectively combining in vivo data with generalized profiles and gene annotation data, this approach allowed the assignment, according to metabolic function, of both known and uncharacterized RND efflux pumps into subgroups, thereby providing important new insight into the functions of proteins within this family.
Standards for reporting interventions in clinical trials of cupping (STRICTOC): extending the CONSORT statement (2020)

It is intended that the STRICTOC, in conjunction with both the main Consolidated Standards of Reporting Trials (CONSORT) Statement and extension for nonpharmacologic treatment, will raise the reporting quality of clinical trials of cupping.<i>Trial registration</i> We have registered this study on the Enhancing the Quality and Transparency of Health Research (EQUATOR) Network: http://www.equator-network.org/library/reporting-guidelines-under-development/reporting-guidelines-under-development-for-clinical-trials/#STRICTOC.
Atom Switch with Improved Cycle Endurance using Field Enhancement for Nonvolatile SoC (2018)

Multi-usage atom switch as "nonvolatile routing switch in FPGA" and "nonvolatile memory (NVM)" is newly developed for ultra-low power SoC in IoT applications. A novel Cu electrode structure inducing an electric field enhancement achieves 100k-cycle endurance and 10-year retention for NVM. The developed atom switch enables both a nonvolatile FPGA macro and an NVM macro to be embedded in a single SoC.
Dynamic Trajectory-Based Traffic Dispersion Method for Intersection Traffic Accidents in an Intelligent and Connected Environment (2021)

Intersection traffic accidents (ITAs) are one of the major causes of nonrecurrent congestion in urban road networks because the intersection is the bottleneck of road traffic. Although there has been a proliferation of studies that confirm connected automated vehicle (CAV) technology demonstrates the potential to improve traffic mobility and safety performance at intersections, studies that handle ITAs using CAV technology are scarce. To fill this gap, this study proposes an intersection control system to coordinate vehicle trajectories and ensure operational efficiency and safety under the condition of typical ITAs. A route allocation judgment method based on the position of obstacles is proposed to avoid the accident vehicle. A spatiotemporal grid-based trajectory coordination model is proposed by formulating the route allocation. We utilize the .NET Framework to secondarily develop a Simulation of Urban Mobility-based simulation environment that examines the proposed method. The experimental results indicate that the presented method outperforms the signal control method in terms of reducing delay per vehicle and rescue time and increasing throughput. Consequently, we concluded that the proposed method could handle ITAs under an intelligent and connected environment and improve the safety and robustness of intelligent intersections. It is reasonably believed that the technique has potential applicability in autonomous intersection management.
Deficiency of Nicotinamide Mononucleotide Adenylyltransferase 3 (Nmnat3) Causes Hemolytic Anemia by Altering the Glycolytic Flow in Mature Erythrocytes (2014)

NAD biosynthesis is of substantial interest because of its important roles in regulating various biological processes. Nicotinamide mononucleotide adenylyltransferase 3 (Nmnat3) is considered a mitochondria-localized NAD synthesis enzyme involved in de novo and salvage pathways. Although the biochemical properties of Nmnat3 are well documented, its physiological function in vivo remains unclear. In this study, we demonstrated that Nmnat3 was localized in the cytoplasm of mature erythrocytes and critically regulated their NAD pool. Deficiency of Nmnat3 in mice caused splenomegaly and hemolytic anemia, which was associated with the findings that Nmnat3-deficient erythrocytes had markedly lower ATP levels and shortened lifespans. However, the NAD level in other tissues were not apparently affected by the deficiency of Nmnat3. LC-MS/MS-based metabolomics revealed that the glycolysis pathway in Nmnat3-deficient erythrocytes was blocked at a glyceraldehyde 3-phosphate dehydrogenase (GAPDH) step because of the shortage of the coenzyme NAD. Stable isotope tracer analysis further demonstrated that deficiency of Nmnat3 resulted in glycolysis stall and a shift to the pentose phosphate pathway. Our findings indicate the critical roles of Nmnat3 in maintenance of the NAD pool in mature erythrocytes and the physiological impacts at its absence in mice.
Structure and magnetic properties of Co/CoO and Co/Si core–shell cluster assemblies prepared via gas-phase (2004)

Plasma-gas condensation cluster deposition systems have been introduced and applied for preparation of Co/CoO and Co/Siclusters assemblies. In Co/CoO cluster assemblies prepared by the single source PGC system with introduction of O2 gas into the deposition chamber, fcc Co cores are covered with NaCl type CoO shells, showing marked enhancement of unidirectional and uniaxial magnetic anisotropy and a clear cross-over phenomenon in the magnetic relaxation from the high temperature thermal regime to the low temperarure quantum tunneling regime. In Co/Si cluster assemblies prepared by the double source PGC system, fcc Co cores are also covered with amorphous Si rich shells, showing rather small magnetic coercivity. Since Co/CoO and Co/Si core–shell clusters are stable in ambient atmosphere, they will be used as building blocks for novel nano-structure-controlled materials.
The need for preservation aware storage (2007)

Digital Preservation deals with ensuring that digital data stored today can be read and interpreted tens or hundreds of years from now. At the heart of any solution to the preservation problem lies a storage component. This paper characterizes the requirements for such a component, defines its desirable properties and presents the need for preservation-aware storage systems. Our research is conducted as part of CASPAR , a new European Union (EU) integrated project on the preservation of data for very long periods of time. The position presented was developed while designing the storage foundation for the CASPAR software framework.
Genome-wide analysis discloses reversal of the hypoxia-induced changes of gene expression in colon cancer cells by zinc supplementation (2011)

Hypoxia-inducible factor 1 (HIF-1), the major transcription factor specifically activated during hypoxia, regulates genes involved in critical aspects of cancer biology, including angiogenesis, cell proliferation, glycolysis and invasion. The HIF-1a subunit is stabilized by low oxygen, genetic alteration and cobaltous ions, and its over-expression correlates with drug resistance and increased cancer mortality in various cancer types, therefore representing an important anticancer target. Zinc supplementation has been shown to counteract the hypoxic phenotype in cancer cells, in vitro and in vivo, hence, understanding the molecular pathways modulated by zinc under hypoxia may provide the basis for reprogramming signalling pathways for anticancer therapy. Here we performed genome-wide analyses of colon cancer cells treated with combinations of cobalt, zinc and anticancer drug and evaluated the effect of zinc on gene expression patterns. Using Principal Component Analysis we found that zinc markedly reverted the cobalt-induced changes of gene expression, with reactivation of the drug-induced transcription of pro-apoptotic genes. We conclude that the hypoxia pathway is a potential therapeutic target addressed by zinc that also influences tumor cell response to anticancer drug.
Holography of 3D Surface Reconstructed CT Images (1988)

A multiplex hologram (cylindrical holographic stereogram) was successfully made from three-dimensional (3D) surface reconstruction CT images of a child with plagiocephaly. This method appears to be suitable as one of the projectional aids of 3D surface reconstruction CT images that are proving useful in plastic and reconstructive surgery. The principle of the method is described. Also discussed is the possibility of developing a computer-aided hologram synthesizing system that could be used for images obtained with U-arm X-ray equipment (by either cinefilm, or videotape, or digital subtraction angiography) or by CT as well as MR. For practical use, it is necessary for the hologram to be synthesized in a short time. One of the key problems in developing such a machine is the need for an incoherent-to-coherent image converter.
Les cathéters centraux insérés par voie périphérique (PICClines) et leurs complications (2012)

Le catheter central insere par voie peripherique (en anglais : PICC – Peripherally Inserted Central Catheter) a permis d’ameliorer la prise en charge des patients necessitant une therapeutique intraveineuse de « moyenne » duree. Il represente une alternative sure et efficace aux voies veineuses centrales conventionnelles avec un succes technique proche de 100 %. Il s’agit d’une voie veineuse centrale inseree par voie peripherique, tres bien toleree par les patients dont les complications sont essentiellement representees par les occlusions, les infections et les thromboses veineuses sur catheter. Ces complications sont communes aux autres dispositifs d’acces veineux centraux et peuvent etre prevenues par une meilleure connaissance du materiel et de son utilisation.
The Self-Assembly of Amphiphilic Oligothiophenes: Hydrogen Bonding and Poly(glutamate) Complexation (2007)

Abstract The self-organization behavior of an amphiphilic sexithiophene bearing amide functionalities is studied and compared to that of a derivative bearing an ester group at the same position. The introduction of hydrogen-bond interactions in assemblies of these π-conjugated oligomers is found to affect the molecular organization both in protic media and in thin deposits on mica. The amphiphilic 2,2′;5′,2'';5'',2''';5''',2'''';5'''',2'''''-sexithiophene-5,5'''''-dicarboxylic acid bis[(4,7,10,13,16-pentaoxaheptadecyl)amide] forms assemblies in n-butanol and water and partially aggregates in toluene. Spectroscopy reveals that the presence of a hydrogen-bonding moiety increases the thermal stability of the assemblies in n-butanol and even more in water solution. On mica surfaces, the formation of rod-like one-dimensional nanostructures is observed after deposition from toluene solutions. In addition, transmission electron microscopy in combination with selected area electron diffraction shows that in water plate-like structures are formed built from parallel oriented stacks, with a π–π distance of 3.5 Å. Comparison of these data to molecular modeling and quantum chemistry calculations is used to better understand the influence of the amide group on the stacking of these compounds. The introduction of these H-bonding interactions leads to denser and more stable stacks. Furthermore, we show that a derivative of the amide compound, bearing terminal ammonium groups, forms a complex with chiral polyanions in aqueous media such that the sexithiophene segments are stacked in a meta-stable helical fashion with preferred handedness. We observed that poly(glutamate) and DNA generate a chiral sexithiophene assembly. In time the induced chirality disappears, which is explained by the meta-stability of the kinetically formed adduct. This constitutes one step forward towards the controlled formation of functional multi-component systems in aqueous solution.