gebhart/patrepeval huggingface dataset:
Solid-state carbon-13 and nitrogen-15 NMR study of the low pH forms of bacteriorhodopsin (1990)

The visible absorption of bacteriorhodopsin (bR) is highly sensitive to pH, the maximum shifting from 568 nm (pH 7) to approximately 600 nm (pH 2) and back to 565 nm (pH 0) as the pH is decreased further with HCl. Blue membrane (lambda max greater than 600 nm) is also formed by deionization of neutral purple membrane suspensions. Low-temperature, magic angle spinning 13C and 15N NMR was used to investigate the transitions to the blue and acid purple states. The 15N NMR studies involved [epsilon-15N]lysine bR, allowing a detailed investigation of effects at the Schiff base nitrogen. The 15N resonance shifts approximately 16 ppm upfield in the neutral purple to blue transition and returns to its original value in the blue to acid purple transition. Thus, the 15N shift correlates directly with the color changes, suggesting an important contribution of the Schiff base counterion to the "opsin shift". The results indicate weaker hydrogen bonding in the blue form than in the two purple forms and permit a determination of the contribution of the weak hydrogen bonding to the opsin shift at a neutral pH of approximately 2000 cm-1. An explanation of the mechanism of the purple to blue to purple transition is given in terms of the complex counterion model. The 13C NMR experiments were performed on samples specifically 13C labeled at the C-5, C-12, C-13, C-14, or C-15 positions in the retinylidene chromophore. The effects of the purple to blue to purple transitions on the isotropic chemical shifts for the various 13C resonances are relatively small. It appears that bR600 consists of at least four different species. The data confirm the presence of 13-cis- and all-trans-retinal in the blue form, as in neutral purple dark-adapted bR. All spectra of the blue and acid purple bR show substantial inhomogeneous broadening which indicates additional irregular distortions of the protein lattice. The amount of distortion correlates with the variation of the pH, and not with the color change.
A new finite element formulation for the forward problem of electro-magnetic source imaging (2002)

The voltage measurements on the scalp and magnetic field measurements near the scalp can be used to compute spatio-temporal evolution of electric currents across the cerebral cortex. Such a representation can be called Electro-Magnetic Source Image. In order to interpret the measured fields accurately, a realistic numerical model of the head should be prepared that includes physical properties and geometry of the individual's head. For that purpose, in this study, Finite Element Method (FEM) is used to solve the scalar potential function. A new FEM formulation is derived that assumes constant current density in isoparametric volume elements. A software is prepared by optimizing the code to run in a PC with 128 MB memory. It is shown that, for a current dipole at 2.5 cm from the origin, the potential distribution can be solved within an accuracy of 0.5% in comparison with the exact solutions, with a mesh of 29001 nodes and 7000 elements. In order to solve the magnetic held, the surface integration tools developed in the same FEM code are used. For the same dipole location the radial magnetic fields are calculated within an accuracy of 2.2%. Obviously, the accuracy in results can be increased by increasing the number of nodes.
CONFORMATION AND MEMBRANE ACTIVITY OF ANALOGUES OF THE PEPTAIBOL ANTIBIOTIC TRICHOGIN GA IV WITH A LIPOPHILIC AMINO ACID AT DIFFERENT POSITIONS (2001)

Conference Abstract| June 01 2001 CONFORMATION AND MEMBRANE ACTIVITY OF ANALOGUES OF THE PEPTAIBOL ANTIBIOTIC TRICHOGIN GA IV WITH A LIPOPHILIC AMINO ACID AT DIFFERENT POSITIONS F. Formaggio; F. Formaggio aBiopolymer Research Centre, C.N.R., Department of Organic Chemistry, University of Padova, Via Marzolo 1, 35131 Padova, Italy Search for other works by this author on: This Site PubMed Google Scholar C. Peggion; C. Peggion aBiopolymer Research Centre, C.N.R., Department of Organic Chemistry, University of Padova, Via Marzolo 1, 35131 Padova, Italy Search for other works by this author on: This Site PubMed Google Scholar M. Crisma; M. Crisma aBiopolymer Research Centre, C.N.R., Department of Organic Chemistry, University of Padova, Via Marzolo 1, 35131 Padova, Italy Search for other works by this author on: This Site PubMed Google Scholar Q.B. Broxterman; Q.B. Broxterman bDSM Research, Organic Chemistry and Biotechnology Section, 6160 MD Geleen, The Netherlands Search for other works by this author on: This Site PubMed Google Scholar B. Kaptein; B. Kaptein bDSM Research, Organic Chemistry and Biotechnology Section, 6160 MD Geleen, The Netherlands Search for other works by this author on: This Site PubMed Google Scholar C. Toniolo C. Toniolo aBiopolymer Research Centre, C.N.R., Department of Organic Chemistry, University of Padova, Via Marzolo 1, 35131 Padova, Italy Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (2001) 29 (3): A73. https://doi.org/10.1042/bst029a073 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Twitter LinkedIn Cite Icon Cite Get Permissions Citation F. Formaggio, C. Peggion, M. Crisma, Q.B. Broxterman, B. Kaptein, C. Toniolo; CONFORMATION AND MEMBRANE ACTIVITY OF ANALOGUES OF THE PEPTAIBOL ANTIBIOTIC TRICHOGIN GA IV WITH A LIPOPHILIC AMINO ACID AT DIFFERENT POSITIONS. Biochem Soc Trans 1 June 2001; 29 (3): A73. doi: https://doi.org/10.1042/bst029a073 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAll JournalsBiochemical Society Transactions Search Advanced Search This content is only available as a PDF. © 2001 Biochemical Society2001 Article PDF first page preview Close Modal You do not currently have access to this content.
SHARE (2015)

Unbalanced battery cells are known to significantly degrade the performance and reliability of a large-scale battery system. In this paper, we exploit emerging reconfigurable battery packs to mitigate the cell imbalance via the joint consideration of system reconfigurability and State-of-Health (SoH) of cells. Via empirical measurements and validation, we observe that a significantly larger amount of capacity can be delivered when cells with similar SoH levels are connected in series during discharging, which in turn extends the system operation time. Based on this observation, we propose two SoH-aware reconfiguration algorithms focusing on fully and partially reconfigurable battery packs, and prove their (near) optimality. We evaluate the proposed SoH-aware reconfiguration algorithms using both experiments and simulations. The algorithms are shown to deliver about 10--30% more capacity than SoH-oblivious configuration approaches.
Determination of nitrogen-15 enrichment of nitrate and nitrite using thermospray liquid chromatography-mass spectrometry (1986)

Peer reviewed: Yes
Impact of a Patient-Derived Hepatitis C Viral RNA Genome with a Mutated MicroRNA Binding Site (2018)

Abstract Hepatitis C virus (HCV) depends on liver-specific microRNA miR-122 for efficient viral RNA amplification in liver cells. This microRNA interacts with two different conserved sites at the very 5’ end of the viral RNA, enhancing miR-122 stability and promoting replication of the viral RNA. Treatment of HCV patients with oligonucleotides that sequester mir-122 resulted in profound loss of viral RNA in phase II clinical trials. However, some patients accumulated in their sera a viral RNA genome that contained a single cytidine to uridine mutation at the third nucleotide from the 5’ genomic end. It is shown here that this C3U variant indeed displayed higher rates of replication than that of wild-type HCV when miR-122 abundance is low in liver cells. However, when miR-122 abundance is high, binding of miR-122 to site 1, most proximal to the 5’ end in the C3U variant RNA, is impaired without disrupting the binding of miR-122 to site 2. As a result, C3U RNA displays a much lower rate of replication than wild-type mRNA when miR-122 abundance is high in the liver. These findings suggest that sequestration of miR-122 leads to a resistance-associated mutation that has only been observed in treated patients so far, and raises the question about the function of the C3U variant in the peripheral blood. Author Summary With the advent of potent direct-acting antivirals (DAA), hepatitis C virus (HCV) can now be eliminated from the majority of patients, using multidrug therapy with DAAs. However, such DAAs are not available for the treatment of most RNA virus infections. The main problem is the high error rate by which RNA-dependent RNA polymerases copy viral RNA genomes, allowing the selection of mutations that are resistant to DAAs. Thus, targeting host-encoded functions that are essential for growth of the virus but not for the host cell offer promising, novel approaches. HCV needs host-encoded microRNA miR-122 for its viral RNA replication in the liver, and depletion of miR-122 in HCV patients results in loss of viral RNA. This study shows that a single-nucleotide mutation in HCV allows viral RNA amplification when miR-122 abundances are low, concomitant with changes in its tropism.
Synthesis of 3-Amino-5-fluoroalkylfurans by Intramolecular Cyclization (2021)

A synthesis to access rarely described 3-amino-5-fluoroalkylfurans has been developed by cyclization of easily accessible fluorovinamides. This method is rapid and simple and affords the desired furans as hydrochloride salts in quantitative or nearly quantitative yields. It is compatible with four different fluorinated groups (-CF<sub>3</sub>, -CF<sub>2</sub>CF<sub>3</sub>, -CHF<sub>2</sub>, and -CF<sub>2</sub>Cl) and a wide range of substituents on the amine.
Ring opening effect at alpha1-adrenoceptor subtypes and 5-HT1A receptors within a novel class of 1,3-Dioxolane-based ligands (2004)

N/A
Influence of bacterial interactions on the susceptibility to photodynamic inactivation (2009)

Photodynamic therapy has emerged as a possible supplement to the existing protocols for endodontic disinfection. Microbes are known to gain significant ecological advantage when they survive as coaggregates and biofilms in an infected tissue. Such microbial coaggregates and biofilms have been confirmed to play a key role in the pathogenicity of many infections. So far, not many studies have correlated the efficacy of antimicrobial photodynamic inactivation (APDI) to the different modes of bacterial growth. This study aims to evaluate the APDI of 3 strains of Enterococcus faecalis in planktonic phase, in a co-aggregated suspension and in a 4-day old biofilm. The results showed that the biofilm mode of growth offered the greatest resistance to APDI and the inclusion of an efflux pump inhibitor significantly increased the APDI of biofilm bacteria. From this study, we conclude that APDI of bacteria in biofilms is the most challenging and that the use of bacterial efflux pump inhibitors enhances its photodynamic antibiofilm efficacy.
SoNIC (2013)

Sensor networks that operate in the unlicensed 2.4~GHz frequency band suffer cross-technology radio interference from a variety of devices, e.g., Bluetooth headsets, laptops using WiFi, or microwave ovens. Such interference has been shown to significantly degrade network performance. We present SoNIC, a system that enables resource-limited sensor nodes to detect the type of interference they are exposed to and select an appropriate mitigation strategy. The key insight underlying SoNIC is that different interferers disrupt individual 802.15.4 packets in characteristic ways that can be detected by sensor nodes. In contrast to existing approaches to interference detection, SoNIC does not rely on active spectrum sampling or additional hardware, making it lightweight and energy-efficient.
Protein Farnesyltransferase Inhibitors (2002)

Specific mutations in the ras gene impair the guanosine triphophatase (GTPase) activity of Ras proteins, which play a fundamental role in the signaling cascade, leading to uninterrupted growth signals and to the transformation of normal cells into malignant phenotypes. It has been shown that normal cells transfected with mutant ras gene become cancerous and that unfarnesylated, cytosolic mutant Ras protein does not anchor onto cell membranes and cannot induce this transformation. Posttranslational modification and plasma membrane association of mutant Ras is necessary for this transforming activity. Since its identification, the enzyme protein farnesyltransferase (FTase) that catalyzes the first and essential step of the three Ras-processing steps has emerged as the most promising target for therapeutic intervention. FTase has been implicated as a potential target in inhibiting the prenylation of a variety of proteins, thus in controlling varied disease states (e.g. cancer, neurofibromatosis, restenosis, viral hepatitis, bone resorption, parasitic infections, corneal inflammations, and diabetes) associated with prenyl modifications of Ras and other proteins. Furthermore, it has been suggested that FTase inhibitors indirectly help in inhibiting tumors via suppression of angiogenesis and induction of apoptosis. Major milestones have been achieved with small-molecule FTase inhibitors that show efficacy without toxicity in vitro, as well as in mouse models bearing ras-dependent tumors. With the determination of the crystal structure of mammalian FTase, existent leads have been fine-tuned and new potent molecules of diverse structural classes have been designed. A few of these molecules are currently in the clinic, with at least three drug candidates in Phase II studies and one in Phase III. This article will review the progress that has been reported with FTase inhibitors in drug discovery and in the clinic.
Characterization of a Cold-Active Esterase from Lactobacillus plantarum Suitable for Food Fermentations (2014)

Lactobacillus plantarum is a lactic acid bacteria that can be found in numerous fermented foods. Esterases from L. plantarum exert a fundamental role in food aroma. In the present study, the gene lp_2631 encoding a putative esterase was cloned and expressed in Escherichia coli BL21 (DE3) and the overproduced Lp_2631 protein has been biochemically characterized. Lp_2631 exhibited optimal esterase activity at 20 °C and more than 90% of maximal activity at 5 °C, being the first cold-active esterase described in a lactic acid bacteria. Lp_2631 exhibited 40% of its maximal activity after 2 h of incubation at 65 °C. Lp_2631 also showed marked activity in the presence of compounds commonly found in food fermentations, such as NaCl, ethanol, or lactic acid. The results suggest that Lp_2631 might be a useful esterase to be used in food fermentations.
Design and development of 100% bio-based high-grade hemp/epoxy composites (2017)

In order to develop 100% bio-based high-grade epoxy composites, in this study, bio-based epoxy thermosets and hemp slivers are processed and characterized by different technologies. Epoxy resins are synthesized from the diglycidylether of Eugenol, extracted from cloves. They are cured with bio-based acid anhydrides. The physicochemical properties of the resulting epoxy resins are characterized using thermogravimetric analyses (TGA), differential scanning calorimetry (DSC), and nanoindentation. The mechanical properties of hemp fibres extracted from the slivers are also determined using tensile tests. After their processing and characterization, these bio-based constituents are then used to manufacture unidirectional composites by thermocompression. Composite specimens are tested under 3-points bending. Preliminary results show a stiffness of about 9 GPa and a strength of approximately 170 MPa for a fibres volume fraction of 22%. These mechanical properties are promising since they make this material competitive to substitute petroleum-based composites in secondary structural applications.
PVT and vapor pressure measurements on 1,1-dichloro-2,2,2-trifluoroethane (HCFC-123) (1991)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTPVT and vapor pressure measurements on 1,1-dichloro-2,2,2-trifluoroethane (HCFC-123)Chun Cheng Piao, Haruki Sato, and Koichi WatanabeCite this: J. Chem. Eng. Data 1991, 36, 4, 398–403Publication Date (Print):October 1, 1991Publication History Published online1 May 2002Published inissue 1 October 1991https://pubs.acs.org/doi/10.1021/je00004a016https://doi.org/10.1021/je00004a016research-articleACS PublicationsRequest reuse permissionsArticle Views59Altmetric-Citations13LEARN 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
Singlet oxygen in synthesis. Formation of d,l- and meso-isochrysohermidin from a 3,3′-bipyrrole precursor (1997)

A synthesis of the d,l and meso forms of isochrysohermidin 3 is outlined which employs the singlet oxygen oxidation of pyrroles as the key step. The bipyrrole precursor 8 was synthesized from a 3-hydroxy monopyrrole which, in turn, was prepared by addition of methylamine to a vinyl vicinal tricarbonyl.
Development of Pumps for Pulse Compression Laser Applications. (1978)

This report describes an effort aimed at developing a more efficient flash-lamp for pumping blue laser dyes. The work was supported by the Navy as part of their program to develop laser sources which operate in the blue-green transmission band of sea water. The effort was based on the possible use of mercury lamps of the high pressure capillary type (AH6), with and without spectral additives. A wide range of operating conditions were explored. Those found most suitable for pumping Rh6G gave no better performance than xenon lamps, and tests designed to evaluate their use for pumping blue laser dyes also showed no evidence of improved performance. Additives for the spectrally enhanced lamps were chosen by means of a computer program. In general, the spectra of the additives conformed in a general way to those predicted by the program. However, operating difficulties primarily arising from lamp instabilities, precluded the useful application of these additives. An alternative approach, based on molecular radiators, is proposed. (Author)
Integrated resonant-microbridge vapor sensor (1984)

A novel integrated vapor sensor is described that incorporates a polycrystalline silicon microbridge coated with a thin polymer film. The microbridge is resonated electrostatically and an integrated NMOS circuit detects its vibration. Vapor uptake by the polymer increases the mass-loading on the microbridge, thereby perturbing its first resonant frequency f <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1</inf> . For the prototype sensor, negative photoresist is used as the sensor polymer, and the phase between the excitation and output voltages at resonance is monitored as the output signal. Exposure to saturated xylene vapor produces a phase shift of -8° with a response time of less than seven minutes.
Image modeling using inverse filtering criteria with application to textures (1996)

Statistical approaches to image modeling have largely relied upon random models that characterize the 2-D process in terms of its first- and second-order statistics, and therefore cannot completely capture phase properties of random fields that are non-Gaussian. This constrains the parameters of noncausal image models to be symmetric and, therefore, the underlying random field to be spatially reversible. Research indicates that this assumption may not be always valid for texture images. In this paper, higher- than second-order statistics are used to derive and implement two classes of inverse filtering criteria for parameter estimation of asymmetric noncausal autoregressive moving-average (ARMA) image models with known orders. Contrary to existing approaches, FIR inverse filters are employed and image models with zeros on the unit bicircle can be handled. One of the criteria defines the smallest set of cumulant lags necessary for identifiability of these models to date, Consistency of these estimators is established, and their performance is evaluated with Monte Carlo simulations as well as texture classification and synthesis experiments.
Kilometer-Long Ordered Nanophotonic Devices by Preform-to-Fiber Fabrication (2006)

<para xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> A preform-to-fiber approach to the fabrication of functional fiber-based devices by thermal drawing in the viscous state is presented. A macroscopic preform rod containing metallic, semiconducting, and insulating constituents in a variety of geometries and close contact produces kilometer-long novel nanostructured fibers and fiber devices. We first review the material selection criteria and then describe metal–semiconductor–metal photosensitive and thermally sensitive fibers. These flexible, lightweight, and low-cost functional fibers may pave the way for new types of fiber sensors, such as thermal sensing fabrics, artificial skin, and large-area optoelectronic screens. Next, the preform-to-fiber approach is used to fabricate spectrally tunable photodetectors that integrate a photosensitive core and a nanostructured photonic crystal structure containing a resonant cavity. An integrated, self-monitoring optical-transmission waveguide is then described that incorporates optical transport and thermal monitoring. This fiber allows one to predict power-transmission failure, which is of paramount importance if high-power optical transmission lines are to be operated safely and reliably in medical, industrial and defense applications. A hybrid electron–photon fiber consisting of a hollow core (for optical transport by means of a photonic bandgap) and metallic wires (for electron transport) is described that may be used for transporting atoms and molecules by radiation pressure. Finally, a solid microstructured fiber fabricated with a highly nonlinear chalcogenide glass enables the generation of supercontinuum light at near-infrared wavelengths. </para>