gebhart/patrepeval huggingface dataset:
Abstract 17657: The MAGGIC Risk Score: Validation of a Simple Tool for the Prediction of Morbidity and Mortality in Heart Failure With Preserved Ejection Fraction (2013)

Background: Heart failure with preserved ejection fraction (HFpEF) is associated with morbidity and mortality rates comparable to HF with reduced EF (HFrEF). Whereas several risk models for HFrEF m...
Effect of Harvest Maturity and Ethylene Gassing on Tomato Flavor Volatile Concentrations (1998)

Tomato fruit ( Lycopersicon esculentum Mill.) cvs. Solar Set and Olympic were harvested at three maturity stages: green (stage 1, USDA color classification) gassed with 100 ppm ethylene, green not gassed, turning (stage 4), and red-ripe (stage 6). After ripening at 21 °C, the fruit were homogenized with CaCl 2 and analyzed for important flavor volatile compounds. For `Solar Set', acetone, ethanol, 1-penten-3-one, hexanal, and trans -2-heptenal were significantly higher in red-harvested fruit, while 2+3-methylbutanol, and trans -2-hexenal were higher in green-harvested fruit. trans -2-Hexenal was at higher levels in green-harvested fruit not gassed compared to those that were gassed for `Solar Set'. `Olympic' fruit followed similar trends for harvest maturity and gassing, but there were fewer significant differences in volatile levels. Using a multivariate discriminant pattern recognition procedure, red fruit were separated from turning and green-harvested fruit, while green-gassed separated from non-gassed based on the aroma volatile profile within each cultivar.
Gain scheduling control of functional electrical stimulation for assisted standing up and sitting down in paraplegia: a simulation study (2004)

Abstract This paper reports on a simulation study that concerns the design of a non‐linear controller for the standing up and the sitting down of a paraplegic patient by means of functional electrical stimulation. The simulations refer to a specific experimental device developed at the Fondazione Don Gnocchi (Italy). This is a seesaw, with the patient on one side and a weight on the other side. The patient is seated so that its posture can be fully known in real‐time by continuously monitoring the knee joint angle. By delivering a suitable electrical stimulation to the quadriceps muscles groups, the patient can be raised and made to sit via smooth movements. Hitherto, the only feedback control law, which has been implemented in this area, is based on a PID controller and usually provides poor tracking performances. Hence, in this work, a non‐linear gain scheduling controller has been designed and tested in a series of simulation experiments. The controller is tuned following a gain scheduling strategy: a set of local linear quadratic controllers is designed using a set of linear tangent models. A global non‐linear gain scheduled controller is then obtained via interpolation. The gain‐ scheduled controller is implemented following an advanced strategy that guarantees that the so‐called linearization property holds. Copyright © 2004 John Wiley &amp; Sons, Ltd.
Characterization of myo -Inositol Utilization by Corynebacterium glutamicum : the Stimulon, Identification of Transporters, and Influence on l -Lysine Formation (2006)

Although numerous bacteria possess genes annotated iol in their genomes, there have been very few studies on the possibly associated myo-inositol metabolism and its significance for the cell. We found that Corynebacterium glutamicum utilizes myo-inositol as a carbon and energy source, enabling proliferation with a high maximum rate of 0.35 h-1. Whole-genome DNA microarray analysis revealed that 31 genes respond to myo-inositol utilization, with 21 of them being localized in two clusters of >14 kb. A set of genomic mutations and functional studies yielded the result that some genes in the two clusters are redundant, and only cluster I is necessary for catabolizing the polyol. There are three genes which encode carriers belonging to the major facilitator superfamily and which exhibit a >12-fold increased mRNA level on myo-inositol. As revealed by mutant characterizations, one carrier is not involved in myo-inositol uptake whereas the other two are active and can completely replace each other with apparent Kms for myo-inositol as a substrate of 0.20 mM and 0.45 mM, respectively. Interestingly, upon utilization of myo-inositol, the L-lysine yield is 0.10 mol/mol, as opposed to 0.30 mol/mol, with glucose as the substrate. This is probably not only due to myo-inositol metabolism alone since a mixture of 187 mM glucose and 17 mM myo-inositol, where the polyol only contributes 8% of the total carbon, reduced the L-lysine yield by 29%. Moreover, genome comparisons with other bacteria highlight the core genes required for growth on myo-inositol, whose metabolism is still weakly defined.
원저 ( Original Articles ) ; Ti Plasmid Vector System 을 이용한 외래 유전자의 도입 : ( 1 ) A . tumefaciens 로의 E . coli Thioredonxin 유전자의 도입 (1988)

In this part of study on the incorporation of foreign gene into plant cells, a derivative of Ti plasmid vector (pGA658), containing E. coli thioredoxin gene, was prepared and introduced into Agrobacterium tumefaciens. A recombinant plasmid, pKDB3, was constructed by transferring HindIII-BamHI DNA fragment of pCJF4, including E. coli thioredoxin gene, into HindIII-BgIII restriction sites of plasmid pGA658. By doing this, E. coli thioredoxin gene is expected to express from nos promoter of pGA658 after the incorporation into plant cells. The structure of DNAs isolated from kanamycin-resistant E. coli transformants was convinced by restriction mapping. As a preceding step before incorporation into plant cells, the recombinant plasmid pKDB3 was transformed into A. tumefaciens by freeze-thaw procedure. In Agrobacterium transformants, the expression of E. coli thioredoxin gene was positively observed, and this suggested the stable existence of the E. coli gene.
Laparoscopic Inferior Vena Cava and Right Atrial Thrombectomy Utilizing Deep Hypothermic Circulatory Arrest (2003)

Laparoscopic radical nephrectomy with thrombectomy for level III or IV tumor thrombi utilizing deep hypothermic circulatory arrest is feasible in the calf model using minimally invasive techniques exclusively. The procedure is technically complex and requires the combined efforts of expert urologic and cardiac operative teams. Survival studies are planned.
In Silico Analysis of Genetic VapC Profiles from the Toxin-Antitoxin Type II VapBC Modules among Pathogenic, Intermediate, and Non-Pathogenic Leptospira (2019)

Pathogenic <i>Leptospira</i> spp. is the etiological agent of leptospirosis. The high diversity among <i>Leptospira</i> species provides an array to look for important mediators involved in pathogenesis. Toxin-antitoxin (TA) systems represent an important survival mechanism on stress conditions. <i>vap</i>BC modules have been found in nearly one thousand genomes corresponding to about 40% of known TAs. In the present study, we investigated TA profiles of some strains of <i>Leptospira</i> using a TA database and compared them through protein alignment of VapC toxin sequences among <i>Leptospira</i> spp. genomes. Our analysis identified significant differences in the number of putative <i>vap</i>BC modules distributed in pathogenic, saprophytic, and intermediate strains: four in <i>L. interrogans</i>, three in <i>L. borgpetersenii</i>, eight in <i>L. biflexa</i>, and 15 in <i>L. licerasiae</i>. The VapC toxins show low identity among amino acid sequences within the species. Some VapC toxins appear to be exclusively conserved in unique species, others appear to be conserved among pathogenic or saprophytic strains, and some appear to be distributed randomly. The data shown here indicate that these modules evolved in a very complex manner, which highlights the strong need to identify and characterize new TAs as well as to understand their regulation networks and the possible roles of TA systems in pathogenic bacteria.
How (information theoretically) optimal are distributed decisions? (2010)

¿If we know more, we can achieve more.¿ This adage also applies to networks, where more information about the network state translates into higher sum-rates. In this paper, we formalize this increase of sum-rate with increased knowledge of network. The knowledge of network is measured in terms of the number of hops of information about the network while the sum-rate is normalized by the maximum sum-rate that can be achieved with complete information. As the knowledge about the network increase, the achievable normalized sum-rate also increases. The best normalized sum-rate is called normalized sum-capacity. In this paper, we characterize the increase of normalized sum-capacity with the hops of information about the network for many classes of deterministic interference networks for the cases of one and two-hops of instantaneous channel information.
Diboron-Based Delayed Fluorescent Emitters with Orange-to-Red Emission and Superior Organic Light-Emitting Diode Efficiency (2020)

For the application of organic light-emitting diodes (OLEDs) in lighting and panels, the basic requirement is to include a full spectrum color range. Compared with the development of blue and green luminophores in thermally activated delayed fluorescence (TADF) technology, the progress of orange-to-red materials is slow and needs further investigation. In this study, three diboron compound-based materials, dPhADBA, dmAcDBA, and SpAcDBA, were designed and synthesized by nucleophilic arylation of three amine donors on 9,10-diboraanthracene (DBA) in a two-step reaction. With increasing electron-donating ability, they show orange-to-red emission with TADF characteristics. The electroluminescence of these diboron compounds exhibits emissions λ<sub>max</sub> at 613, 583, and 567 nm for dPhADBA, dmAcDBA, and SpAcDBA, respectively. It is noteworthy that the rod-like D-A-D structures can achieve high horizontal ratios (84-86%) and outstanding device performance for orange-to-red TADF OLEDs: the highest external quantum efficiencies for dPhADBA, dmAcDBA, and SpAcDBA are 11.1 ± 0.5, 24.9 ± 0.5, and 30.0 ± 0.8%, respectively. Therefore, these diboron-based molecules offer a promising avenue for the design of orange-to-red TADF emitters and the development of highly efficient orange-to-red OLEDs.
Approaches for Scattering Estimation and System Validation in X-Ray Guided Continuous Wave Near Infrared Spectral Tomographic Imaging of the Breast (2014)

A cohort of 15 normal women were imaged using a combined CW NIR tomography and breast tomosynthesis unit, as well as a handheld frequency domain NIR probe and three different methods for scattering estimation were compared.
Development of an active high-density transverse intrafascicular micro-electrode probe (2019)

Abstract In this work, the development of an active high-density transverse intrafascicular micro-electrode (hd-TIME) probe to interface with the peripheral nervous system is presented. The TIME approach is combined with an active probe chip, resulting in improved selectivity and excellent signal-to-noise ratio. The integrated multiplexing capabilities reduce the number of external electrical connections and facilitate the positioning of the probe during implantation, as the most interesting electrodes of the electrode array can be selected after implantation. The probe chip is packaged using thin-film manufacturing techniques to allow for a minimally invasive electronic package. Special attention is paid to the miniaturization, the mechanical flexibility and the hermetic encapsulation of the device. A customized probe chip was designed and packaged using a flexible, implantable thin electronic package (FITEP) process platform. The platform is specifically developed for making slim, ultra-compliant, implantable complementary metal-oxide-semiconductor based electronic devices. Multilayer stacks of polyimide films and HfO 2 /Al 2 O 3 /HfO 2 layers deposited via atomic layer deposition act as bidirectional diffusion barriers and are key to the hermetic encapsulation. Their efficacy was demonstrated both by water vapor transmission rate tests and accelerated immersion tests in phosphate buffered saline at 60 °C. Using the hd-TIME probe, an innovative implantation method is developed to prevent the fascicles from moving away when the epineurium is pierced. In addition, by transversally implanting the hd-TIME probe in the proximal sciatic nerve of a rat, selective activation within the nerve was demonstrated. The FITEP process platform can be applied to a broader range of integrated circuits and can be considered as an enabler for other biomedical applications.
Novel biocatalytic reduction of aryl azides: chemoenzymatic synthesis of pyrrolo[2,1-c][1,4]benzodiazepine antibiotics1 (1997)

The chemoselective reduction of aryl azides to aryl amines, and the synthesis of the imine-containing pyrrolo[2,1-c]- [1,4]benzodiazepine DNA-binding antitumour antibiotics by selective biocatalytic reductive cyclization of azido aldehydes, has been achieved by employing baker’s yeast.
Growth media and assay plate material can impact on the effectiveness of cationic biocides and antibiotics against different bacterial species (2018)

There are an increasing number of reports of bacterial strains that are multi-drug resistant. The use of biocides as part of infection control is crucial in helping to combat the spread of these particular strains. Unlike for antibiotics, there are few standardized measuring techniques to understand if an isolate has become more resistant to biocides. This study demonstrates the importance of media composition and plate material on variation and reporting of susceptibility of several bacterial species to specific cationic biocides. It is a useful comparison study to highlight the need to standardize biocide susceptibility testing.
Preferences for digital noise reduction and microphone mode settings in hearing-impaired listeners with low and high tolerances for background noise (2019)

<b>Objective:</b> To examine whether people with low and high acceptable noise levels (ANLs) have different preferences for aggressiveness of noise reduction (NR) and microphone mode, and whether they get different noise tolerance benefit with these two features.<b>Design:</b> Participants completed laboratory tests of unaided ANL and aided modified ANLs (with speech fixed at two levels) and preferences (at two SNRs) while listening to four levels of NR, three microphone modes and four combinations of NR/directionality.<b>Study sample:</b> Twenty adults with hearing loss; 10 with low ANLs and 10 with high ANLs.<b>Results:</b> Seven individuals with low ANLs and 10 individuals with high ANLs preferred the maximum NR setting; the remaining three individuals with low ANLs had inconsistent preference for NR. Eight people in each ANL group preferred the maximum directional setting (broadband (BB) directionality), the remaining two people in each group had inconsistent preferences for microphone mode.<b>Conclusions:</b> Because most participants preferred the maximum NR and directionality settings, ANLs could not be used to differentially prescribe these hearing aid settings.
Covariances of Zero Crossings in Gaussian Processes (2011)

For a zero-mean Gaussian process, the covariances of zero crossings can be expressed as the sum of quadrivariate normal orthant probabilities. In this paper, we demonstrate the evaluation of zero crossing covariances using one-dimensional integrals. Furthermore, we provide asymptotics of zero crossing covariances for large time lags and derive bounds and approximations. Based on these results, we analyze the variance of the empirical zero crossing rate. We illustrate the applications of our results by autoregressive (AR) fractional Gaussian noise and fractionally integrated autoregressive moving average (FARIMA) processes.
Design of analog-type high-speed SerDes using digital components for optical chip-to-chip link (2010)

An analog-type high-speed serializer/deserializer (SerDes) has been designed for optical links especially between CPU and memory. The circuit uses a system clock and its phases to multiplex data to the serial link which avoids the need for a PLL-based high frequency clock generation used in serializing parallel data as in conventional SerDes design. The multiplexed link combined with the de-serializing clock is used as a reference signal for de-serialization. The SerDes is being designed in a 0.13 &#956;m Si-CMOS technology. The fabricated serializer has a core chip size of 360 x750 &#956;m<sup>2</sup>. Power dissipation for the SerDes is 71.4 mW operating up to 6.5 Gbps.
An integrated exploration/production workstation (1991)

PreviousNext No AccessSEG Technical Program Expanded Abstracts 1991An integrated exploration/production workstationAuthors: Charles C. BurchJack W. GordonJoel M. PattersonGeorge R. PogmoreCharles C. BurchConoco Inc., Jack W. GordonConoco Inc., Joel M. PattersonConoco Inc., and George R. PogmoreConoco Inc.https://doi.org/10.1190/1.1888927 SectionsAboutPDF/ePub ToolsAdd to favoritesDownload CitationsTrack CitationsPermissions ShareFacebookTwitterLinked InRedditEmail Permalink: https://doi.org/10.1190/1.1888927FiguresReferencesRelatedDetails SEG Technical Program Expanded Abstracts 1991ISSN (print):1052-3812 ISSN (online):1949-4645Copyright: 1991 Pages: 1646 publication data© 1991 Copyright © 1991 Society of Exploration GeophysicistsPublisher:Society of Exploration Geophysicists HistoryPublished: 10 Feb 2005 CITATION INFORMATION Charles C. Burch, Jack W. Gordon, Joel M. Patterson, and George R. Pogmore, (1991), "An integrated exploration/production workstation," SEG Technical Program Expanded Abstracts : 335-337. https://doi.org/10.1190/1.1888927 Plain-Language Summary PDF DownloadLoading ...
Noninvasive measurement of prostate-specific membrane antigen (PSMA) expression with radiolabeled J591 imaging: A prognostic tool for metastatic castration-resistant prostate cancer (CRPC). (2013)

11081 Background: PSMA is nearly universally expressed by PC, upregulated with increased grade and castration-resistance. Evidence points towards PSMA expression as a downstream cellular biomarker of androgen receptor (AR) activity and non-invasive measurement of PSMA expression has recently been demonstrated to be a novel biomarker of AR activity. Methods: Planar gamma camera images following radiolabeled J591 ( 111 In-J591 or 177 Lu-J591) were semi-quantitatively scored using 2 methods by 2 independent radiologists blinded to outcome.A 5-point visual score (VS) of 0 - 4+ was assigned. Tissue Targeting Index (TTI), a novel metric designed to semi-quantitatively score images was calculated using the ratio of lesion count density (corrected for background) to whole body count density, with maximum (TTI max ) and mean (TTI ave ) scores recorded. Follow up tabulating subsequent therapies and overall survival (OS) was recorded and imaging scores were associated with OS using Cox regression analysis. Results: 130 men with metastatic CRPC underwent radiolabeled J591 imaging. 86.2% had bone metastases, 51.5% lymph node, 16.9% lung, 9.2% liver. 87.7% had accurate targeting of known sites of disease by planar imaging. CALGB (Halabi) nomogram scores were prognostic for the population. As continuous variables, TTI max (p=0.013) and TTI ave (p=0.002) were associated with worse survival. VS demonstrated a trend for worse survival (p=0.09). In multivariate analysis, TTI maintained independent prognostic value when controlling for Halabi score: TTI max HR 1.05 [95% CI 1.01, 1.10; p=0.02], TTI ave HR 1.09 [1.03, 1.16; p=0.004]. Conclusions: Level of PSMA expression measured by planar gamma-camera imaging following radiolabeled J591 is associated with OS in men with metastatic CRPC. High PSMA expression may indicate more aggressive tumor biology with increased AR pathway dysfunction. Improvements in quantitative molecular imaging techniques such as PSMA PET/CT with 89 Zr-J591 may prove to be a valuable prognostic and predictive biomarker, particularly in the setting of AR- and PSMA-targeted therapy. Clinical trial information: NCT00195039, NCT00538668.
DNA. A Graphic Guide to the Molecule that Shook the World. By Israel Rosenfield, Edward Ziff and Borin van Loon. (2011)

Columbia University Press, New York, 2011. 272 pp., softcover, $ 19.95.—ISBN 978-0231142717
Repurposing p97 inhibitors for chemical modulation of the bacterial ClpB–DnaK bichaperone system (2020)

The ClpB-DnaK bichaperone system reactivates aggregated cellular proteins and is essential for survival of bacteria, fungi, protozoa, and plants under stress. AAA+ ATPase ClpB is a promising target for the development of antimicrobials because a loss of its activity is detrimental for survival of many pathogens and no apparent ClpB orthologs are found in metazoans. We investigated ClpB activity in the presence of several compounds that were previously described as inhibitor leads for the human AAA+ ATPase p97, an antitumor target. We discovered that N<sup>2</sup>,N<sup>4</sup>-dibenzylquinazoline-2,4-diamine (DBeQ), the least potent among the tested p97 inhibitors, binds to ClpB with a K<sub>d</sub>∼60 μM and inhibits the casein-activated, but not the basal, ATPase activity of ClpB with an IC<sub>50</sub>∼5 μM. The remaining p97 ligands, which displayed a higher affinity toward p97, did not affect the ClpB ATPase. DBeQ also interacted with DnaK with a K<sub>d</sub>∼100 μM and did not affect the DnaK ATPase but inhibited the DnaK chaperone activity in vitro. DBeQ inhibited the reactivation of aggregated proteins by the ClpB-DnaK bichaperone system in vitro with an IC<sub>50</sub>∼5 μM and suppressed the growth of cultured Escherichia coli. The DBeQ-induced loss of E. coli proliferation was exacerbated by heat shock but was nearly eliminated in a ClpB-deficient E. coli strain, which demonstrates a significant selectivity of DBeQ toward ClpB in cells. Our results provide chemical validation of ClpB as a target for developing novel antimicrobials. We identified DBeQ as a promising lead compound for structural optimization aimed at selective targeting of ClpB and/or DnaK.
Evidence for small-molecule-mediated loop stabilization in the structure of the isolated Pin1 WW domain (2013)

The human Pin1 WW domain is a small autonomously folding protein that has been useful as a model system for biophysical studies of β-sheet folding. This domain has resisted previous attempts at crystallization for X-ray diffraction studies, perhaps because of intrinsic conformational flexibility that interferes with the formation of a crystal lattice. Here, the crystal structure of the human Pin1 WW domain has been obtained via racemic crystallization in the presence of small-molecule additives. Both enantiomers of a 36-residue variant of the Pin1 WW domain were synthesized chemically, and the L- and D-polypeptides were combined to afford diffracting crystals. The structural data revealed packing interactions of small carboxylic acids, either achiral citrate or a D,L mixture of malic acid, with a mobile loop region of the WW-domain fold. These interactions with solution additives may explain our success in crystallization of this protein racemate. Molecular-dynamics simulations starting from the structure of the Pin1 WW domain suggest that the crystal structure closely resembles the conformation of this domain in solution. The structural data presented here should provide a basis for further studies of this important model system.