gebhart/patrepeval huggingface dataset:
Control of Voltage-Independent Zinc Inhibition of NMDA Receptors by the NR1 Subunit (1998)

Zinc inhibits NMDA receptor function through both voltage-dependent and voltage-independent mechanisms. In this report we have investigated the role that the NR1 subunit plays in voltage-independent Zn2+ inhibition. Our data show that inclusion of exon 5 into the NR1 subunit increases the IC50 for voltage-independent Zn2+ inhibition from 3-fold to 10-fold when full length exon 22 is also spliced into the mature NR1 transcript and the NMDA receptor complex contains the NR2A or NR2B subunits; exon 5 has little effect on Zn2+ inhibition of receptors that contain NR2C and NR2D. Mutagenesis within exon 5 indicates that the same residues that control proton inhibition, including Lys211, also control the effects of exon 5 on Zn2+ inhibition. Amino acid exchanges within the NR1 subunit but outside exon 5 (E181Q, E339Q, E342Q, N616R, N616Q, D669N, D669E, C744A, and C798A) that are known to decrease the pH sensitivity also decrease the Zn2+ sensitivity, and concentrations of spermine that relieve tonic proton inhibition also relieve Zn2+ inhibition. In summary, our results define the subunit composition of Zn2+-sensitive NMDA receptors and provide evidence for structural convergence of three allosteric regulators of receptor function: protons, polyamines, and Zn2+.
Epidemiologic Studies of Streptococcus pneumoniae in Infants: Acquisition, Carriage, and Infection during the First 24 Months of Life (1980)

A natural history study of pneumococcal infection in 82 infants followed from birth is reported. Longitudinal carriage patterns were determined by serial throat and nasopharyngeal cultures. Seventy-nine of 82 infants carried one or more types during the study period. The first type was acquired by a mean age of six months, and the duration of carriage decreased with successive types carried. Acquisition of new types peaked in winter months, but carriage rates fluctuated throughout the year. Thirty-one pneumococcal infections were documented in 24 infants: 28 episodes of otitis media, two of bacteremia, and one of meningitis. Types causing disease were similar to commonly carried types (6, 14, 19 and 23). However, infection usually occurred within one month of acquisition of a new type and was seldom associated with prolonged carriage. In terms of exposure to new strains, 15% (31 of 196) of acquisitions resulted in disease.
Swept-Wavelength Source for Optical Coherence Tomography in the 1 µm Range (2005)

We present a novel implementation of the lightwave synthesized frequency sweeper based on Ytterbium doped fibre amplifiers and a tunable optical filter. We demonstrate the use of the source for swept source optical coherence tomography.
Superconducting superferric dipole magnet with cold iron core for the VLHC (2002)

Magnetic system of the stage I Very Large Hadron Collider (VLHC) is based on 2 Tesla superconducting magnets with combined functions. These magnets have a room temperature iron yoke with two 20 mm air gaps. Magnetic field in both horizontally separated air gaps is generated by a single, 100 kA superconducting transmission line. An alternative design with a cold iron yoke, horizontally or vertically separated air gaps is under investigation. The cold iron option with horizontally separated air gaps reduces the amount of iron, which is one of the major cost drivers for the 233-km magnet system of future accelerator. The vertical beam separation decreases the superconductor volume, heat load from the synchrotron radiation and eliminates fringe field from the return bus. Nevertheless, the horizontal beam separation provides lowest volume of the iron yoke and, therefore, smaller heat load on the cryogenic system during cooling down. All these options are discussed and compared in the paper. Superconducting correction system combined with the magnet that allows increasing the maximum field is also discussed. Preliminary cost analysis is performed for all these options.
Large-Scale Adaptive Electric Vehicle Charging (2018)

Large-scale charging infrastructure will play an important role in supporting the adoption of electric vehicles. In this paper, we address the prohibitively high capital cost of installing large numbers of charging stations within a parking facility by oversubscribing key pieces of electrical infrastructure. We describe a unique physical testbed for large-scale, high- density EV charging research which we call the Adaptive Charging Network (ACN). We describe the architecture of the ACN including its hardware and software components. We also present a practical framework for online scheduling, which is based on model predictive control and convex optimization. Based on our experience with practical EV charging systems, we introduce constraints to the EV charging problem which have not been considered in the literature, such as those imposed by unbalanced three-phase infrastructure. We use simulations based on real data collected from the ACN to illustrate the trade-offs involved in selecting models for infrastructure constraints and accounting for non-ideal charging behavior.
A Case of Association between Hepatocellular Carcinoma and Porphyria Variegata (1994)

Sixteen months after surgical resection of the HCC the patient was still alive.
Continuous Monitoring of Enzymatic Reactions on Surfaces by Real-Time Flow Cytometry: Sortase A Catalyzed Protein Immobilization as a Case Study (2014)

Only a few techniques, such as quartz crystal microbalance and surface plasmon resonance spectroscopy, enable the analysis of dynamic processes on solid supports. Here we have developed a straightforward assay based on flow cytometry to continuously follow enzymatic reactions directly on microparticle surfaces. We applied this real-time flow cytometry (RT-FCM) approach to study the covalent immobilization of green-fluorescent protein (GFPuv) on triglycine-modified polystyrene microbeads by the transpeptidase sortase A (SrtA) from Staphylococcus aureus. Though commonly treated as functionally identical catalysts, the SrtA variants SrtAΔ₅₉ and SrtAΔ₂₅, in which the N-terminal amino acid residues 1-59 and 1-25 of the native enzyme are truncated, were shown to perform very differently with regard to this particular immobilization reaction. While SrtAΔ₅₉ efficiently catalyzed the covalent attachment of GFPuv to the surface (as indicated by a linear increase of microbead fluorescence), SrtAΔ₂₅ was essentially inactive. Besides the length of the N-terminal amino acid extension on the SrtA construct, the position of the hexahistidine tag at either the N- or C-terminus affected the efficiency of enzymatic protein immobilization. Apart from three enzyme variants containing the native core structure of SrtA, we also included three recently evolved mutants of SrtA in this comparative study. With these mutants we observed a rapid initial attachment of the GFPuv target protein to the microbeads. However, with proceeding reaction time, cleavage of the covalently immobilized target protein from the surface prevailed over the coupling reaction, consequently causing a decline of microbead fluorescence. In general, the RT-FCM approach used herein represents a powerful analytical tool for qualitative dynamic studies of many heterogeneous enzymatic reactions or other binding events that influence the fluorescence properties of microparticle surfaces.
Apoptotic signal transduction: emerging pathways (1998)

Apoptosis is a counterbalance to mechanisms of cell proliferation and is critically important in regulation of the immune system, development, and normal tissue homeostasis. Mammalian signal transduction pathways affecting apoptosis are more complex than their counterparts in the nematode Caenorhabditis elegans, a valuable model system that has provided powerful initial insights into key molecules regulating apoptosis. Despite this complexity, substantial progress has been made in recent years towards defining the nature and detail of signalling pathways bringing about apoptosis in mammalian cells. In particular, the identity and precise substrate specificities of a large family of caspase enzymes, implicated as critical components of the apoptotic machinery, have been defined. In addition, the mechanism by which the cell surface Fas receptor mediates induction of apoptosis, via activation of caspases, has recently been elucidated. A prominent role for mitochondria in cell death pathways has also recently emerged, a clear theme being that mitochondria can trigger degradative events by the release of apoptogenic proteins (e.g., cytochrome c) from the intermembrane space to the cytosol. This review focusses on recent progress in these areas and discusses integration of this knowledge in our overall understanding of the processes that control apoptosis.Key words: caspases, Fas receptor, mitochondria, cytochrome c, AIF.
Vasoconstrictors in Facial Plastic Surgery (1991)

The effectiveness of local anesthetics is improved by the addition of a vasoconstrictor with an increased duration of action and the ability to decrease both systemic toxic reactions and local bleeding. Epinephrine, the standard drug for vasoconstriction, has some limitations due to potential cardiac and local toxic effects. Using an animal model, we compared the effects of various concentrations of epinephrine and two other vasoconstrictors, phenylephrine hydrochloride and felypressin, on local blood flow. We also examined the local effects of bupivacaine hydrochloride and ropivacaine hydrochloride, a new local anesthetic. We found that felypressin was as effective a vasoconstrictor as epinephrine, with fewer potential toxic reactions. Phenylephrine (Neo-Synephrine), on the other hand, was less effective, with a shorter duration of action. As expected, bupivacaine produced vasodilation, while ropivacaine was found to have vasoconstrictive properties.
Processing of the platelet-derived growth factor receptor. Biosynthetic and degradation studies using anti-receptor antibodies. (1987)

Studies of platelet-derived growth factor (PDGF) receptor biosynthesis and degradation have been limited by the lack of anti-receptor antibodies. In this study, peptides based on the cDNA-predicted amino acid sequence of the PDGF receptor were used to produce antisera that specifically immunoprecipitated the receptor. PDGF receptor biosynthesis was examined by pulse-chase labeling of cultured fibroblasts with [35S]methionine followed by immunoprecipitation. In BALB/c 3T3 fibroblasts the receptor was synthesized as a 160-kDa precursor that was converted to a mature 180-kDa form within 30-45 min. Removal of high mannose oligosaccharides by endo-beta-N-acetylglucosaminidase H treatment reduced the apparent molecular weight of the 160-kDa precursor but did not affect the migration of the 180-kDa mature receptor. When mannosidase II was inhibited by swainsonine, the 160-kDa precursor failed to mature; instead a 168-kDa form of the receptor was observed. Nevertheless, swainsonine-treated cells responded mitogenically to PDGF. The mature 180-kDa form of the receptor had a half-life of approximately 3 h in the absence of ligand. Addition of PDGF reduced the receptor half-life to 45 min. These studies define and characterize a PDGF receptor precursor, show that receptor degradation is enhanced by PDGF, and demonstrate the functional integrity of incompletely processed PDGF receptors.
A novel mechanism for cancer cells to evade immune attack by NK cells (2012)

We recently reported proliferating cell nuclear antigen (PCNA) as a ligand for the NK cell activating receptor, NKp44, which unexpectedly triggers inhibition. The recognition of nuclear proteins such as PCNA, by related NK cell receptors has been reported. Widespread upregulation of PCNA in tumor cells may therefore promote immune evasion.
CD4+ T-lymphocyte telomere length is related to fibrosis stage, clinical outcome and treatment response in chronic hepatitis C virus infection (2010)

CD4+ T-lymphocyte telomere length, independent of age, was related to inflammatory grade, fibrosis stage, laboratory indices of severity, subsequent hepatic decompensation and treatment outcome in patients with chronic HCV infection.
Metal Extraction Processes for Electronic Waste and Existing Industrial Routes: A Review and Australian Perspective (2014)

The useful life of electrical and electronic equipment (EEE) has been shortened as a consequence of the advancement in technology and change in consumer patterns. This has resulted in the generation of large quantities of electronic waste (e-waste) that needs to be managed. The handling of e-waste including combustion in incinerators, disposing in landfill or exporting overseas is no longer permitted due to environmental pollution and global legislations. Additionally, the presence of precious metals (PMs) makes e-waste recycling attractive economically. In this paper, current metallurgical processes for the extraction of metals from e-waste, including existing industrial routes, are reviewed. In the first part of this paper, the definition, composition and classifications of e-wastes are described. In the second part, separation of metals from e-waste using mechanical processing, hydrometallurgical and pyrometallurgical routes are critically analyzed. Pyrometallurgical routes are comparatively economical and eco-efficient if the hazardous emissions are controlled. Currently, pyrometallurgical routes are used initially for the segregation and upgrading of PMs (gold and silver) into base metals (BMs) (copper, lead and nickel) and followed by hydrometallurgical and electrometallurgical processing for the recovery of pure base and PMs. For the recycling of e-waste in Australia, challenges such as collection, transportation, liberation of metal fractions, and installation of integrated smelting and refining facilities are identified.
Exploiting locality to ameliorate packet queue contention and serialization (2006)

Packet processing systems maintain high throughput despite relatively high memory latencies by exploiting the coarse-grained parallelism available between packets. In particular, multiple processors are used to overlap the processing of multiple packets. Packet queuing-the fundamental mechanism enabling packet scheduling, differentiated services, and traffic isolation-requires a read-modify-write operation on a linked list data structure to enqueue and dequeue packets; this operation represents a potential serializing bottleneck. If all packets awaiting service are destined for different queues, these read-modify-write cycles can proceed in parallel. However, if all or many of the incoming packets are destined for the same queue, or for a small number of queues, then system throughput will be serialized by these sequential external memory operations. For this reason, low latency SRAMs are used to implement the queue data structures. This reduces the absolute cost of serialization but does not eliminate it; SRAM latencies determine system throughput.In this paper we observe that the worst-case scenario for packet queuing coincides with the best-case scenario for caches: i.e., when locality exists and the majority of packets are destined for a small number of queues. The main contribution of this work is the queuing cache, which consists of a hardware cache and a closely coupled queuing engine that implements queue operations. The queuing cache improves performance dramatically by moving the bottleneck from external memory onto the packet processor, where clock rates are higher and latencies are lower. We compare the queuing cache to a number of alternatives, specifically, SRAM controllers with: no queuing support, a software-controlled cache plus a queuing engine (like that used on Intel's IXP network processor), and a hardware cache. Relative to these models, we show that a queuing cache improves worst-case throughput by factors of 3.1, 1.5, and 2.1 and the throughput of real-world traffic traces by factors of 2.6, 1.3, and 1.75, respectively. We also show that the queuing cache decreases external memory bandwidth usage, on-chip communication, and the number of queuing instructions executed under best-case, worst-case and real-world traffic workloads. Based on our VHDL models, we conclude that a queuing cache could be implemented at a low cost relative to the resulting performance and efficiency benefits.
GAL4 transcription factor is not a "zinc finger" but forms a Zn(II)2Cys6 binuclear cluster. (1990)

The DNA-binding domain of the transcription factor GAL4, consisting of the 62 N-terminal residues and denoted GAL4(62*), contains a Cys-Xaa2-Cys-Xaa6-Cys-Xaa6-Cys-Xaa2-Cys-Xaa6+ ++-Cys motif, which has been shown previously to bind two Zn(II) or Cd(II) ions. Binding of Zn(II) or Cd(II) is essential for the recognition by GAL4 of the specific palindromic DNA sequence to which it binds upstream of genes for galactose-metabolizing enzymes, the UASG sequence. On the basis of the 113Cd NMR chemical shifts of the two bound 113Cd(II) ions, we propose a binuclear cluster model for this Zn(II)-binding subdomain. 1H-113Cd heteronuclear multiple-quantum NMR spectroscopy and phase-sensitive double-quantum filtered 1H correlation spectroscopy of the 112Cd(II)- and 113Cd(II)-substituted GAL4(62*) derivatives provide direct evidence that the two bound 113Cd(II) ions are coordinated only by the six cysteine residues, two of which form bridging ligands between the two 113Cd(II) ions. The latter can be identified from the pattern of 1H-113Cd J coupling. Thus a binuclear metal ion cluster rather than a "zinc finger" is formed by the six cysteine residues of the GAL4 DNA-binding domain. This model can be directly applied to eight other fungal transcription factors which have been shown to contain similarly spaced Cys6 clusters. 1H NMR spectra of apo-GAL4(62*) suggest conformational fluctuation of the metal-binding subdomain upon removal of Zn(II) or Cd(II). Both Cd(II)2- and Zn(II)2-containing species of GAL4 can be formed, and the similar 1H NMR spectra suggest similar conformations.
Optimizing the Photocatalytic Properties of Hydrothermal TiO2 by the Control of Phase Composition and Particle Morphology. A Systematic Approach (2007)

The possibility of controlling the photocatalytic activity of TiO2 nanoparticles by tailoring their crystalline structure and morphology is a current topic of great interest. In this study, a broad variety of well-faceted particles with different phase compositions, sizes, and shapes have been obtained from concentrated TiOCl2 solutions by systematically changing temperature, pH, and duration of the hydrothermal treatment. The guide to select the suitable experimental conditions was provided by thermodynamic modeling based on available thermochemical data. By combining the results of TEM, HRTEM, XRD, density, and specific surface area measurements, a complete structural and morphological characterization of the particles was performed. Correlation between the photocatalytic activity in the UV photodegradation of phenol solutions and the particle size was established. Prismatic rutile particles with length/width ratio around 5 and breadth of 60−100 nm showed the highest activity. The surface chemistry of the particles was also investigated. Treatments that decrease the surface acidity, such as washing the powders with ammonia solution and/or calcining at 400 °C, have detrimental effect on photocatalytic activity. The overall results suggest correlation between particle morphology and photocatalytic activity and indicate that both electron−hole recombination and adsorption at the surface can be rate-controlling processes. The systematic approach presented in this study demonstrates that a substantial improvement of the photocatalytic activity of TiO2 can be achieved by a careful design of the particle morphology and the control of the surface chemistry.
Stimulus Responsive Behavior of Elastin-Based Side Chain Polymers (2005)

Linear poly(VPGVG) has been extensively studied over the years as a model for the structural protein elastin. Elastin is characterized by a lower critical solution temperature (LCST). This LCST can be influenced by several factors, mainly molecular weight, concentration, and pH. An ABA type block copolymer was synthesized using atom transfer radical polymerization (ATRP), in which the VPGVG sequence is in the side chain of the A block and the B block is poly(ethylene glycol) (PEG). The LCST behavior of this series of elastin based side chain block copolymers was investigated by changing the degree of polymerization, polymer concentration, and pH. The effects of these parameters on the LCST of the side chain block copolymers were similar when compared with linear poly(VPGVG). The aggregates which were formed above the transition temperature were investigated using light scattering and cryo-SEM techniques.
Prognostic Value of the Admission Electrocardiogram in Acute Coronary Syndromes (1999)

The ECG at presentation allows immediate risk stratification across the spectrum of acute coronary syndromes. An elevated creatine kinase level at admission is associated with worse outcomes.
A prospective, single‐blind, randomized crossover trial of sacral vs pudendal nerve stimulation for interstitial cystitis (2007)

This is the first 'blinded' study of SNS vs PNS for IC. A pudendal lead was implanted successfully in all patients, and most chose PNS as better than SNS; the improvement was sustained over time.
Genome coverage and sequence fidelity of 29 polymerase-based multiple strand displacement whole genome amplification (2004)

Major efforts are underway to systematically define the somatic and germline genetic variations causally associated with disease. Genome-wide genetic analysis of actual clinical samples is, however, limited by the paucity of genomic DNA available. Here we have tested the fidelity and genome representation of phi29 polymerase-based genome amplification (phi29MDA) using direct sequencing and high density oligonucleotide arrays probing >10,000 SNP alleles. Genome representation was comprehensive and estimated to be 99.82% complete, although six regions encompassing a maximum of 5.62 Mb failed to amplify. There was no degradation in the accuracy of SNP genotyping and, in direct sequencing experiments sampling 500,000 bp, the estimated error rate (9.5 x 10(-6)) was the same as in paired unamplified samples. The detection of cancer-associated loss of heterozygosity and copy number changes, including homozygous deletion and gene amplification, were similarly robust. These results suggest that phi29MDA yields high fidelity, near-complete genome representation suitable for high resolution genetic analysis.
<title>Low-cost perceptive digital picture watermarking method</title> (1997)

This paper presents an additive watermarking technique for grey scale pictures, which can be extended to video sequences. It consists of embedding secretly a copyright information (a binary scale) in the picture without degrading its quality. Those bits are encoded through the phase of Maximal Length Sequences (MLS). MLS are sequences having good correlation properties, which means that the result of the autocorrelation is far greater than crosscorrelations, i.e. correlations made with shifted version of this sequence. This embedding is performed line by line going from the top to the bottom of the picture as the objective was to implement a low cost and real time embedding method able to work for common video equipments. The very embedding process is underlain by a masking criterion that guarantees the invisibility of the watermark. This perceptive criterion, deduced from physiological and psychophysic studies, has already proved its efficiency in a previously presented paper. It is combined with an edge and texture discrimination to determine the embedding level of the MLS, whose bits are actually spread over 32 by 8 pixel squares. Eventually, some preliminary results are presented, which analyze the efficacy of the decoding as well as the resistance of the watermark towards compression and robustness against malevolent treatments.