gebhart/patrepeval huggingface dataset:
Identification and transcriptional profiling of<i>Pseudomonas putida</i>genes involved in furoic acid metabolism (2008)

Pseudomonas putida Fu1 metabolizes furfural through a pathway involving conversion to 2-oxoglutarate, via 2-furoic acid (FA) and coenzyme A intermediates. Two P. putida transposon mutants were isolated that had impaired growth on furfural and FA, and DNA flanking the transposon insertion site was cloned from both mutants. The transposons disrupted psfB, a LysR-family regulatory gene in mutant PSF2 and psfF, a GcvR-type regulatory gene in PSF9. Disruption of two genes adjacent to psfB demonstrated that both are important for growth on FA, and ORFs in the proximity of psfB and psfF were transcriptionally activated during growth of P. putida on FA. Transcript levels increased in response to FA by 10-fold (a putative permease gene) to >1000-fold (a putative decarboxylase gene). The LysR-family gene appears to act positively, and the GcvR-family gene negatively, in regulating expression of neighboring genes in response to FA.
On-Chip Voice-Coil Motor Driver for Mobile Auto-Focus Camera Applications (2005)

On-chip voice-coil motor (VCM) driver for mobile auto-focus (AF) camera applications is proposed and integrated into image signal processor (ISP) satisfying small size and low-power consumption. In order to control the location of AF lens, a charge pump (CP) or digital-to-analog converter (DAC) can be selected. Since a large current is required to drive the VCM, the buffer amplifier was inserted after charge pump or DAC. On-chip VCM driver is fabricated using a commercial 0.18 mum CMOS technology. As the result, the chip shows the fast speed enough to operate with 30-fps image signal processor and the quiescent current consumption of 0.32-mA
Ionic Strength and pH Effects on Composition and Microstructure of Yolk Granules (1991)

ABSTRACT We investigated the microstructure of hen egg granules. Polyacrylamide gel electrophoresis revealed that the granules consisted of three proteins (low‐density lipoprotein, lipovitellin and phosvitin). Atomic absorption spectrometry revealed a notable amount of divalent and trivalent cations. Scanning electron microscopy showed that pH modifications induced the loss of granule structure by solubilization of proteins. Similar observations were made when ionic strength was increased by addition of sodium chloride. All results were indicative of the. existence of phosphocalcic bridges between phosphate groups of the three proteins.
Protein–protein interactions in <i>trans</i>-AT polyketide synthases (2018)

Covering: up to 2018 The construction of polyketide natural products by type I modular polyketide synthases (PKSs) requires the coordinated action of several protein subunits to ensure biosynthetic fidelity. This is particularly the case for trans-AT PKSs, which in contrast to most cis-AT PKSs, contain split modules and employ several trans-acting catalytic domains. This article summarises recent advances in understanding the protein-protein interactions underpinning subunit assembly and intra-subunit communication in such systems and highlights potential avenues and approaches for future research.
Multiple Mechanisms of Ketamine Blockade of N-methyl-D-aspartate Receptors  (1997)

These observations are consistent with a model whereby ketamine inhibits the NMDA receptor by two distinct mechanisms: (1) Ketamine blocks the open channel and thereby reduces channel mean open time, and (2) ketamine decreases the frequency of channel opening by an allosteric mechanism.
Bank-Aware Instruction Scheduler for a Multibanked Register File (2018)

The region that includes the register file is a hot spot in high-performance cores that limits the clock frequency. Although multibanking drastically reduces the area and energy consumption of the register files of superscalar processor cores, it suffers from low IPC due to bank conflicts. This paper proposes a bank-aware instruction scheduler which selects instructions so that no bank conflict occurs, except for a bank conflict in one instruction. The evaluation results show that, compared with NORCS, which is the latest research on a register file for area and energy efficiency, a proposed register file with 24 banks achieves a 20.9% and 56.0% reduction in circuit area and in energy consumption, while maintaining a relative IPC of 97.0%, and the latency of the instruction scheduler.
Genetic framework for the high level optimisationof low power VLSI DSP systems (1996)

The authors present a technique for optimising CMOS based DSP systems for power. A genetic algorithm is used to reduce power, while tracking area and speed specifications, through the application of high level transformations. The algorithm searches for systems with the lowest power consumption within a large solution space. Results are presented which demonstrate the efficiency of the genetic algorithm as a power optimisation tool for complex VLSI systems.
Evaluation of a 64*64 CdSe TFT addressed ACTFEL display demonstrator (2002)

An operating ACTFEL (AC thin-film electroluminescent display), addressed with TFTs, has been demonstrated. To achieve this, the authors used self-healing electrodes, limited the power supplied to the display, and used a stepped annealing cycle for the TFTs. The display could be driven with 10-V external drivers at a frame rate of 50 Hz and an EL driving frequency of 100 Hz.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Involvement of cytosolic prolyl endopeptidase in degradation of p40-phox splice variant protein in myeloid cells (2001)

Our previous studies indicated that an alternatively spliced variant mRNA of p40-phox, a cytosolic component of NADPH oxidase, is expressed but its protein is hardly detected in myeloid cells such as promyelocytic HL-60 cells and neutrophils. Here, we have examined the stability of p40-phox variant protein in undifferentiated HL-60 cells. When in vitro-translated proteins were incubated with subcellular fractions of HL-60 cells, p40-phox variant protein but not native p40-phox was degraded by the cytosol and granule fractions. The degradation of variant protein by the granule fraction was observed using sonicated but not intact granules, suggesting that the variant protein is unlikely to be degraded by the granules in intact cells. To identify the enzyme(s) involved, we examined the effects of various enzyme inhibitors on the degradation of variant protein by the cytosol fraction. Degradation was completely inhibited by proline-specific serine protease (prolyl endopeptidase) inhibitors but not by proteasome, calpain, and metalloprotease inhibitors. Furthermore, the variant protein was degraded by a purified prolyl endopeptidase, and the degradation was protected by treating HL-60 cells with a cell-permeable inhibitor (S17092-1) for prolyl endopeptidase. These observations suggest that a cytosolic prolyl endopeptidase is involved in the degradation of p40-phox variant protein in myeloid cells.
Effect of rate-adapting atrioventricular delay on stroke volume and cardiac output during atrial synchronous pacing. (1990)

The need to adjust atrioventricular delay relative to pacing rate in atrial synchronous pacemakers was assessed in eight subjects treated for complete heart block (mean age 61 +/- 3.4 years). First, an inverse relationship between heart rate and PR interval was confirmed in two groups of healthy subjects and one group of patients recovering from myocardial infarction. Due to the limitations of the available pacemakers this relationship could not be precisely reproduced. Subjects with pacemakers performed an initial exercise test on a bicycle ergometer to determine heart rate response; this information was used in part 2 to program atrioventricular delay relative to heart rate. During a second exercise test, a rate-adapting atrioventricular delay was compared to a constant atrioventricular delay of 200 ms at matched heart rates. Cardiac output was measured noninvasively by impedance cardiography. The results of part 1 showed an abnormal pattern in the response of stroke volume to exercise in seven subjects. Part 2 results demonstrated no significant difference (P greater than 0.05) between a rate-adapting atrioventricular delay and a constant delay of 200 ms for heart rate, stroke volume, cardiac output, blood pressure or Borg scale. A trend towards increased stroke volume with a rate-adapting atrioventricular delay was observed. Stroke volume was 13% larger with a rate-adapting atrioventricular delay of 125 ms at a heart rate of 125 beats/min. These results suggest that subjects with atrial synchronous pacemakers have a variable stroke volume response to exercise. It appears that in these subjects the ability to increase heart rate is the key factor for raising cardiac output during exercise.
Polymer Phase Diagrams: A Textbook (2001)

Preface Glossary of symbols PART 1. PRINCIPLES OF HETEROGENEOUS EQUILIBRIUM 1. Single-component systems 2. Mixtures 3. Binary systems, Bakhuis-Roozeboom Diagram 4. Binary systems, partial miscibility in the liquid phase, and supercritical phenomena 5. Binary systems, solid solutions, and compounds 6. Ternary and multicomponent systems PART 2. SIMPLE MODELLING 8. Introduction 7. Modelling partial miscibility and solid/liquid equilibrium PART 3. HETEROGENEOUS EQUILIBRIUM IN MACROMOLECULAR SYSTEMS 9. Partial miscibility of strictly-binary polymer systems 10. Partial miscibility of quasi-binary polymer systems 11. The influence of pressure 12. Solid/liquid equilibrium 13. Quasi-ternary polymer systems 14. Fractionation of polymers 15. Miscellaneous phase transitions APPENDICES Appendix 2 - Simple modelling for small-molecule systems Appendix 3 - Calculation of cloudpoint, shadow, and coexistence curves Appendix 4 - Simple modelling of equilibria in polymeric systems Appendix 5 - Numerical evaluations of interaction parameters Appendix 6 - Molecular basis of the interaction parameter Appendix 7 - Answers for exercises
Scanned light sheet microscopy with confocal slit detection (2012)

In light sheet fluorescence microscopy optical sectioning is achieved by illuminating the sample orthogonally to the detection pathway with a thin, focused sheet of light. However, light scattering within the sample often deteriorates the optical sectioning effect. Here, we demonstrate that contrast and degree of confocality can greatly be increased by combining scanned light sheet fluorescence excitation and confocal slit detection. A high frame rate was achieved by using the "rolling shutter" of a scientific CMOS camera as a slit detector. Synchronizing the "rolling shutter" with the scanned illumination beam results in confocal line detection. Acquiring image data with selective plane illumination minimizes photo-damage while simultaneously enhancing contrast, optical sectioning and signal-to-noise ratio. Thus the imaging principle presented here merges the benefits of scanned light sheet microscopy and line-scanning confocal imaging.
Organometallic VPE Growth of InAs<sub>1-<i>x</i></sub>Sb<sub><i>x</i></sub>on InAs (1980)

InAs1-xSbx vapor phase epitaxial growth was carried out on InAs substrate using triethylindium, triethylantimony and arsine. The vapor-solid distribution relations for the group V elements were obtained. A simplified formula for the distribution relation, which assumes thermodynamical equilibrium, is presented. The calculated distribution relation was fitted with experimental results. To study the lattice deformations rocking-curve measurements were made using X-ray double-crystal diffraction for (004) and (115) planes. The lattice distortion gradually decreased with increasing lattice mismatch up to 7 %, and cross-hatched surfaces were also observed in this region.
A low-phase-noise LC-VCO with an enhanced-<i>Q</i>varactor for use in a high-sensitivity GNSS receiver (2012)

An LC-VCO with an enhanced quality factor (Q/ varactor for use in a high-sensitivity GNSS receiver is presented. An enhanced A-MOS varactor is composed of two accumulation-mode MOS (A-MOS) varactors and two bias voltages, which show the improved Q and linearization capacitance-voltage (C -V / curve. The VCO gain (KVCO/ is compensated by a digital switched varactors array (DSVA) over entire sub-bands. Based on the characteristics of an A-MOS, the varactor in a DSVA is a high Q fixed capacitor as it is switched off, and a moderate Q tuning varactor when it is switched on, which keeps the maximal Q for the LC-tank. The proposed circuit is fabricated in a 0.18 m 1P6M CMOS process. The measured phase noise is better than -122 dBc/Hz at a 1 MHz offset while the measured tuning range is 58.2% and the variation of KVCO is close to 21% over the whole of the sub-bands and the effective range of the control voltage. The proposed VCO dissipates less than 5.4 mW over the whole operating range from a 1.8 V supply.
Adsorption of Mercury(II) by Kaolinite (2000)

Adsorption of Hg(II) by kaolinite was investigated as a function of solution pH, ionic strength, and the competitive or complexation effects of ligands (Cl, SO 4 , PO 4 ) and metals (Ni and Pb). Mercury(II) adsorption from a 0.6 μ M Hg(II) solution was primarily influenced by pH. The Hg(II) adsorption edge was described by a pH 50 (pH where 50% adsorption occurs) of 3.4 and a pH max (pH where maximum adsorption occurs) of 4.4. At pH values above the pH max , Hg(II) retention decreased with increasing pH. Chloride and Ni shifted pH 50 from 3.4 to 7 and 4.1, respectively. Nickel and Pb reduced the amount of Hg(II) adsorbed throughout the pH range examined. Ionic strength and the presence of SO 4 and PO 4 had relatively little impact on the Hg(II) adsorption envelope. The adsorption of Hg(II) was predicted through the application of the triple layer model (TLM) by assuming that the kaolinite surface was composed of equal proportions of silanol and aluminol groups. The TLM model suggests that the silanol group was responsible for retaining the bulk of the adsorbed Hg(II), through the formation of the ≡SiO − ‐HgOH + outer‐sphere, and the ≡SiOHg OH − 2 and ≡SiOHgCl 0 or ≡SiOHgOHCl − (Cl system) inner‐sphere species. The ≡AlO − ‐HgOH + outer‐sphere complex accounted for a small percentage (<15–35%) of the adsorbed Hg(II). The TLM results suggested that Hg(II) adsorption by both ≡SiOH and ≡AlOH sites on kaolinite should be considered to predict adequately Hg(II) retention.
Fast pruning using principal components (2018)

We present a new algorithm for eliminating excess parameters and improving network generalization after supervised training. The method, &quot;Principal Components Pruning (PCP)&quot;, is based on principal component analysis of the node activations of successive layers of the network. It is simple, cheap to implement, and effective. It requires no network retraining, and does not involve calculating the full Hessian of the cost function. Only the weight andthenode activity correlation matrices for each layer of nodes are required. We demonstrate the efficacy of the method on a regression problem using polynomial basis functions, and on an economic time series prediction problem using a two-layer, feedforward network.
Potentiation of tumor lysis by a bispecific antibody that binds to CA19-9 antigen and the Fc gamma receptor expressed by human large granular lymphocytes. (1990)

Murine monoclonal antibody therapy of human cancer rarely induces clinical responses. Antibody-induced cellular infiltrates rarely accumulate at sites of tumor, even in clinically responding lesions. Thus, the ability of these antibodies to promote host effector cell-mediated lysis of tumor via antibody-dependent cellular cytotoxicity (ADCC) has not been harnessed by existing treatment approaches. One potential explanation is that ADCC requires binding of antibody Fc domains to cellular Fc gamma receptors, and therapeutically administered murine antibodies must compete with vast excesses of human IgG for Fc gamma receptor occupancy. Chemically linked antibody heteroconjugates that bind selected target and effector cell structures via distinct Fab portions can mediate lysis of malignant cells in vitro in the presence of human serum. This approach addresses a potentially major obstacle to antibody therapy. Production of bispecific monoclonal antibodies with similar specificities and superior in vivo biodistribution characteristics would thus have potential clinical applications. We have prepared and purified a bispecific, monovalent monoclonal antibody and evaluated its in vitro effects. The IgG1-secreting hybridoma line 3G8 (alpha-human Fc gamma R III) was fused with the hybridoma line CA19-9, which produces an IgG1 antibody that binds to a glycoprotein shed by gastrointestinal cancers. Multiple clones with bispecific binding properties were identified. CA19-9 x 3G8 clonal supernatants and purified antibody, but not the parent antibodies, efficiently mediated specific in vitro lysis of cells of the SW948 line by human large granular lymphocytes (LGLs). Human serum-resistant target cell lysis augmentation at low effector:target ratios was seen using picogram amounts of antibody. In contrast, the IgG2 alpha variant of CA19-9, which also promotes ADCC by LGLs, was unable to augment lysis of SW948 cells when effectors were preincubated with human serum. This bispecific, monovalent monoclonal antibody is an efficient promoter of the anti-tumor effects of LGLs in physiological concentrations of human serum. In vivo models that evaluate treatment efficacy and promotion of inflammatory tumor infiltrates by bispecific monoclonal antibodies are required to assess the therapeutic potential of these novel constructs.
Aerosol Delivery During Mechanical Ventilation: From Basic Techniques to New Devices (2008)

Pressurized metered-dose inhalers (pMDIs) and nebulizers are routinely employed for aerosol delivery in mechanically ventilated patients. A significant proportion of the aerosol deposits in the ventilator circuit and artificial airway, thereby reducing the inhaled drug mass. Factors influencing aerosol delivery during mechanical ventilation differ from those in spontaneously breathing patients. The English language literature on aerosol delivery during mechanical ventilation was reviewed. Marked variations in the efficiency of drug delivery with pMDIs and nebulizers occur due to differences in the technique of administration. Careful attention to five factors, viz., the aerosol generator, aerosol particle size, conditions in the ventilator circuit, artificial airway, and ventilator parameters, is necessary to optimize aerosol delivery during mechanical ventilation. Factors influencing drug delivery during NPPV are not well understood, and the efficiency of aerosol delivery in this setting is lower than that during invasive mechanical ventilaiton. With an optimal technique of administration the efficiency of aerosol delivery during mechanical ventilation is similar to that achieved during spontaneous breathing. Further research is needed to optimize aerosol delivery during NPPV.
Antibiotic use and the efficacy of immune checkpoint inhibitors in cancer patients: a pooled analysis of 2740 cancer patients (2019)

The gut microbiota plays a critical role in the anti-tumor immune response. There is increasing data showing that antibiotics (ATBs) change the composition of the gut microbiota and affect the efficacy of immune checkpoint inhibitors (ICIs). However, this is the first meta-analysis to evaluate the association between ATB use and ICI efficacy in cancer patients to provide a better understanding of the strength of this association. We performed a literature search for relevant studies that evaluated the relationship between ATB use and ICI efficacy using the PubMed, Embase, and conference databases. The primary outcomes consisted of overall survival (OS) and progression-free survival (PFS) measured by hazard ratios (HR) and corresponding 95% confidence intervals (CI). Subgroup and sensitivity analyses were also performed. A total of 19 eligible studies comprising 2,740 cancer patients treated with ICIs were included in the analysis. Our results indicated that ATB use was negatively associated with OS in cancer patients (HR = 2.37; 95% CI = 2.05-2.75; <i>P</i> < .001), without heterogeneity (I<sup>2</sup> = 0.0%; <i>P</i> = .851). Moreover, ATB use significantly reduced PFS in patients treated with ICIs (HR = 1.84; 95% CI = 1.49-2.26; <i>P</i> < .001; I<sup>2</sup> = 56.2%). Similar results were obtained in the subgroup analyses stratified by the time of ATB use and cancer type. Sensitivity analyses confirmed the stability of our results. Therefore, the findings of our meta-analysis indicated that ATB use is negatively associated with OS and PFS in cancer patients treated with ICI immunotherapy.
Regulation of Murine Plasma Phospholipid Transfer Protein Activity and mRNA Levels by Lipopolysaccharide and High Cholesterol Diet (1995)

Plasma phospholipid transfer protein mediates the net movement of phospholipids between lipoproteins and between lipid bilayers and high density lipoprotein. In this study, the mouse phospholipid transfer protein cDNA was cloned by reverse transcription polymerase chain reactions based on the cDNA sequence of human phospholipid transfer protein. The predicted amino acid sequence of mouse phospholipid transfer protein shows the protein to be 476 amino acids long and to have a sequence identity of 83% with that of human phospholipid transfer protein. Mouse plasma phospholipid transfer protein activity is 1.5-2 times that of human plasma phospholipid transfer protein activity. As in humans, mouse peripheral tissues displayed a higher abundance of phospholipid transfer protein mRNA than observed in central organs. The order of phospholipid transfer protein mRNA expression was as follows: lung > adipose tissue, placenta, testis > brain > muscle, heart, liver. We examined the regulation of phospholipid transfer protein expression by dietary cholesterol and by bacterial lipopolysaccharide. A high fat, high cholesterol diet caused a significant increase (35%) in plasma phospholipid transfer protein activity and a significant increase (18%) in high density lipoprotein phospholipids. This increased activity was accompanied by approximately 100% increase in phospholipid transfer protein mRNA in lung. After lipopolysaccharide injection, plasma phospholipid transfer protein activity was decreased by approximately 66%. This decrease in activity was associated with a similar decrease in phospholipid transfer protein mRNA in lung, adipose tissue, and liver. The decrease in plasma phospholipid transfer protein activity was also associated with a significant increase (17%) in high density lipoprotein phospholipid concentration. The opposite changes in phospholipids levels with lipopolysaccharide treatment and dietary cholesterol despite similarly increased high density lipoprotein phospholipids levels indicate that high density lipoprotein phospholipids levels are likely determined both by phospholipid transfer protein levels and by gradients of phospholipids concentration between high density lipoprotein and other phospholipids sources.