gebhart/patrepeval huggingface dataset:
Advances in cancer cytogenetics (1999)

As the end of the millenium approaches, recognition of the milestones achieved in the field of cancer cytogenetics is mandatory. With regard to cancer cytogenetics, the turning century can be divided in three main era: the pre-banding period that has posed important hypothesis and technical premises, the fruitful banding era that led to the discovery of the critical chromosomal rearrangements and cloning of cancer genes and the more recent revolutionizing era of molecular cytogenetics where technological advances permit a global visualization and high-level resolution of chromosomal alterations. J. Cell. Biochem. Suppls. 32/33:173-182, 1999.
Comparison of UWB antennas according to systems performances (2007)

In this paper, we compare various UWB antennas according to their impact on performances of a coherent Rake receiver system. As such receiver may suffer from ISI effect, the aim of this study is to evaluate two typical UWB antennas used in classical indoor communication scenario regarding the system bit error rate versus signal SNR. In order to assume the same channel for the two couples of considered antennas, a deterministic channel model is used for simulation. This channel is first presented. The whole UWB system simulation scheme considered for the study is then detailed. The obtained results show the performances of a UWB coherent Rake receiver system are less degraded by dipole-like antennas than monopole-like ones according to ISI effects. (6 pages)
Guest editorial - Advances in service platform technologies for next-generation mobile systems: part 1 (2006)

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Direction identification thresholds for second-order motion in central and peripheral vision (1994)

Evidence bearing on the question of whether first-order and second-order motion are detected by use of the same or different principles has been sought. This question was approached by measuring thresholds for correctly identifying the direction of motion of various second-order motion patterns. The patterns used were contrast-modulated noise patterns in which the contrast of a carrier was modulated sinusoidally in one dimension, and the modulating waveform drifted smoothly while the carrier itself remained stationary. The carrier used was in most cases static two-dimensional noise; other carriers gave similar results. Thresholds were measured in terms of amplitude of contrast modulation (modulation depth) for each of a range of envelope drift speeds and spatial frequencies in the fovea and at several viewing eccentricities. Along with direction-identification thresholds, thresholds for either simple detection of the modulation or for correctly identifying the orientation of the modulation were simultaneously measured. Thresholds for direction identification were generally somewhat higher than those for simple detection. However, they were in most cases very similar to thresholds for identification of orientation, as found for conventional luminance gratings. Contrary to some reports, sensitivity to contrast-modulated patterns declines with eccentricity at a similar rate to that found with luminance gratings. The results suggest that first-order and second-order motion are either detected by a common motion-detection mechanism or are detected by different mechanisms that use a common principle of motion detection.
ChIP-exo interrogation of Crp, DNA, and RNAP holoenzyme interactions (2016)

ABSTRACT Numerous in vitro studies have yielded a refined picture of the structural and molecular associations between Cyclic-AMP receptor protein (Crp), the DNA motif, and RNA polymerase (RNAP) holoenzyme. In this study, high-resolution ChIP-exonuclease (ChIP-exo) was applied to study Crp binding in vivo and at genome-scale. Surprisingly, Crp was found to provide little to no protection of the DNA motif under activating conditions. Instead, Crp demonstrated binding patterns that closely resembled those generated by σ 70 . The binding patterns of both Crp and σ 70 are indicative of RNAP holoenzyme DNA footprinting profiles associated with stages during transcription initiation that occur post-recruitment. This is marked by a pronounced advancement of the template strand footprint profile to the +20 position relative to the transcription start site and a multimodal distribution on the nontemplate strand. This trend was also observed in the familial transcription factor, Fnr, but full protection of the motif was seen in the repressor ArcA. Given the time-scale of ChIP studies and that the rate-limiting step in transcription initiation is typically post recruitment, we propose a hypothesis where Crp is absent from the DNA motif but remains associated with RNAP holoenzyme post-recruitment during transcription initiation. The release of Crp from the DNA motif may be a result of energetic changes that occur as RNAP holoenzyme traverses the various stable intermediates towards elongation complex formation.
The Nature of Progress (2009)

15th International Conference, OPODIS 2011, Toulouse, France, December 13-16, 2011. Proceedings
Development of A X-band 12 W High Power Amplifier MMIC (2009)

In this paper, we described the design and test results of a high output power amplifier MMIC developed by using 0.5um power pHEMT processes on a 6-inch GaAs wafer for the X-band T/R module application. In the MMIC design, we have used a simple on-chip gate active bias technology to compensate the threshold-voltage variation of pHEMT during the fabrication process and 16-to-1 power combining method to achieve the output power over 10watt. The fabricated chip has an output power over 12watts and maximum PAE of 32% over the frequency range of fo +/-750MHz.
Performance improvement of a small car with LiFePO4 batteries (2010)

ISBN: 978-1-61738-967-2
Single stage grid converters for battery energy storage (2010)

Integration of renewable energy systems in the power system network such as wind and solar is still a challenge in our days. Energy storage systems (ESS) can overcome the disadvantage of volatile generation of the renewable energy sources. This paper presents power converters for battery energy storage systems (BESS) which can interface mediumvoltage batteries to the grid. Converter topologies comparison is performed in terms of efficiency, common mode voltage and redundancy for a 6kV series connected medium voltage batteries with a nominal power of 5MVA to act as a battery charger/discharger.
The Synthesis of Stable, Complex Organocesium Tetramic Acids through the Ugi Reaction and Cesium‐Carbonate‐Promoted Cascades (2015)

Two structurally unique organocesium carbanionic tetramic acids have been synthesized through expeditious and novel cascade reactions of strategically functionalized Ugi skeletons delivering products with two points of potential diversification. This is the first report of the use of multicomponent reactions and subsequent cascades to access complex, unprecedented organocesium architectures. Moreover, this article also highlights the first use of mild cesium carbonate as a cesium source for the construction of cesium organometallic scaffolds. Relativistic DFT calculations provide an insight into the electronic structure of the reported compounds.
Piezoresistive feedback for improving transient response of MEMS thermal actuators (2006)

We examine exploiting the inherent piezoresistivity of a polysilicon compliant mechanism to provide feedback sensing of the mechanism displacement. As the piezoresistive compliant mechanism deflects to produce motion its resistance changes producing a usable signal. The goal of this work is to improve the transient response of a thermal actuator through piezoresistive feedback control. Implementing feedback control significantly improves the actuators transient response. The actuator response time to step inputs is reduced from 800&#956;s to 230&#956;s with proportional control alone. The system bandwidth was increased from 500~Hz to 4~kHz with proportional control. The large overshoot in the step response or the resonant peak in the frequency response can be reduce by an appropriately tuned 2~kHz notch prefilter.
Predicting Polymer Conditioning Requirements in High Pressure Sludge Dewatering Devices (2022)

Currently, RCRA requires hazardous waste incinerators to be evaluated using principal organic hazardous constituents (POHCs) to calculate destruction removal efficiencies (DREs). POHCs are compounds listed in Appendix VIII of 40 CFR Part 261.3. To receive an operating permit, a hazardous waste incinerator must demonstrate it is capable of destroying or removing at least 99.99 percent of a processed substance. This demonstration process is known as a Trial Burn. Sulfur hexafluoride (SF6), as a surrogate POHC to demonstrate incineration performance, has been proposed as an economical and safe strategy to facilitate this demonstration.
Selective activation of oxidized PTP1B by the thioredoxin system modulates PDGF-β receptor tyrosine kinase signaling (2013)

The inhibitory reversible oxidation of protein tyrosine phosphatases (PTPs) is an important regulatory mechanism in growth factor signaling. Studies on PTP oxidation have focused on pathways that increase or decrease reactive oxygen species levels and thereby affect PTP oxidation. The processes involved in reactivation of oxidized PTPs remain largely unknown. Here the role of the thioredoxin (Trx) system in reactivation of oxidized PTPs was analyzed using a combination of in vitro and cell-based assays. Cells lacking the major Trx reductase TrxR1 (Txnrd1(-/-)) displayed increased oxidation of PTP1B, whereas SHP2 oxidation was unchanged. Furthermore, in vivo-oxidized PTP1B was reduced by exogenously added Trx system components, whereas SHP2 oxidation remained unchanged. Trx1 reduced oxidized PTP1B in vitro but failed to reactivate oxidized SHP2. Interestingly, the alternative TrxR1 substrate TRP14 also reactivated oxidized PTP1B, but not SHP2. Txnrd1-depleted cells displayed increased phosphorylation of PDGF-β receptor, and an enhanced mitogenic response, after PDGF-BB stimulation. The TrxR inhibitor auranofin also increased PDGF-β receptor phosphorylation. This effect was not observed in cells specifically lacking PTP1B. Together these results demonstrate that the Trx system, including both Trx1 and TRP14, impacts differentially on the oxidation of individual PTPs, with a preference of PTP1B over SHP2 activation. The studies demonstrate a previously unrecognized pathway for selective redox-regulated control of receptor tyrosine kinase signaling.
Examinator (2020)

Examinator compares pairs of take-home exams to select which should be manually checked for plagiarism. Examinator also generates a report with evidence for these cases using its metrics and those generated as a by-product of the commercial grading tool Gradescope. Examinator supports degree-seeking graduate programs (both online and on-campus) at a top computer science graduate institute in the United States. Since Spring 2019, Examinator has compared over 2 million pairs of exams from a popular Artificial Intelligence course, resulting in 56 cases being referred for discipline. Iterative development has improved the percentage of referrals of suggested cases from 15% to 25%.
FAIR DEAL GC Thrust #2: APAM Modeling. (2020)

Abstract not provided.
Involvement of calcium and cytoskeleton in gallbladder epithelial cell volume regulation (1985)

The importance of calcium and cellular cytoskeletal elements in the activation or control of volume regulation by epithelial cells was explored in Necturus gallbladder. Gallbladder cells have been previously shown to rapidly readjust their volumes to control size after osmotic perturbation of the mucosal bathing solution. Removal of calcium from the perfusates caused dramatic morphological changes that prevented assessment of the role of extracellular calcium in volume regulation. The regulatory volume increase (RVI) that follows shrinkage of the cell due to perfusion of a hypertonic mannitol solution is insensitive to agents that interfere with cell calcium- or calmodulin-mediated events (quinidine, trifluoperazine) and is not blocked by agents that cause changes in the cytoskeleton (colchicine, cytochalasin B). Osmotically induced cell swelling is followed by regulatory volume decrease (RVD), which is inhibited by agents that interfere with calcium-dependent processes (quinidine, trifluoperazine) and by the microfilament inhibitor, cytochalasin B. These results indicate that RVD depends on calcium, calmodulin, and an intact microfilament network, whereas RVI is independent of these factors.
Year in review 2013: Critical Care- nephrology (2014)

We review original research in the field of critical care nephrology accepted or published in 2013 in Critical Care and, when considered relevant or linked to these studies, in other journals. Three main topics have been identified and are discussed for a rapid overview: acute kidney injury (diagnosis, risk factors and outcome); timing and modality of renal replacement therapy; and extracorporeal membrane oxygenation and renal dysfunction.
{Different Signalling Pathways Mediate the Opposite Effects of Endogenous Versus Exogenous Nitric Oxide on Hydroperoxide Toxicity in CHP100 neuroblastoma Cells (1999)

The results presented in this study indicate that the toxic response brought about by increasing concentrations of tert-butylhydroperoxide in CHP100 cells was mitigated significantly by exogenously added nitric oxide donors via a cyclic GMP-independent mechanism. In contrast with these results, endogenous nitric oxide generated by the Ca2+-mobilizing agent caffeine was found to increase hydroperoxide toxicity. Under these conditions, nitric oxide was not directly toxic to the cells. Rather, nitric oxide was found to promote the caffeine-mediated release of Ca2+ from ryanodine-sensitive Ca2+ stores via a cyclic GMP-independent mechanism. Release of the cation from ryanodine-sensitive Ca2+ stores was causally linked with the caffeine/nitric oxide-mediated enhancement of tert-butylhydroperoxide toxicity. It is concluded that endogenous and exogenous nitric oxide activate diverging signalling pathways independent of cyclic GMP formation and causing opposite effects on the toxic response evoked by tert-butylhydroperoxide in CHP100 cells.
Effect of 5-Alpha-Reductase Inhibitor, 4-MAPC, on Testicular Descent in Male Rat (1991)

Testicular descent has been reported to be a dihydrotestosterone (DHT) dependent event. To further elucidate the role of DHT in the process of testicular descent, a group of rats were treated with the 5-alpha reductase inhibitor, 4-MAPC, from birth to day 28 of age and the incidence of testicular descent as well as ventral prostate weight was noted at day 29 of age. It was determined that in the doses used, 4-MAPC failed to prevent testicular descent. Because 4-MAPC inhibited ventral prostate weight by only 53% (as compared to a 75% inhibition by castration), the failure of the 4-MAPC to prevent testicular descent could be due to its inability to completely inhibit tissue 5-alpha reductase activity. The results of this study do not mitigate against the role of other nonhormonal factors working in tandem with DHT in the induction of testicular descent in this animal model.
Effect of PAG Distribution on ArF and EUV Resist Performance (2009)

High NA immersion and EUV lithography processes are challenged to meet stringent control requirements for the 22nm node and beyond. Lithography processes must balance resolution, LWR and sensitivity (RLS) performance tradeoffs while scaling resist thickness to 100nm and below. Hardware modules including coat, bake and development seek to enable resist processes to balance RLS limitations. The focus of this paper is to study the fundamentals of the RLS performance tradeoffs through a combination of calibrated resist simulations and experiments. This work seeks to extend the RLS learning through the creation of calibrated resist models that capture the exposure kinetics, acid diffusion properties, deprotection kinetics and dissolution response as a function of PAG loading in a 193nm polymer system. The calibrated resist models are used to quantify the resolution and sensitivity performance tradeoffs as well as the degradation of resist contrast relative to image contrast at small dimensions. Calibrated resist simulations are capable of quantifying resolution and sensitivity tradeoffs, but lack the ability to model LWR. LWR is challenging to simulate (lattice models) and to measure due to the dependence on spectral frequency.
Correction: Candidate variants in DNA replication and repair genes in early-onset renal cell carcinoma patients referred for germline testing (2023)

Supplementary table 1. List of candidate genes for WES analysis.Supplementary table 2
19F-Tagged metal binding pharmacophores for NMR screening of metalloenzymes (2021)

This study demonstrates the screening of a collection of twelve 19F-tagged metal-binding pharmacophores (MBPs) against the Zn(ii)-dependent metalloenzyme human carbonic anhydrase II (hCAII) by 19F NMR. The isomorphous replacement of Zn(ii) by Co(ii) in hCAII produces enhanced sensitivity and reveals the potential of 19F NMR-based techniques for metalloenzyme ligand discovery.
Conformational Properties of Nine Purified Cystathionine β-Synthase Mutants (2012)

Protein misfolding due to missense mutations is a common pathogenic mechanism in cystathionine β-synthase (CBS) deficiency. In our previous studies, we successfully expressed, purified, and characterized nine CBS mutant enzymes containing the following patient mutations: P49L, P78R, A114V, R125Q, E176K, R266K, P422L, I435T, and S466L. These purified mutants exhibited full heme saturation, normal tetrameric assembly, and high catalytic activity. In this work, we used several spectroscopic and proteolytic techniques to provide a more thorough insight into the conformation of these mutant enzymes. Far-UV circular dichroism, fluorescence, and second-derivative UV spectroscopy revealed that the spatial arrangement of these CBS mutants is similar to that of the wild type, although the microenvironment of the chromophores may be slightly altered. Using proteolysis with thermolysin under native conditions, we found that the majority of the studied mutants is more susceptible to cleavage, suggesting their increased local flexibility or propensity for local unfolding. Interestingly, the presence of the CBS allosteric activator, S-adenosylmethionine (AdoMet), increased the rate of cleavage of the wild type and the AdoMet-responsive mutants, while the proteolytic rate of the AdoMet-unresponsive mutants was not significantly changed. Pulse proteolysis analysis suggested that the protein structure of the R125Q and E176K mutants is significantly less stable than that of the wild type and the other mutants. Taken together, the proteolytic data shows that the conformation of the pathogenic mutants is altered despite retained catalytic activity and normal tetrameric assembly. This study demonstrates that the proteolytic techniques are useful tools for the assessment of the biochemical penalty of missense mutations in CBS.
Gastroparesis in systemic sclerosis: a detailed analysis using whole-gut scintigraphy (2022)

Gastric emptying of liquids when given alongside solids may be more sensitive and provide a more clinically relevant measure of gastroparesis in SSc than solid gastric emptying or liquid gastric emptying alone. SSc patients with gastroparesis frequently have dysmotility in other areas of the GI tract, underscoring the need for whole-gut scintigraphy to evaluate the entire gut.
Laser Mass Spectrometry as On-Line Sensor for Industrial Process Analysis:  Process Control of Coffee Roasting (2004)

The objective of the project is to develop on-line, real-time, and noninvasive process control tools of coffee roasting that help deliver a consistent and high-quality coffee aroma. The coffee roasting process was analyzed by direct injection of the roaster gas into a time-of-flight mass spectrometer and ionized either by resonance enhanced multiphoton ionization (REMPI) at 266 and 248 nm or vacuum ultraviolet single-photon ionization (VUV-SPI) at 118 nm. The VUV ionization scheme allows detecting mainly the most volatile and abundant compounds of molecular mass below 100 m/z, while REMPI ionizes mainly aromatic compounds of molecular mass larger than 100 m/z. Combining the compounds ionized by resonant and single-photon ionization, approximately 30 volatile organic compounds are monitored in real time. Time-intensity profiles of 10 important volatile coffee compounds were discussed in connection with their formation chemistry during roasting. Applying multivariate statistics (principle component analysis) on time-intensity traces of nine volatile coffee compounds, the roasting degree could be traced as a consistent path in the score plot of the two most significant principle components (including 68% of the total variance), for a range of roasting temperatures (200-250 degrees C).
Anti-Stokes photoluminescence and optical cooling of CdSeS/ZnS colloidal quantum dots embedded in dielectric waveguides (2020)

Anti-Stokes photoluminescence from colloidal CdSeS/ZnS quantum dots (QDs) is observed. The QDs were inserted into the core of wider-bandgap SiO2/Si3N4/SiO2 structure by thin film deposition and confirmed as promising nanoemitters for laser cooling due to efficient anti-Stokes emission. The nanoemitters were optically pumped by semiconductor lasers coupled to the waveguides using free-space optics. A direct evidence of local optical cooling in the waveguide structure has been demonstrated with a luminescence thermometry based on the detection of photoluminescence signal phase change versus power of the pumping laser, using a lock-in amplifier.
D3 receptor test in vitro predicts decreased cocaine self-administration in rats (1997)

The three dopamine agonists with highest reported D3 receptor selectivity in vitro, pramipexole, quinelorane and PD128,907, decreased self-administration of a high dose of cocaine in rats as a result of a leftward shift in the cocaine dose-effect function. In contrast the D3 preferring antagonist nafadotride increased cocaine self-administration. Moreover the relative potencies of these and other D2-like dopamine agonists (lisuride, 7-OH-DPAT, quinpirole, apomorphine, bromocriptine) to modulate cocaine self-administration were highly correlated with their relative potencies for increasing mitogenesis in vitro in cell lines expressing D3 but not D2 receptors. These results support the hypothesis that the D3 receptor may be an important target for pharmacotherapies for cocaine abuse and dependence.
Blood cells separation in spiral microchannels (2009)

As major players in our defense system, white blood cells (WBCs) are essential for immunological tests. However, WBCs exist at low concentration in blood samples, typically less than 0.5% of blood cells, and separation or enrichment of leukocytes is therefore a critical initial step in many biological experiments. This paper reports a novel method, based on differential inertial focusing, for separating blood cells in high throughput fashion (volumetric flow rates >2 ml/min). In this method, inherent hydrodynamic forces developed in flow through curved channels force cells to migrate over streamlines and focus laterally in equilibrium positions based on size.
Metabolic Acidosis in Preterm Infants is Associated with a Longer Length of Stay in the Neonatal Intensive Care Unit (2020)

ClinicalTrials.gov: NCT02307760.