gebhart/patrepeval huggingface dataset:
Genetic Architecture of Local Adaptation in Lunar and Diurnal Emergence Times of the Marine Midge Clunio marinus (Chironomidae, Diptera) (2012)

Circadian rhythms pre-adapt the physiology of most organisms to predictable daily changes in the environment. Some marine organisms also show endogenous circalunar rhythms. The genetic basis of the circalunar clock and its interaction with the circadian clock is unknown. Both clocks can be studied in the marine midge Clunio marinus (Chironomidae, Diptera), as different populations have different local adaptations in their lunar and diurnal rhythms of adult emergence, which can be analyzed by crossing experiments. We investigated the genetic basis of population variation in clock properties by constructing the first genetic linkage map for this species, and performing quantitative trait locus (QTL) analysis on variation in both lunar and diurnal timing. The genome has a genetic length of 167-193 centimorgans based on a linkage map using 344 markers, and a physical size of 95-140 megabases estimated by flow cytometry. Mapping the sex determining locus shows that females are the heterogametic sex, unlike most other Chironomidae. We identified two QTL each for lunar emergence time and diurnal emergence time. The distribution of QTL confirms a previously hypothesized genetic basis to a correlation of lunar and diurnal emergence times in natural populations. Mapping of clock genes and light receptors identified ciliary opsin 2 (cOps2) as a candidate to be involved in both lunar and diurnal timing; cryptochrome 1 (cry1) as a candidate gene for lunar timing; and two timeless (tim2, tim3) genes as candidate genes for diurnal timing. This QTL analysis of lunar rhythmicity, the first in any species, provides a unique entree into the molecular analysis of the lunar clock.
Transcriptional overlap links DNA hypomethylation with DNA hypermethylation at adjacent promoters in cancer (2021)

ABSTRACT DNA methylation is an epigenetic mark associated with gene repression. It is now well established that tumor development involves alterations in DNA methylation patterns, which include both gains (hypermethylation) and losses (hypomethylation) of methylation marks in different genomic regions. The mechanisms underlying these two opposite, yet co-existing, alterations in tumors remain unclear. While studying the human MAGEA6 / GABRA3 gene locus, we observed that DNA hypomethylation in tumor cells can lead to the activation of a long transcript ( CT-GABRA3 ) that overlaps downstream promoters ( GABRQ and GABRA3 ) and triggers their hypermethylation. Overlapped promoters displayed increases in H3K36me3, a histone mark known to be deposited during progression of the transcription machinery and to stimulate de novo DNA methylation. Consistent with such a processive mechanism, increases in H3K36me3 and DNA methylation were observed over the entire region covered by the CT-GABRA3 overlapping transcript. Importantly, experimental induction of CT-GABRA3 by depletion of DNMT1 DNA methyltransferase, resulted in a similar pattern of increased DNA methylation in the MAGEA6 / GABRA3 locus. Bioinformatics analyses in lung cancer datasets identified other genomic loci displaying this process of coupled DNA hypo- and hypermethylation. In several of these loci, DNA hypermethylation affected tumor suppressor genes, e.g. RERG and PTPRO . Together, our work reveals that focal DNA hypomethylation in tumors can indirectly contribute to hypermethylation of nearby promoters through activation of overlapping transcription, and establishes therefore an unsuspected connection between these two opposite epigenetic alterations.
Adaptive filtering for delivering multimedia services in W-CDMA cellular networks using genetic algorithms (2005)

This paper presents an adaptive filtering algorithm for the delivery of multimedia content with different quality of service (QoS) requirements in time-varying wideband code-division multiple access (W-CDMA) cellular networks. The algorithm objective is to guarantee levels of quality for two different user defined profiles (premium, or economy), while attempting to maximize the allocation of the radio channel bandwidth and maintaining the QoS requirements of downloaded traffic flows (audio, video, and data). Our proposed solution is based upon utilizing genetic algorithms (GAs) to solve a multi-objective function that selects, during a control period, the bit rates and formats for the media codecs of downloaded traffic flows and assigns the air interface channel rate and power to each user, subject to different constraints. To show the performance of the algorithm, W-CDMA systems with and without filtering capabilities are compared.
Value of Dynamic Respiratory Changes in Left and Right Ventricular Pressures for the Diagnosis of Constrictive Pericarditis (1996)

Examination of dynamic respiratory changes indicating increased ventricular interdependence may be helpful in the diagnosis of CP in the cardiac catheterization laboratory.
Electrical properties of polyacetylene/polysiloxane interface (1983)

Polyacetylene/polysiloxane interface states have been investigated using metal-insulator-semiconductor (MIS) diodes. The 1-mm2 MIS diodes (Al/polysiloxane/polyacetylene) have been fabricated by use of a conventional photolithographic technique. The I-V and C-V measurements were used to explore the polyacetylene/polysiloxane interface electrical properties. The electrical conduction mechanism in this interface was found to be a Schottky-Richardson mechanism. Using the C-V measurements to determine the interface states density distribution, it was found that the distribution had a U shape in the gap and its minimum value was 6×1013 eV−1 cm−2. An attempt was made to fabricate an insulating gate field-effect transistor which worked as a depletion-type transistor with a very low transconductance, gm =13 nΩ−1.
Magnetism of 3He Contained in Vycor Glass at Low Temperature (1987)

NMR on 3 He atoms in the very small pores of Vycor glass reveals magnetic states which are temperature, pressure, and magnetic field dependent. The susceptibility is Curie-Weiss-like with a Θ that increases with pressure. The longitudinal relaxation time τ 1 is a weak, monotonically increasing function of temperature. The transverse relaxation time τ 2 is a strong function of temperature at low temperature, with a positive slope at 286 gauss and a negative slope at 71.5 gauss.
Approximations to Fermi-Dirac integrals and their use in device analysis (1982)

A simple,single-expression approximation is derived for the Fermi-Dirac (F-D) Integral F <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1/2</inf> (x) in the range -4 ≤ x ≤ +12. This approximation is more accurate (less than 1-percent error throughout) and more useful in device analysis and computer modeling. The approximation procedure is general and can be used to find approximations for F-D Integrals of any order and to any arbitrary degree of accuracy.
Cytotoxic and antimicrobial aporphine alkaloids fromFissistigma poilanei(Annonaceae) collected in Vietnam (2011)

Two new aporphine alkaloids: 8-hydroxy-9-methoxy-1,2-methylenedioxyaporphine (1) and 8-hydroxy-3,9-dimethoxy-1,2-methylenedioxyaporphine (2) were isolated from the ethyl acetate extract of Fissistigma poilanei along with five known compounds: oxocrebanine (3), kuafumine (4), (2R,3R)-3',4',5,7-tetrahydroxydihydroflavonol-3-O-α-L-rhamnopyranoside (5), (+)-catechin 3-O-α-L-rhamnopyranoside (6) and quercetine 3,7-dimethoxy-3'-O-α-L-rhamnopyranosyl-(1 → 2)-β-D-glucopyranoside (7). These two new aporphine alkaloids exhibited a moderate cytotoxic activity against four human cancer cell lines (KB, Hep-G2, MCF-7, LU) as well as antimicrobial activity against Lactobacillus fermentum, Enterococcus faecium, Staphylococcus aureus and Bacillus subtillis.
Cellular uptake of C4b‐binding protein is mediated by heparan sulfate proteoglycans and CD91/LDL receptor‐related protein (2008)

Abstract C4b‐binding protein (C4BP) is a protein acting as a complement inhibitor and a carrier protein for anticoagulant protein S. Previously, we reported that the in vivo clearance of C4BP involves CD91, and that a CD91‐interactive site overlaps the heparin‐binding site within C4BP α‐chains 26 . Here, we investigated the C4BP‐CD91 interaction in more detail. Binding of C4BP to CD91 was unaffected by protein S, which associates with C4BP β‐chain. Second, mutagenesis of cationic residues within C4BP α‐chains impaired CD91 binding, reducing the affinity of triple mutant C4BPα/R39Q‐R64Q‐R66Q by 20‐fold (Kd= 10 nM versus 214 nM for wild‐type and mutant C4BP, respectively). Accordingly, intracellular degradation of this mutant by CD91‐expressing cells was reduced to levels of CD91‐deficient cells. Moreover, C4BPα/R39Q‐R64Q‐R66Q displayed a 3‐fold prolonged survival compared to normal C4BP in in vivo clearance experiments. Since these residues also contribute to heparin binding, we explored the role of heparin‐sulfate proteoglycans (HSPG) in the endocytosis of C4BP. The absence of HSPG was associated with a near complete absence of cell binding and intracellular degradation of C4BP. Apparently, the cellular uptake of C4BP depends on both HSPG and CD91, involving interactions with positively charged residues within C4BP α‐chain.
Epostatin, New Inhibitor of Dipeptidyl Peptidase II, Produced by Streptomyces sp. MJ995-OF5. I. Taxonomy of Producing Strain, Fermentation, Isolation, Physico-chemical Properties and Biological Properties. (1998)

A new inhibitor of dipeptidyl peptidase II (DPP-II, EC 3.4.14.2), designated as epostatin, was discovered in the fermentation broth of a strain isolated in our institute. The strain has been identified as Streptomyces sp. MJ995-OF5 on the basis of taxonomic studies. Epostatin was obtained as a yellow powder after seqential purification by chromatography on Diaion HP-20, n-butanol extraction, Sephadex LH-20 column chromatography and centrifugal partition chromatography (CPC). Epostatin inhibited DPP-II competitively in a dose dependent manner. The compound was slightly inhibitory against other dipeptidyl peptidases.
Stand-Alone 3D Optical Nano Tweezers (2015)

National audience
Progress in diagnostic pattern recognition (DPR) (2004)

The identification and analysis of disease-specific signatures in mid-infrared spectra of serum forms the basis of a method called “Diagnostic Pattern Recognition (DPR)”. A conceivable usage of this method in clinical diagnostics requires that the method be applied in a convenient and robust manner. Thus, automation, room-temperature operation and reproducibility the prerequisite improvements toward routine application. We have investigated the performance two identical, semi-automated DPR systems. In contrast to previous measurements, which required MCT detectors, the use of a DLaTGS detector allowed the systems to be operated without the requirement of liquid nitrogen cooling. A series of measurements showed that automated pipetting improves the reproducibility significantly as compared to manual pipetting. For automated pipetting, the within-day variations are of minor importance. However, day-to-day variations may decrease the reproducibility in some spectral regions by more than a factor of two. Slight dependence of the reproducibility on the protein content of the serum samples has been observed.
Increased Cerebrospinal Fluid Glycine: A Biochemical Marker for a Leukoencephalopathy With Vanishing White Matter (1999)

Recently, a new disease entity has been defined: the disease of vanishing white matter. This leukoencephalopathy has an autosomal-recessive mode of inheritance. No cause or biochemical marker is known. We studied cerebrospinal fluid amino acids in five patients with the disease and found a consistent, moderate elevation of cerebrospinal fluid glycine in all. The ratio of cerebrospinal fluid to plasma glycine was elevated in four patients, in two patients reaching the level considered diagnostic for nonketotic hyperglycinemia. The activity of the glycine cleavage system was found to be normal in lymphoblasts in two patients. The elevation of cerebrospinal fluid glycine in the disease of vanishing white matter is either caused by a primary disturbance of glycine metabolism or is secondary to excitotoxic brain damage.
Hemoglobin Adducts of N-Substituted Aryl Compounds in Exposure Control and Risk Assessment (1993)

Arylamines, nitroarenes, and azo dyes yield a common type of metabolite, the nitroarene, which produces a hydrolyzable adduct with protein and is closely related to the critical, ultimate toxic and genotoxic metabolite. The target dose as measured by hemoglobin adducts in erythrocytes reflects not only the actual uptake from the environment but also an individual's capacity for metabolic activation and is therefore an improved dosimeter for human exposure. The usefulness of hemoglobin adducts in molecular epidemiology is now widely recognized. With regard to risk assessment, many questions need to be answered. The described experiments in rats address some of these questions. The relationship between binding to hemoglobin in erythrocytes and to proteins in plasma has been found to vary considerably for a number of diamines. The fraction of hydrolyzable adducts out of the total protein adducts formed also varies in both compartments. This indicates that the kind of circulating metabolites and their availability in different compartments is compound specific. This has to do with the complex pattern of competing metabolic pathways, and the role of N-acetylation and deacetylation is emphasized. An example of nonlinear dose dependence adds to the complexity. Analysis of hemoglobin adducts reveals interesting insights into prevailing pathways, which not only apply to the chemical, but may also be useful to assess an individual's metabolic properties. In addition, it is demonstrated that the greater part of erythrocytes and benzidine-hemoglobin adducts are eliminated randomly in rats, i.e., following first-order kinetics.
Synthesis of Fullerene‐Like Tantalum Disulfide Nanoparticles by a Gas‐Phase Reaction and Laser Ablation (2005)

Motivated by the discovery of the C(60) molecule (buckminsterfullerene), the search for inorganic counterparts of this closed-cage nanostructure started in 1992 with the discovery of nested fullerene-like nanoparticles of WS(2). Inorganic fullerene-like (IF) materials have since been found in numerous two-dimensional compounds and are available in a variety of shapes that offer major applications such as in lubricants and nanocomposites. Various synthetic methodologies have been employed to achieve the right conditions for the constricted or templated growth needed for the occurrence of this new phase. In this study, IF-TaS(2) is produced from a volatile chloride precursor in the gas phase and in small yield by room temperature laser ablation both in argon and in liquid CS(2). For the gas-phase reaction, a high yield of IF nanoparticles was obtained between 400 and 600 degrees C with a low concentration of the precursor gas. The average size and the yield of the IF-TaS(2) nanoparticles decrease with temperature. Above 600 degrees C, IF nanoparticles were found in low yields and at sizes below 20 nm. The stability of the IF nanoparticles produced by the gas-phase reaction is discussed in the light of two existing theoretical models. Laser ablation in argon leads to IF nanoparticles filled with clusters of TaS(2). Agglomeration of the nanoparticles can be avoided by laser ablation in liquid CS(2).
Age, alcohol and liver transplantation (2010)

Sir,

Two recent cases of young men with severe alcoholic hepatitis, who were not offered a transplant, have highlighted some of the difficult decisions that have to be made in the field of liver transplantation.1,2 Although not all relevant medical information was available in the public domain, these two cases generated considerable and sometimes ill-informed public debate about the issues surrounding organ allocation and withholding of life-saving treatment from young men. In the UK, criteria for patient selection and organ allocation are developed within national health service (NHS) Blood and Transplant (NHSBT) by clinicians in consultation with patients and other health care professionals; and, as donated organs are considered a national resource, protocols are applied nationally to ensure the optimal balance of utility and equity.

Cirrhosis, secondary to alcohol, raises controversies not seen with other indications because it is construed to be self-inflicted despite the existence of strong genetic and environmental factors. Indeed, patient outcome is better than some other indications, such as hepatitis C and hepatocellular carcinoma,3 and there are no significant differences in compliance or levels of re-employment in comparison to patients grafted for other conditions.3 Understandable concerns do remain about relapse in these patients; although …
Numerical study on extraction of tritium generated in HMR by way of system composed of EXEL-process and thermal diffusion column cascade (2002)

Tritium is produced in the heavy water of HMR (Heavy Water Moderated Power Reactor) principally by the following nuclear reaction, D(n,γ)T. If the tritium in the heavy water is not removed, the concentration of tritium reaches a saturated value (30 to 40 Ci/lHW), which depends on the neutron flux intensity. Such high concentration of tritium is dangerous for reactor operators, because of increasing their irradiated dose. So tritium has to be removed from the heavy water.
ChemInform Abstract: A New, Practical Synthesis of Organotellurium Compounds from Organic Halides and Silyl Tellurides. Remarkable Effects of Polar Solvents and Leaving Groups. (2001)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Effects of Rubiadin isolated from Prismatomeris connata on anti‐hepatitis B virus activity in vitro (2017)

Prismatomeris connata was a kind of Rubiaceae plant for treatment of hepatitis, hepatic fibrosis and silicosis. Whereas, the effective components of Prismatomeris connata remains unexplored. The aim of this study was to investigate the inhibitory effects and mechanisms of Rubiadin isolated from Prismatomeris connata against HBV using HepG2.2.15 cells. The levels of hepatitis B surface antigen (HBsAg), hepatitis B e antigen (HBeAg), and hepatitis B core antigen (HBcAg) in the supernatants or cytoplasm were examined using by enzyme-linked immunosorbent assay. HBV DNA was qualified q-PCR. Rubiadin was isolated by silica gel column. The structure of the compound was elucidated by HPLC, FT-IR, <sup>1</sup> H-NMR, <sup>13</sup> C-NMR and identified as 1,3-Dihydroxy-2-methyl-9, 10-anthraquinone. Rubiadin significantly decreased HBeAg,HBcAg secretion level and inhibit HBV DNA replication. Rubiadin inhibits the proliferation of the cells and HBx protein expression in a dose-dependent manner. The intracellular calcium concentration was significantly reduced. These results demonstrated that Rubiadin could inhibit HepG2.2.15 cells proliferation, reduce the level of HBx expression, and intracellular free calcium, which might become a novel anti-HBV drug candidate.
Quantum Coherence and non-Markovianity in a Noisy Quantum Tunneling Problem (2022)

We investigate the coherence and non-Markovianity of a quantum tunneling system whose barrier is fluctuated by a telegraph noise, and its energy gap is modulated by Gaussian noise. With the help of averaging method, the system dynamics are analytically derived, and the analytical expression for coherence measure and non-Markovianity for the very limited parameter regimes for both initially coherent and non-coherent states are obtained. We observe non-Markovian dynamics in a situation where the Kubo number is high. It is also found that there is no strong relation between the coherence of the system and non-Markovianity dynamics except in a region in which these two tend to change their behavior at the intermediate noise color for two initial states.
0255 Female Mice Are Less Susceptible to the Effects of Diet-Induced Obesity on Sleep and Sleep-Disordered Breathing (2023)

Abstract Introduction Diet-induced obesity (DIO) in male mice is a well-established model of sleep-disordered breathing (SDB). Male DIO mice manifest hypoventilation, increased apnea severity, and sleep fragmentation. The effects of DIO on breathing during sleep and sleep architecture in females have been insufficiently investigated. We hypothesized that female mice are less susceptible to the detrimental effects of DIO on sleep and SDB compared to males. Methods Full-polysomnographies were performed in 15 lean female C57BL/6J and 14 female DIO-C57BL/6J mice using a whole-body plethysmography chamber. Ventilatory response to an arousal was calculated as ratio of the average minute ventilation (VE) during each arousal (2.5s) relative to the baseline VE. Breathing stability was measured using Poincaré plots of VE. Mice were exposed to 8% CO2 to measure the hypercapnic ventilatory response (HCVR). Mice underwent 24-h metabolic studies. Results Obesity was associated with hypometabolism, indicated by reduced oxygen consumption (VO2) and CO2 production in DIO mice. VE in 8% CO2 and HCVR were significantly suppressed suggesting a decreased CO2 sensitivity in obese animals. NREM sleep duration was reduced, but REM sleep was preserved. Arousal frequency and VE during NREM and REM sleep were similar between groups. However, apnea severity was 4-fold augmented in lean females compared to DIO mice (14.7±3.9 vs 74.2±11.9 events/h; P&amp;lt; 0.001). In lean mice, the increased frequency of apneas was mainly attributed to sleep fragmentation since the events were predominantly post-arousals. Breathing stability during sleep was significantly increased in lean mice. Ventilatory response to an arousal was 30% increased in lean females compared to DIO group. Conclusion Our results suggest potential sex differences in the effects of DIO on breathing during sleep and sleep architecture. DIO in females appears to be less detrimental regarding SDB severity. The mechanisms underlying the augmented SDB severity in lean females are unknown, but an exacerbated CO2 responsiveness during sleep related to sleep fragmentation could play an important role. Support (if any) American Heart Association Postdoctoral Fellowship Award 828142, NHLBI grant NIH R01s HL128970, HL133100, and HL13892, American Academy of Sleep Medicine Foundation 238-BS-20, and American Thoracic Society Unrestricted Award.
Toward Object-oriented Modeling in SCCharts (2021)

Object orientation is a powerful and widely used paradigm for abstraction and structuring in programming. Many languages are designed with this principle or support different degrees of object orientation. In synchronous languages, originally developed to design embedded reactive systems, there are only few object-oriented influences. However, especially in combination with a statechart notation, the modeling process can be improved by facilitating object orientation as we argue here. At the same time the graphical representation can be used to illustrate the object-oriented design of a system. Synchronous statechart dialects, such as the SCCharts language, provide deterministic concurrency for specifying safety-critical systems. Using SCCharts as an example, we illustrate how an object-oriented modeling approach that supports inheritance can be introduced. We further present how external, i.e., host language, objects can be included in the SCCharts language. Specifically, we discuss how the recently developed concepts of scheduling directives and scheduling policies can be used to ensure the determinism of objects while retaining encapsulation.
Guest Editorial: "Humans and Humanoids Face to Face" (2015)

Submission to the special issue of: 2014 IEEE-RAS International Conference on Humanoid Robots, 18-20 November 2014, Madrid.