gebhart/patrepeval huggingface dataset:
Cardiovascular complications in CKD 5D (2012)

&lt;b&gt;Introduction and Aims:&lt;/b&gt; Proton pump inhibitors (PPIs) are extensively used for the chronic treatment of common gastrointestinal disorders. Chronic PPI use is associated with increased risk of fractures. The primary endpoint was the extent of aortic and iliac calcifications, in relation to PPI use. &lt;b&gt;Methods:&lt;/b&gt; Multicenter, cross-sectional study in hemodialysis patients, 18 hospital based dialysis centers. We included 387 hemodialysis patients (76.2% on chronic PPI treatment). Vascular (aortic and/or iliac) Calcification (VC) assessments were centralized. Witteman's method (Lancet, 1994) was used for blinded assessments in duplicate. VC were quantified by measuring the length of calcific deposits along the anterior and posterior wall of the aorta (mild 0.1-5 cm, moderate 5.1-10 cm and severe &gt;10 cm). They also evaluated the presence or absence of calcifications of the iliac arteries in the same radiograph (mild 0.1-3 cm, moderate 3.1-5 cm and severe &gt; 5 cm). Any differences were resolved by consensus. &lt;b&gt;Results:&lt;/b&gt; Bone markers were: Ca 9.15±0.68 mg/dl, P 4.8± 1.28 mg/dl, median ALP 83 U/L, median PTH 244, median 25(OH)D 28.9 nmol/L, median BGP 175 mcg/L, median ucBGP 10.95 mcg/L, median MGP 19.36 nmol/L, median PCR 1.6 mg/L. Prevalence of VC was 80.6% (mild 20.1%, moderate 30.8%, severe 29.7%) in the aorta and 55,1% in the iliac arteries. We found Arterial calcifications were significantly more common in the PPI group : 57.0% vs. 41.3% (p=0.0086). Also the rates of aortic and iliac calcifications considered separately were higher (+12.2% p=0.0254 and +13.6% p=0.0211, respectively). The proportions of patients suffering from angina and atrial fibrillation were significantly higher in the PPI group (+11.7% p=0.0083 and +8.8% p=0.0306, respectively). Severe aortic calcifications, as well as moderate and severe iliac calcifications, appeared to be significantly related to age, male gender, hypertriglyceridemia, warfarin treatment and also to PPI treatment, the latter with an odd ratio of 2.15-2.66 depending on calcification site. &lt;b&gt;Conclusions:&lt;/b&gt; In hemodialysis patients chronic treatment with PPIs is associated with vascular calcification, a known risk factor for cardiovascular events and mortality in hemodialysis patients, and for cardiovascular events in non renal elderly subjects. Additional studies are warranted to explore the association among chronic PPI treatment, vascular calcifications and cardiovascular events.
RFID UHF en mode impulsionnel et retournement temporel (2019)

National audience
Performance of Delayed-Enhancement Magnetic Resonance Imaging With Gadoversetamide Contrast for the Detection and Assessment of Myocardial Infarction (2008)

Gadoversetamide-enhanced MRI using doses of > or = 0.2 mmol/kg is effective in the detection and assessment of both acute and chronic MI. This study represents the first multicenter trial designed to evaluate an imaging approach for detecting MI.
Understanding resilience in same-sex parented families: the work, love, play study (2010)

This study will make an important contribution to the existing research on same-sex parented families. Strengths of the study design include the longitudinal method, which will allow understanding of changes over time within internal family relationships and social supports. Further, the mixed method design enables triangulation of qualitative and quantitative data. A broad recruitment strategy has already enabled a large sample size with the inclusion of both gay men and lesbians.
Investigations on the [2,3]-Wittig Rearrangement of Chiral 4-Aminopropargyloxy Acetates to Novel α-Hydroxy-γ-amino Acids Containing an Allene Unit (2015)

The [2,3]-Wittig rearrangement of propargyloxy acetates bearing a propargylic stereocenter opposite to the oxyacetic acid moiety gives α-hydroxy-γ-amino acids containing an allene unit under high stereocontrol. The resulting product displays a novel type of γ-amino acid with a potentially intriguing biological profile.
Antibiotics from the Nematode-Trapping BasidiomyceteNematoctonus robustus (1994)

Abstract Pleurotin, dihydropleurotinic acid and leucopleurotin, metabolites previously isolated from cultures of a Hohenbuehelia species, were obtained from cultures of the nematode-trapping deuteromycete Nematoctonus robustus. Crystals suitable for X-ray analysis were obtained from dihydropleurotinic acid. All three compounds exhibited antibacterial, antifungal and cytotoxic but no nematicidal activities. The production of these compounds by Nematoctonus, a known anamorph of Hohenbuehelia reveals also a close chemotaxonomic relationship between the sexual and imperfect stage of these basidiomycetes. Key Words: Nematode-trapping fungiNematoctonus robustusPleurotinDihydropleurotinic AcidLeucopleurotinAntimicrobialCytotoxic Activity
Cloning and characterization of three new mouse P450 enzymes (2006)

We report the physical map of the murine CYP2J subfamily which contains 8 genes and 2 pseudogenes, located on a 0.58 Mb region of chromosome 4. Three novel Cyp2j genes were identified and designated Cyp2j11 , Cyp2j12 and Cyp2j13 . The cDNAs were cloned by PCR from reverse‐transcribed mouse kidney or brain RNA. The cDNAs contain open reading frames that encode polypeptides which have conserved regions present in all P450s. RT‐PCR analysis showed that the CYP2J11 transcript is most abundant in the kidney, the CYP2J12 transcript is most abundant in the brain, and the CYP2J13 transcript is present in multiple tissues including kidney. Northern analysis with full‐length cDNAs confirm the results for CYP2J11 and CYP2J13. The recombinant CYP2J proteins were expressed in Sf9 or Sf21 insect cells using the baculovirus system. Spectral analysis of microsomal fractions of infected insect cells show typical CO‐difference spectra for all three P450s with Soret maxima at ~450 nm. Each of the three recombinant proteins metabolized arachidonic acid (AA) to epoxyeicosatrienoic and hydroxyeicosatrienoic acids, albeit with different rates and profiles. Polyclonal antibodies were produced to specific CYP2J peptides in order to examine the expression of these new P450s at the protein level. Immunoblotting studies confirmed that these antibodies reacted with their respective CYP2J recombinant proteins. We propose that these three new CYP2J enzymes may be involved in the metabolism of AA in mouse extrahepatic tissues. This research was supported by the Intramural Research Program of the NIH, National Institute of Environmental Health Sciences.
012  164 second conceptual film without dialogue, successfully conveys the impor- tance of early intervention in MS (2022)

Objectives Early treatment in MS often needs to be started in the absence of symptoms. This preventa- tive approach is a complex concept to convey to a naïve population. We produced a 164 second film without dialogue with the aim of assessing whether it delivered its message successfully. Methods PwMS were recruited from clinics, the UK MS Register and a general population. Based upon industry standards, pre-specified outcomes included 50% viewer retention equivalent to watching 30 seconds and 50% understanding of 4 concepts. The film was incorporated into a website explaining the concepts and participants answered questions about the concepts. Results Viewer retention was 887/1102 (80%) in the total population with an average viewing duration of 149/164 seconds (91%), significantly above the pre-specified outcome percent (p&lt;0.0001). In the MS Register population 757/959 (78.9%) pwMS had total understanding (4/4 concepts) compared with 29/42 (69%) in pwMS from outpatients and 136/149 (91%) in the general population. Understanding in all cohorts were significantly above the pre-specified outcomes (p&lt;0.0001) with greatest understanding in the general population versus pwMS (p&lt;0.0001). Conclusions A short, targeted film successfully conveys the importance of early intervention to both MS and non-MS audiences. d.wilkie@imperial.ac.uk
Appraisal of anti-protozoan activity of nitroaromatic benzenesulfonamides inhibiting carbonic anhydrases from Trypanosoma cruzi and Leishmania donovani (2019)

Chagas disease and leishmaniasis are neglected tropical disorders caused by the protozoans <i>Trypanosoma cruzi</i> and <i>Leishmania</i> spp. Carbonic anhydrases (CAs, EC 4.2.1.1) from these protozoans (α-TcCA and β-LdcCA) have been validated as promising targets for chemotherapic interventions. Many anti-protozoan agents, such as nitroimidazoles, nifurtimox, and benznidazole possess a nitro aromatic group in their structure which is crucial for their activity. As a continuation of our previous work on <i>N</i>-nitrosulfonamides as anti-protozoan agents, we investigated benzenesulfonamides bearing a nitro aromatic moiety against TcCA and LdcCA, observing selective inhibitions over human off-target CAs. Selected derivatives were assessed <i>in vitro</i> in different developmental stages of <i>T. cruzi</i> and <i>Leishmania</i> spp. A lack of significant growth inhibition has been found, which has been connected to the low permeability of this class of derivatives through cell membranes. Further strategies necessarily need to be designed for targeting Chagas disease and leishmaniasis with nitro-containing CA inhibitors.
Membrane-binding domain of the small G protein G25K contains an S-(all-trans-geranylgeranyl)cysteine methyl ester at its carboxyl terminus. (1991)

We showed previously that a 23-kDa guanine nucleotide-binding protein (G protein) purified from bovine brain membranes is carboxyl methylated and that this modification occurs at or near the membrane-binding domain. In the present study, we identified this small G protein as G25K (formerly termed Gp). We demonstrated that proteolytic digests of 3H-methylated G25K contained radiolabeled material that coeluted with synthetic S-(geranylgeranyl)cysteine methyl ester on reversed-phase HPLC. Further treatment by performic acid oxidation yielded radiolabeled material that coeluted with L-cysteic acid methyl ester, verifying that the isoprenoid moiety and carboxyl methyl ester are localized on a C-terminal cysteine residue. Analysis by gas chromatography-coupled mass spectrometry of material released from purified G25K by Raney nickel treatment positively identified the covalently bound lipid as an all-trans-geranylgeranyl (C20) isoprenoid moiety. These results suggest that geranylgeranyl modification and perhaps methyl esterification function in the membrane localization of this small G protein.
Validity and Representativity in the Danish Breast Cancer Cooperative Group (2003)

Population-based cancer registries collect basic information on incident cases, whereas clinical databases hold a broad range of variables that make them attractive sources in epidemiological research. Quality, completeness and representativeness of the clinical database in the Danish Breast Cancer Cooperative group (DBCG) were compared with those in a complete population-based database holding detailed information on patients with breast cancer. The study included 1765 patients diagnosed in Aarhus County between 1983 and 1989. Data on tumour characteristics were of high quality. Fifty percent of patients were included in DBCG trials and a total of 83% were notified in the DBCG register, the rest having significantly poorer stage distribution and survival probabilities. However, for patients younger than 70 years of age, the difference in overall survival between all patients and those notified in the DBCG register was only 2%. Follow-up was incomplete in patients treated outside the programme, and this had a major impact on recurrence-free survival. The DBCG database holds high-quality data, but as a population-based database, it is neither comprehensive nor representative.
Experimental validation of a lithium-ion battery state of charge estimation with an extended Kalman filter (2009)

In this paper an averaged electrochemical lithiumion battery model, presented and discussed in [2] and [3], is identified and validated through experimental data by a 10 Ah li-ion battery pack, during charge and discharge experiments.
Isothermal Fatigue of Interconnections in Flexible Hybrid Electronics Based Human Performance Monitors (2018)

The development of reliable Flexible Hybrid Electronics (FHE) that are light, wearable and conforming to the human body while still preserving full operational integrity requires among other an understanding of the fatigue behavior of interconnects such as traces on flexible substrates (Polyimide, Polyethylene Terephthalate, etc.). There are different loading modes of potential concern, such as tension, bending and peeling. The present study addresses effects of tension on aerosol printed AgNP (silver nano-particles) traces. These traces are nano-porous and as such inherently brittle, but the presence of a flexible substrate has major effects on their behavior. Electroplated Cu traces are included for reference. Major increases in electrical resistance were observed for even minor deformation but inspection by SEM did not reveal any damage, and the presence of the substrate prevents the detection of changes in trace properties through direct measurement of deformation vs. the applied loads. Studies of the evolution of damage were therefore limited to characterization of the resistance vs. variations in strain. Interpretations of results were further complicated by the time-dependent viscoelastic deformation of the substrate. Nevertheless, systematic trends are appearing.
Matrix Metalloproteinase 9 (MMP9) Expression in Preeclamptic Decidua and MMP9 Induction by Tumor Necrosis Factor Alpha and Interleukin 1 Beta in Human First Trimester Decidual Cells1 (2008)

Extravillous trophoblasts (EVTs) invade human decidua via sequential integrin-mediated binding and proteolysis of basement membrane proteins in the extracellular matrix (ECM). In preeclampsia, shallow EVT invasion impairs spiral artery and arteriole remodeling to reduce uteroplacental blood flow. Excess decidual cell-expressed matrix metalloproteinases (MMPs) 2 and 9, in response to preeclampsia-related interleukin 1 beta (IL1B) and tumor necrosis factor alpha (TNF), may inappropriately degrade these basement membrane proteins and impede EVT invasion. This study found significantly higher immunohistochemical MMP9 levels in decidual cells and adjacent interstitial trophoblasts in placental sections of preeclamptic versus gestational age-matched control women. In contrast, immunostaining for MMP2 and tissue inhibitor of matrix metalloproteinases 1 and 2 (TIMP1 and TIMP2) were similar in preeclamptic and control groups. First-trimester decidual cells were incubated with estradiol (E(2)) or E(2) + medroxyprogesterone acetate (MPA), with or without TNF or IL1B. As measured by ELISA, both cytokines elicited concentration-dependent increases in secreted MMP9 levels that were unaffected by MPA. In contrast, secreted levels of MMP2, TIMP1, and TIMP2 were unchanged in all treatment groups. Substrate gel zymography and Western blotting confirmed that each cytokine increased secreted levels of MMP9 but not MMP2. Similarly, quantitative RT-PCR found that TNF and IL1B enhanced MMP9, but not MMP2, mRNA levels. At the implantation site, inflammatory cytokine-enhanced MMP9 may promote preeclampsia by disrupting the decidual ECM to interfere with normal stepwise EVT invasion.
Experimental Evaluation of a Retrievable Vena Cava Filter (1994)

A new retrievable filter, consisting of a helical basket of ten stainless steel wires and a retrieval cable, was tested in 7 adult sheep. The filter was inserted into the infrarenal vena cava through a 9-F sheath and fixed subcutaneously by a stabilizing ball at the skin insertion site. An average of 15.6 days after the filter placement, a follow-up cavography and clot-trapping tests were performed. The filter was retrieved through a 9-F sheath. Although all of the filters were free of thrombi and all of the inferior venae cavae were patent with good flow, two caval stenoses were noted below the filter. All 4 x 30 mm clots were trapped by the filter. Five filters were retrieved successfully; however, two filters could not be retrieved. Although these initial animal studies have shown this basket-type filter to be less than ideal, the development of a filter than can be successfully retrieved is essential for expanding the application of vena cava filters.
Edgetic perturbation models of human inherited disorders (2009)

Cellular functions are mediated through complex systems of macromolecules and metabolites linked through biochemical and physical interactions, represented in interactome models as 'nodes' and 'edges', respectively. Better understanding of genotype-to-phenotype relationships in human disease will require modeling of how disease-causing mutations affect systems or interactome properties. Here we investigate how perturbations of interactome networks may differ between complete loss of gene products ('node removal') and interaction-specific or edge-specific ('edgetic') alterations. Global computational analyses of approximately 50,000 known causative mutations in human Mendelian disorders revealed clear separations of mutations probably corresponding to those of node removal versus edgetic perturbations. Experimental characterization of mutant alleles in various disorders identified diverse edgetic interaction profiles of mutant proteins, which correlated with distinct structural properties of disease proteins and disease mechanisms. Edgetic perturbations seem to confer distinct functional consequences from node removal because a large fraction of cases in which a single gene is linked to multiple disorders can be modeled by distinguishing edgetic network perturbations. Edgetic network perturbation models might improve both the understanding of dissemination of disease alleles in human populations and the development of molecular therapeutic strategies.
Deliberation Networks and How to Train Them (2022)

Deliberation networks are a family of sequence-to-sequence models, which have achieved state-of-the-art performance in a wide range of tasks such as machine translation and speech synthesis. A deliberation network consists of multiple standard sequence-to-sequence models, each one conditioned on the initial input and the output of the previous model. During training, there are several key questions: whether to apply Monte Carlo approximation to the gradients or the loss, whether to train the standard models jointly or separately, whether to run an intermediate model in teacher forcing or free running mode, whether to apply task-specific techniques. Previous work on deliberation networks typically explores one or two training options for a specific task. This work introduces a unifying framework, covering various training options, and addresses the above questions. In general, it is simpler to approximate the gradients. When parallel training is essential, separate training should be adopted. Regardless of the task, the intermediate model should be in free running mode. For tasks where the output is continuous, a guided attention loss can be used to prevent degradation into a standard model.
Development of a high yielding E. coli periplasmic expression system for the production of humanized Fab' fragments (2016)

Humanized Fab' fragments may be produced in the periplasm of Escherichia coli but can be subject to degradation by host cell proteases. In order to increase Fab' yield and reduce proteolysis we developed periplasmic protease deficient strains of E. coli. These strains lacked the protease activity of Tsp, protease III and DegP. High cell density fermentations indicated Tsp deficient strains increased productivity two fold but this increase was accompanied by premature cell lysis soon after the induction of Fab' expression. To overcome the reduction in cell viability we introduced suppressor mutations into the spr gene. The mutations partially restored the wild type phenotype of the cells. Furthermore, we coexpressed a range of periplasmic chaperone proteins with the Fab', DsbC had the most significant impact, increasing humanized Fab' production during high cell density fermentation. When DsbC coexpression was combined with a Tsp deficient spr strain we observed an increase in yield and essentially restored "wild type" cell viability. We achieved a final periplasmic yield of over 2.4g/L (final cell density OD<sub>600</sub> 105), 40 h post Fab' induction with minimal cell lysis.The data suggests that proteolysis, periplasm integrity, protein folding and disulphide bond formation are all potential limiting steps in the production of Fab' fragments in the periplasm of E. coli. In this body of work, we have addressed these limiting steps by utilizing stabilized protease deficient strains and chaperone coexpression. © 2016 American Institute of Chemical Engineers Biotechnol. Prog., 33:212-220, 2017.
Physics-guided neural networks for feedforward control: From consistent identification to feedforward controller design (2022)

Model-based feedforward control improves tracking performance of motion systems, provided that the model describing the inverse dynamics is of sufficient accuracy. Model sets, such as neural networks (NNs) and physics-guided neural networks (PGNNs) are typically used as flexible parametrizations that enable accurate identification of the inverse system dynamics. Currently, these (PG)NNs are used to identify the inverse dynamics directly. However, direct identification of the inverse dynamics is sensitive to noise that is present in the training data, and thereby results in biased parameter estimates which limit the achievable tracking performance. In order to push performance further, it is therefore crucial to account for noise when performing the identification. To address this problem, this paper proposes the use of a forward system identification using (PG)NNs from noisy data. Afterwards, two methods are proposed for inverting PGNNs to design a feedforward controller for high-precision motion control. The developed methodology is validated on a real-life industrial linear motor, where it showed significant improvements in tracking performance with respect to the direct inverse identification.
Parallel Solution‐ and Solid‐Phase Synthesis of Spirohydantoin Derivatives as Neurokinin‐1 Receptor Ligands. (2003)

Abstract For Abstract see ChemInform Abstract in Full Text.
Cardiovascular disease‐induced thermal responses during passive heat stress: an integrated computational study (2016)

The cardiovascular system plays a crucial role in human thermoregulation; cardiovascular diseases may lead to significantly degrading the thermoregulation ability for patients during exposure to heat stress. To evaluate the thermal responses of patients with common chronic cardiovascular diseases, we here propose an integrated computational model by coupling a two-node thermoregulation model with a closed-loop, multi-compartment, lumped-parameter cardiovascular model. This bioheat transfer model is validated, capable to predict cardiovascular functions and thermal responses under varying environmental conditions. Our results demonstrate that the cardiovascular disease-induced reduction in cardiac output and skin blood flow causes extra elevation in core temperature during hyperthermic challenges. In addition, a combination of aging, obesity, and cardiovascular diseases shows a pronounced increase in core temperature during heat exposure, which implies that such combined effect may increase the risk of heat-related morbidity and mortality. Copyright © 2016 John Wiley & Sons, Ltd.