gebhart/patrepeval huggingface dataset:
Electric Cell-substrate Impedance Sensing for the Quantification of Endothelial Proliferation, Barrier Function, and Motility (2014)

Electric Cell-substrate Impedance Sensing (ECIS) is an in vitro impedance measuring system to quantify the behavior of cells within adherent cell layers. To this end, cells are grown in special culture chambers on top of opposing, circular gold electrodes. A constant small alternating current is applied between the electrodes and the potential across is measured. The insulating properties of the cell membrane create a resistance towards the electrical current flow resulting in an increased electrical potential between the electrodes. Measuring cellular impedance in this manner allows the automated study of cell attachment, growth, morphology, function, and motility. Although the ECIS measurement itself is straightforward and easy to learn, the underlying theory is complex and selection of the right settings and correct analysis and interpretation of the data is not self-evident. Yet, a clear protocol describing the individual steps from the experimental design to preparation, realization, and analysis of the experiment is not available. In this article the basic measurement principle as well as possible applications, experimental considerations, advantages and limitations of the ECIS system are discussed. A guide is provided for the study of cell attachment, spreading and proliferation; quantification of cell behavior in a confluent layer, with regard to barrier function, cell motility, quality of cell-cell and cell-substrate adhesions; and quantification of wound healing and cellular responses to vasoactive stimuli. Representative results are discussed based on human microvascular (MVEC) and human umbilical vein endothelial cells (HUVEC), but are applicable to all adherent growing cells.
Respirometric Techniques for Real-Time Monitoring of Corrosion Reactions (2022)

Recently, we have introduced novel respirometric methods for real-time monitoring of corrosion, both for atmospheric corrosion [1,2] and immersion conditions [3]. The approach is based on monitoring the rate of the cathodic reactions with help of different types of sensors; this enables to track the O 2 reduction reaction and the H 2 evolution reaction simultaneously. Different experimental setups have been developed, from static to flow cell scenarios. Moreover, combining respirometry with time-lapse microscopy reveals interesting details on initiation and propagation of corrosion. Most recently, the respirometric setups were coupled with electrochemistry [4], enlarging the corrosion cases to be studied from open-circuit conditions to potential-controlled systems. With this, it is possible for instance to follow and quantify the amount of oxygen evolving during transpassive dissolution of stainless steels at potentials above the water stability region (i.e., the net electrical current/charge can be assigned into partial currents for oxygen evolution and for metal dissolution). Examples will be presented, to illustrate the potential of these techniques to reveal new insights into corrosion mechanisms of active and passive metals and alloys. References M. Strebl, S. Virtanen, Real-Time Monitoring of Atmospheric Magnesium Alloy Corrosion, Journal of The Electrochemical Society 166 (2019) C3001-C3009 M. Strebl, M. Bruns, S. Virtanen, Editors’ Choice—Respirometric in Situ Methods for Real-Time Monitoring of Corrosion Rates: Part I. Atmospheric Corrosion, J. Electrochem. Soc. 167 (2020) 21510 M.G. Strebl, M.P. Bruns, G. Schulze, S. Virtanen, Respirometric In Situ Methods for Real-Time Monitoring of Corrosion Rates: Part II. Immersion, J. Electrochem. Soc. 168 (2021) 11502 M.G. Strebl, M.P. Bruns, S. Virtanen, Coupling Respirometric HER and ORR Monitoring with Electrochemical Measurements, Electrochimica Acta 412 (2022) 140152
A comparison of terbinafine (LamisilR) 1% cream given for one week with clotrimazole (CanestenR) 1% cream given for four weeks, in the treatment of tinea pedis (1994)

Terbinafine (Lamisil) is a synthetic allylamine antifungal which has been shown to be fungicidal against dermatophytes and a number of yeasts and moulds. Topical application of terbinafine 1% cream has been shown to be a highly effective short-duration therapy for dermatophytosis of the skin. The aim of this multicentre, double-blind, parallel-group study was to compare the safety and efficacy of terbinafine 1% cream, applied twice daily for 1 week, with clotrimazole (Canesten) 1% cream, applied twice daily for 4 weeks, in the treatment of tinea pedis. One hundred and seven patients with mycologically proven tinea pedis received 1 week of terbinafine 1% cream, followed by 3 weeks of placebo, and 104 patients received clotrimazole 1% cream for 4 weeks. Mycological cure (negative microscopy and culture) and effective treatment (mycological cure with no or minimal signs and symptoms) were assessed 4 and 6 weeks after commencing therapy. Mycological cure rates were 93.5% for terbinafine and 73.1% for clotrimazole (P = 0.0001) at 4 weeks. Effective treatment rates at 4 weeks were 89.7% for terbinafine and 58.7% for clotrimazole (P = 0.0001), and 89.7% for terbinafine and 73.1% for clotrimazole (P = 0.002) at 6 weeks. The results show that 1 week of terbinafine b.d. is more effective than 4 weeks of clotrimazole b.d., in terms of both mycological cure and effective treatment.
Graph filter banks with M-channels, maximal decimation, and perfect reconstruction (2016)

Signal processing on graphs finds applications in many areas. Motivated by recent developments, this paper studies the concept of spectrum folding (aliasing) for graph signals under the downsample-then-upsample operation. In this development, we use a special eigenvector structure that is unique to the adjacency matrix of M-block cyclic matrices. We then introduce M-channel maximally decimated filter banks. Manipulating the characteristics of the aliasing effect, we construct polynomial filter banks with perfect reconstruction property. Later we describe how we can remove the eigenvector condition by using a generalized decimator. In this study graphs are assumed to be general with a possibly non-symmetric and complex adjacency matrix.
Formation of Tricyclic [4.3.3.0] Adducts between 8-Oxoguanosine and Tyrosine under Conditions of Oxidative DNA−Protein Cross-Linking (2008)

8-Oxo-7,8-dihydro-2'-deoxyguanosine (OG), a prevalent product of oxidative stress on cellular DNA, is readily further oxidized forming adducts with nucleophiles. In the presence of tyrosine or p-cresol, an unusual tricyclo[4.3.3.0] adduct has been characterized in both nucleoside and oligodeoxynucleotide studies. The adduct is more stable in oligomers than nucleosides and undergoes slow reversion and hydration to spiroiminodihydantoin.
Acute Neurological Illness in a Kidney Transplant Recipient Following Infection With Enterovirus-D68: An Emerging Infection? (2015)

We report the first case of enterovirus-D68 infection in an adult living-donor kidney transplant recipient who developed rapidly progressive bulbar weakness and acute flaccid limb paralysis following an upper respiratory infection. We present a 45-year-old gentleman who underwent pre-emptive living-donor kidney transplantation for IgA nephropathy. Eight weeks following transplantation, he developed an acute respiratory illness from enterovirus/rhinovirus that was detectable in nasopharyngeal (NP) swabs. Within 24 h of onset of respiratory symptoms, the patient developed binocular diplopia which rapidly progressed to multiple cranial nerve dysfunctions (acute bulbar syndrome) over the next 24 h. Within the next 48 h, asymmetric flaccid paralysis of the left arm and urinary retention developed. While his neurological symptoms were evolving, the Centers for Disease Control reported that the enterovirus strain from the NP swabs was, in fact, Enterovirus-D68 (EV-D68). Magnetic resonance imaging of the brain demonstrated unique gray matter and anterior horn cell changes in the midbrain and spinal cord, respectively. Constellation of these neurological symptoms and signs was suggestive for postinfectious encephalomyelitis (acute disseminated encephalomyelitis [ADEM]) from EV-D68. Treatment based on the principles of ADEM included intensive physical therapy and other supportive measures, which resulted in a steady albeit slow improvement in his left arm and bulbar weakness, while maintaining stable allograft function.
Optimisation jointe d'une séquence et d'un filtre désadapté (2017)

International audience
Energetic Neutral Atom (ENA) Imaging of the Heliosheath: Spectral Characteristics and Implications for Shock Acceleration from Observations by the Neutral Particle Detector (NPD) on board Venus Express (VEX) (2009)

Here we report on the spectral characteristics across the sky of ENAs in the ∼0.1-3 keV range generated in the heliosheath observed by NPD on board Venus Express. Plasma and energetic particle measurements during the termination shock crossings by the Voyagers reveal that most of the particle energization occurs in the pick-up ion energy range (∼0.1-10 keV) [Richardson, Nature, July, 2008] a range that was not covered by the Voyager instrumentation, but is covered by the ASPERA-4/NPD measurements. We seek to determine if the ENA spectra observed by NPD are consistent with the expected energization at these energies.
Lipase Production by Acinetobacter radioresistens in the Presence of a Nonwoven Fabric (1999)

Lipase production by Acinetobacter radioresistens was performed in a 2-L tank fermentor equipped with a nonwoven fabric, which was made of nylon 6 fiber and coated with a hydrophobic acrylic resin. The fermentation medium contained 2% (v/v) n-hexadecane as the carbon source. The use of the nonwoven fabric was intended for the dispersion of hydrocarbons; thus, the contact surface for the cells to assimilate n-hexadecane can be increased without using emulsifiers. The formation of lipase was found to be growth-associated when the cells grew on n-hexadecane. The use of the nonwoven fabric increased the lipase yield by 130%. Further supplementation of 0.1% (v/v) olive oil to the medium could markedly shorten the fermentation time, and thus increase the volumetric productivity. The use of the nonwoven fabric offered two additional advantages in the lipase fermentation: ease of foam control and favorable partition of lipase in the aqueous phase.
Temporal resolution of global gene expression and DNA methylation changes in the final phases of reprogramming towards induced pluripotency (2019)

Abstract The generation of induced pluripotent stem cells (iPSCs) involves activation of the endogenous pluripotency circuitry and global DNA demethylation late in reprogramming, but temporal resolution of these events using existing markers is insufficient. Here, we generated murine transgenic lines harboring dual fluorescent reporters reflecting cell-state specific expression of the master pluripotency factor Oct4 and the 5-methylcytosine dioxygenase Tet1 . By assessing reprogramming intermediates based on dual reporter patterns, we identified a sequential order of Tet1 and Oct4 gene activation at proximal and distal regulatory elements following pluripotency entry. Full induction of Tet1 marks a pivotal late intermediate stage occurring after a phase of global gene repression, and preceding full activation of Oct4 along with late naive pluripotency and germline-specific genes. Sequential activation of Tet1 further distinguishes two waves of global DNA demethylation, targeting distinct genomic features and largely uncoupled from transcriptional changes, with dynamics unique to iPSC reprogramming. Moreover, we demonstrate that loss of Tet1 is compatible with reprogramming towards full Oct4 gene activation, but generates iPSCs with aberrant DNA methylation, chromosomal instability during lineage priming and defective differentiation potential. Therefore, the transcriptional logic of Tet1 expression signals a deterministic epigenetic roadmap towards generation of high quality iPSCs.
Effect of N‐Glycosylation on Turnover and Subcellular Distribution of N‐Acetylgalactosaminyltransferase I and Sialyltransferase II in Neuroblastoma Cells (2000)

Gangliosides are sialylated glycosphingolipids whose biosynthesis is catalyzed by a series of endoplasmic reticulum (ER)- and Golgi-resident glycosyltransferases. Protein expression, processing, and subcellular localization of the key regulatory enzymes for ganglioside biosynthesis, sialyltransferase II (ST-II) and N-acetylgalactosaminyltransferase I (GalNAcT), were analyzed upon transient expression of the two enzymes in the neuroblastoma cell lines NG108-15 and F-11. The enzymes were endowed with a C-terminal epitope tag peptide (FLAG) for immunostaining and immunoaffinity purification using a FLAG-specific antibody. Mature ST-II-FLAG and GalNAcT-FLAG were expressed as N-glycoproteins with noncomplex oligosaccharides. ST-II-FLAG was distributed to the Golgi apparatus, whereas GalNAcT-FLAG was found in the ER and Golgi. Inhibition of early N-glycoprotein processing with castanospermine resulted in a distribution of ST-II-FLAG to the ER, whereas that of GalNAcT-FLAG remained unaltered. In contrast to GalNAcT, the activity of ST-II and the amount of immunostained enzyme were reduced concomitantly by 75% upon incubation with castanospermine. This was due to a fourfold increased turnover of ST-II-FLAG, which was not found with GalNAcT-FLAG. The ER retention and increased turnover of ST-II-FLAG were most likely due to its inability to bind to calnexin upon inhibition of early N-glycoprotein processing. Calnexin binding was not observed for GalNAcT-FLAG, indicating a differential effect of N-glycosylation on the turnover and subcellular localization of the two glycosyltransferases.
A Novel Coupling-Based Model for Wideband MIMO Channel (2009)

In this paper, a novel analytical model structure for wideband multiple-input multiple-output (MIMO) channel is presented. It is based on the power coupling between direction of departure (DoD), direction of arrival (DoA) and delay domain. As its realizations, firstly the singular value decomposition (SVD) based model is introduced and the virtual presentation model is extended to the wideband situation. Then a hybrid model is given on basis of the power coupling between the transmit eigenmodes, receive eigenmodes and frequency steering vectors. The hybrid model can provide the tradeoff between the complexity and accuracy. At last, the novel coupling-based model structure is summarized. With a 3.52 GHz wideband MIMO sounder, measurements are carried out in different indoor scenarios. Monte Carlo simulations are used to generate the channel realizations according to these proposed wideband models. Good agreements are achieved between the discussed models and measured data.
Characteristics and reoperation rates of paediatric tarsal coalitions: A population-based study (2020)

III.
Adhesion proteins of Mycoplasma pneumoniae (2006)

Mycoplasmas are unique cell wall deficient, cholesterol requiring, highly pleomorphic bacteria that possess very small genome. M. pneumoniae is an important human pathogen that possesses specialized tip organelle to mediate cytadherence. It is a complex multifactorial process requiring a group of mycoplasma proteins such as P1, P30, P116 and HMW1-3. Expression of major mycoplasma adhesin proteins in heterologous expression systems provides an opportunity to study the role(s) of these proteins in pathogenicity and helps to develop diagnostic reagents. In this review we highlight the role(s) of various cytadhesin proteins of M. pneumoniae.
Design of Multilayer Dielectric Mirrors Optimized for Femtosecond Laser Pulses (2015)

A general method for modelling reflection in a multilayer structure is developed. This is used to simulate how a Gaussian Ti:sapphire femtosecond pulse reflects off of a peri-odic SiO2/TiO2 dielectric stack at normal incidence. The method is based on a transfer matrix approach combined with the fast Fourier transform in MATLAB. Both a simple Bragg reflector and a linearly chirped mirror is investigated for three different pulse durations using mirrors with 5, 10, 20 and 40 layer pairs. It is demonstrated that a Bragg reflector is not suitable for reflecting a pulse shorter than 10 femtoseconds due to the limited reflectance bandwidth. The chirped mirror features a wider reflectance bandwidth but a reflected pulse exhibits strong group delay oscillations with wave-length, emanating from unwanted high-order dispersion in the mirror. Designs based on refined versions of this mirror type can however be used for reflection and disper-
Effect of La Additive on the Morphology and Photocatalytic Perfomance of 2D TiO2 Nanosheets: Degradation of 4 Chlorophenol (2019)

Journal Article Effect of La Additive on the Morphology and Photocatalytic Perfomance of 2D TiO2 Nanosheets: Degradation of 4 Chlorophenol Get access Snejana Bakardjieva, Snejana Bakardjieva Institute of Inorganic Chemistry of the Czech Academy of Sciences, 250 69 Rez, Czech Republic Corresponding author: snejana@iic.cas.cz Search for other works by this author on: Oxford Academic Google Scholar Radek Fajgar, Radek Fajgar Institute of Chemical Process and Fundamentals of the Czech Academy of Sciences, Rozvojova 2/135, 165 02 Prague, Czech Republic Search for other works by this author on: Oxford Academic Google Scholar Victor Y Zenou, Victor Y Zenou Nuclear Research Center-Negev, Department of Material Engineering, 841 90 Beer Sheva, Israel Search for other works by this author on: Oxford Academic Google Scholar Hana Bibova, Hana Bibova J. Heyrovsky Institute of Physical Chemistry of the CAS, Dolejskova 2155/3, 182 23 Prague, Czech Republic Search for other works by this author on: Oxford Academic Google Scholar Efthalia Chatzisymeon, Efthalia Chatzisymeon School of Engineering, Institute for Infrastructure and Environment, the University of Edinburgh, Edinburgh, EH9 3JL, United Kingdom Search for other works by this author on: Oxford Academic Google Scholar Rosica Nikolova Rosica Nikolova Institute for Mineralogy and Crystallography of the BAS, 1113 Sofia, Bulgaria Search for other works by this author on: Oxford Academic Google Scholar Microscopy and Microanalysis, Volume 25, Issue S2, 1 August 2019, Pages 2230–2231, https://doi.org/10.1017/S1431927619011887 Published: 01 August 2019
Roll Resonance Control of Angle of Attack for Re-entry Vehicle Drag Modulation (1981)

Abstract : Slender ballistic reentry vehicles are highly susceptible to roll rate changes caused by small asymmetries in mass and configuration. One particular combination of asymmetries, consisting of a body-fixed trim angle of attack and a small radial c.g. offset, can cause a rapid spinup into resonance, with a large amplification in trim angle of attack and a concomitant increase in drag. By controlling the magnitude and direction of the c.g. offset with a moving-mass roll control system, it is possible to control the roll rate near resonance and to limit the angle-of-attack and drag response to a controlled value. A feedback law is derived, and the control system is demonstrated with a digital-computer simulation of the equations of rotational motion. (Author)
Monitoring of nanodiamonds in human urine using artificial neural networks (2016)

This paper presents the results of application of the elaborated methods for monitoring of nanodiamonds in human urine using fluorescence spectroscopy. High efficiency of artificial neural networks applied for recognition and estimation of the concentration of nanodiamonds in urine with a strong autofluorescence background is demonstrated. It was found that minimal concentration of nanodiamonds with strong fluorescence containing nitrogen‐vacancy (NV) centers can be detected in urine by fluorescence spectroscopy at a level of 3.06 × 10 −4 g L −1 ; while use of artificial neural networks for detection of weakly fluorescent detonation nanodiamonds provides reasonably high accuracy of detection, not worse than 6.8 × 10 −3 g L −1 .
Caldueemedlated neurotoxidty: relat ship to specific channel types and role in isdemic damage (1988)

Dennis W. Choi An influx of extraceUular Ca e+, with subsequent cellular Ca e+ overload, can clearly cause certain types of cell death, and has been hypothesized to be a primary etiological event m hypoxic-ischemic neuronal injury. Recently, this hypothesis has acquired new specificity, as hypoxic-ischemic neuronal injury has been linked to the excessive activation of postsynaptic glutamate receptors, and glutamate neurotoxicity itself has been linked to a lethal influx of extracellular Ca e+ through cell mem- brane channels. Available data suggest that channels gated by the N-methyl-z~-aspartate (NMDA) subclass of glutamate receptors may
Force overflow and levodopa‐induced dyskinesias in Parkinson’s disease (2002)

We assessed force coordination of the hand in Parkinson's disease and its relationship to motor complications of levodopa therapy, particularly to levodopa-induced dyskinesias (LID). We studied two groups of Parkinson's disease patients with (Parkinson's disease + LID, n = 23) and without levodopa-induced dyskinesias (Parkinson's disease - LID, n = 10), and age-matched healthy controls. The motor score of the Unified Parkinson's Disease Rating Scale, a dyskinesia score and force in a grip-lift paradigm were assessed ON and OFF levodopa. A pathological increase of forces was seen in ON-state in Parkinson's disease + LID only. In Parkinson's disease + LID, the force involved in pressing down the object before lifting was significantly increased by levodopa (by 61%, P < 0.05). An overshooting of peak grip force by 51% (P < 0.05) and of static grip force by 45% (P < 0.01) was observed in the ON- compared with the OFF-drug condition. In contrast, no excessive force was found in Parkinson's disease - LID. Peak grip force in ON-state was 140% (P < 0.05) higher in Parkinson's disease + LID than in Parkinson's disease - LID, while static grip force was increased by 138% (P < 0.01) between groups. Severity of peak-dose dyskinesias was strongly correlated with grip force in ON-state (r = 0.79 with peak force, P < 0.01). No correlation was observed between forces and the motor score as well as with the daily dose of dopaminergic medication. Force excess was only observed in patients with LID and motor fluctuations. A close relationship was seen between the overshooting of forces and dyskinesias in the ON-drug condition. We postulate that both LID and grip force excess share common pathophysiological mechanisms related to motor fluctuations.