gebhart/patrepeval huggingface dataset:
Expression and methylation data from SLE patient and healthy control blood samples subdivided with respect to ARID3a levels (2016)

Previously published studies revealed that variation in expression of the DNA-binding protein ARID3a in B lymphocytes from patients with systemic lupus erythematosus (SLE) correlated with levels of disease activity ("Disease activity in systemic lupus erythematosus correlates with expression of the transcription factor AT-rich-interactive domain 3A" (J.M. Ward, K. Rose, C. Montgomery, I. Adrianto, J.A. James, J.T. Merrill et al., 2014) [1]). The data presented here compare DNA methylation patterns from SLE peripheral blood mononuclear cells obtained from samples with high numbers of ARID3a expressing B cells (ARID3a(H)) versus SLE samples with normal numbers of ARID3a(+) B cells (ARID3a(N)). The methylation data is available at the gene expression omnibus (GEO) repository, "Gene Expression Omnibus: NCBI gene expression and hybridization array data repository" (R. Edgar, M. Domrachev, A.E. Lash, 2002) [2]. Isolated B cells from SLE ARID3a(H) and ARID3a(N) B samples were also evaluated via qRT-PCR for Type I interferon (IFN) signature and pathway gene expression levels by qRT-PCR. Similarly, healthy control B cells and B cells stimulated to express ARID3a with the TLR agonist, CpG, were also compared via qRT-PCR. Primers designed to detect 6 IFNa subtype mRNAs were tested in 4 IFNa, Epstein-Barr Virus-transformed B cell lines ("Reduced interferon-alpha production by Epstein-Barr virus transformed B-lymphoblastoid cell lines and lectin-stimulated lymphocytes in congenital dyserythropoietic anemia type I" (S.H. Wickramasinghe, R. Hasan, J. Smythe, 1997) [3]). The data in this article support the publication, "Human effector B lymphocytes express ARID3a and secrete interferon alpha" (J.M. Ward, M.L. Ratliff, M.G. Dozmorov, G. Wiley, J.M. Guthridge, P.M. Gaffney, J.A. James, C.F. Webb, 2016) [4].
Assessment and Augmentation of Symptomatic Anteromedial or Posterolateral Bundle Tears of the Anterior Cruciate Ligament (2008)

The anterior cruciate ligament (ACL) consists of 2 anatomic and functional bundles, the anteromedial (AM) and posterolateral (PL) bundle. Depending on the mechanism of injury, there are different injury patterns to the AM and PL bundles, demonstrating a wide spectrum of partial ACL tears. Clinical interest has recently focused on establishing pre- and intraoperative ways of assessing the different types of symptomatic partial ACL injuries in order to perform an individual ACL augmentation according to the specific injury pattern. Theoretically, sparing the intact parts of the ACL may increase vascularization and proprioception, may optimize the accuracy of the ACL reconstruction, and may result in better stability and improved clinical outcome for the patient. However, an isolated reconstruction of the AM or PL bundle is an advanced arthroscopic procedure that requires a precise pre- and intraoperative diagnostic assessment of the injury pattern, an exact arthroscopic knowledge of the anatomic insertion sites, a careful debridement, and bone tunnel placement while preserving the intact parts of the ACL. This article will present the concept of partial ACL tears and will describe the clinical, radiologic, and arthroscopic assessment and the arthroscopic technique of isolated AM or PL bundle augmentation.
The use of lumbar epidural injection of platelet lysate for treatment of radicular pain (2017)

Patients treated with PL epidurals reported significant improvements in pain, exceeded the minimal clinically important difference (MCID) for FRI, and reported subjective improvement through 2-year follow-up. PL may be a promising substitute for corticosteroid.
Synaptic Efficacy as a Function of Ionotropic Receptor Distribution: A Computational Study (2015)

Glutamatergic synapses are the most prevalent functional elements of information processing in the brain. Changes in pre-synaptic activity and in the function of various post-synaptic elements contribute to generate a large variety of synaptic responses. Previous studies have explored postsynaptic factors responsible for regulating synaptic strength variations, but have given far less importance to synaptic geometry, and more specifically to the subcellular distribution of ionotropic receptors. We analyzed the functional effects resulting from changing the subsynaptic localization of ionotropic receptors by using a hippocampal synaptic computational framework. The present study was performed using the EONS (Elementary Objects of the Nervous System) synaptic modeling platform, which was specifically developed to explore the roles of subsynaptic elements as well as their interactions, and that of synaptic geometry. More specifically, we determined the effects of changing the localization of ionotropic receptors relative to the presynaptic glutamate release site, on synaptic efficacy and its variations following single pulse and paired-pulse stimulation protocols. The results indicate that changes in synaptic geometry do have consequences on synaptic efficacy and its dynamics.
CD3ζ and CD28 down-modulation on CD8 T cells during viral infection (2000)

Down-modulation of CD3zeta expression on CD8 T lymphocytes occurs, independently of other T-cell receptor (TCR)-CD3 components, in tumor-infiltrating lymphocytes, human immunodeficiency virus infection, and autoimmune disease. These associations suggest that it might be related to chronic antigenic stimulation. CD3zeta down-modulation was found, however, in CD8 T cells that proliferate in response to acute viral infections. In 3 otherwise healthy donors with acute gastroenteritis, infectious mononucleosis, and Epstein-Barr virus/cytomegalovirus/mononucleosis, 30% to 60% of circulating CD8 T cells had down-modulated CD3zeta to below the level of detection. The CD3zeta-T cells were also CD28- but expressed the activation markers HLA-DR and CD57. CD3zeta-CD28- T cells are effector CTL because they express perforin and produce IFN-gamma, but not IL-2, on activation and contain the viral-specific cytotoxic T lymphocyte (CTL). However, CD3zeta-CD28-T cells generally do not express CD25 after anti-CD3 and anti-CD28 stimulation and are not cytotoxic until they are cultured with IL-2 overnight. Cytotoxicity coincides with the re-expression of CD3zeta but not CD28. Down-modulation of CD3zeta and CD28 on effector CTL may control CTL triggering and proliferation to prevent immunopathogenesis.
Prognosis of Individuals With Asymptomatic Left Ventricular Systolic Dysfunction in the Multi-Ethnic Study of Atherosclerosis (MESA) (2012)

ALVSD is uncommon in individuals without previous clinical CVD, but it is associated with high risk for CHF, CVD, and all-cause mortality. The left ventricular mass index had good discrimination for incident CHF in Multi-Ethnic Study of Atherosclerosis (MESA) participants with ALVSD.
SIRT1 mRNA Expression May Be Associated With Energy Expenditure and Insulin Sensitivity (2010)

Impaired stimulation of EE by insulin and low SIRT1 expression in insulin-sensitive tissues is likely to reflect impaired regulation of mitochondrial function associated with insulin resistance in humans.
Rapid Isolation of Rat Brain Nuclei on Percoll Gradients (1991)

A rapid isotonic method for fractionation of nuclei from rat brain is described. This procedure is based on the use of discontinuous colloidal silica gel (Percoll) gradients. We start from a 63,000-g purified nuclear pellet (fraction P3) isolated from gray matter and white matter separately. This is followed by fractionation of fraction P3 in an initial differential centrifugation step on five-step Percoll gradients producing six nuclear fractions designated 1, 2, 3 (gray matter) and 4, 5, 6 (white matter). Fractions 2, 4, and 5 obtained from this centrifugation are heterogeneous. These fractions are subfractionated further under isopycnic conditions using five-step Percoll gradients to yield subfractions 2b, 4b, and 5c. Three methods were used to characterize the nuclear types. First, light and electron microscopic examination was used to identify the nuclei in each preparation and to assess the purity of each preparation. Second, the activities of RNA polymerase I and II were monitored. Third, the protein/DNA ratios of the nuclear fractions were determined. Fraction 1 was enriched in neuronal nuclei; fractions 2b and 4b in astrocytic nuclei; and fractions 3, 5c, and 6 in nuclei of oligodendrocytes. RNA polymerase I and II activity was highest in fraction 1, which also displayed the highest protein/DNA ratio. Electron microscopy showed that the various classes of nuclei are congruent to 90% pure. Therefore, the procedure described here is suitable for obtaining highly purified neuronal and three types of glial nuclei from rat brain.
Heat Transfer Enhancement Within a Turbine Blade Cooling Passage Using Ribs and Combinations of Ribs With Film Cooling Holes (1994)

A transient heat transfer method which uses liquid crystals has been applied to a scale model of a turbine rotor blade passage. Detailed contours of local heat transfer coefficient are presented for the passage in which the heat transfer to one wall was enhanced firstly by ribs and then with ribs combined with holes. The hole geometry and experimental dimensionless flow rates were representative of those occurring at the entrance to engine film cooling holes. The results for the ribbed passage are compared to established correlations for developed flow. Qualitative surface shear stress distributions were determined with liquid crystals. The complex distributions of heat transfer coefficient are discussed in the light of the interpreted flow field.
Real-Time Error Correction of High Speed Time-Interleaved Analog-to-Digital Converters with State of the Art FPGA Technology (2012)

High speed time-interleaved analog-to-digital converters (TIADCs) suffer from gain, offset and timing errors wich reduce their effective resolution. By a posterior digital error correction this errors can be corrected. To achieve this, known error models are applied to the converters. Error estimation and error correction approaches are derived from these models. A realization of a digital real-time posterior error estimation and error correction is implemented in VHDL for a 3 to 6 bit analogto- digital converter with a sampling rate up to 24GS/s.
An analysis of strategies for mitigating the sensor network hot spot problem (2005)

In multi-hop wireless sensor networks that are characterized by many-to-one (converge-east) traffic patterns, problems related to energy imbalance among sensors often appear. When the transmission range is fixed for nodes throughout the network, the amount of traffic that sensors are required to forward increases dramatically as the distance to the data sink becomes smaller. Thus, sensors closest to the data sink tend to die early. Network lifetime can be improved to a limited extent by the use of a more intelligent transmission power control policy that balances the energy used in each node by requiring nodes further from the data sink to transmit over longer distances (although not directly to the data sink). Alternatively, policies such as data aggregation allow the network to operate in a more energy efficient manner. Since the deployment of an aggregator node may be significantly more expensive than the deployment of an ordinary microsensor node, there is a cost tradeoff involved in this approach. This paper provides an analysis of these policies for mitigating the sensor network hot spot problem, considering energy efficiency as well as cost efficiency.
Gas-phase NMR spectroscopy of cyclohexane: environmental effects on conformational isomerism (1983)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTGas-phase NMR spectroscopy of cyclohexane: environmental effects on conformational isomerismBrian D. Ross and Nancy S. TrueCite this: J. Am. Chem. Soc. 1983, 105, 5, 1382–1383Publication Date (Print):March 1, 1983Publication History Published online1 May 2002Published inissue 1 March 1983https://pubs.acs.org/doi/10.1021/ja00343a058https://doi.org/10.1021/ja00343a058research-articleACS PublicationsRequest reuse permissionsArticle Views160Altmetric-Citations29LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Investigation of dielectric behaviour in ferrofluid–ferroelectric liquid crystal nanocomposites (2012)

We demonstrate here the frequency-bias-temperature-dependent dielectric studies of ferrofluid (FF) mixed ferroelectric liquid crystals (FLCs; SCE13 and Felix017/100). As a FF, cobalt ferrite nanoparticles (∼9 nm) synthesised through chemical co-precipitation were used in the study. In these FF–FLCs nanocomposites, a memory (dielectric) effect is observed at room temperature, which becomes more pronounced as the temperature tends towards the smectic C* (SmC*) to smectic A (SmA) phase transitions. Moreover, in addition to the memory effect, the observed enhanced dielectric constant (ϵ′) also reveals the importance of FF nanoparticles in the FLC matrix. We anticipate that, in current nanocomposites, the interaction of the AC field frequency response of FF nanoparticles with the dielectric response of FLCs could be the plausible reason for these observations.
Improved glucose oxidation catalytic current generation by an FAD-dependent glucose dehydrogenase-modified hydrogel electrode, in accordance with the Hofmeister effect (2021)

Abstract Herein, we describe the effect of varying anions in an electrolyte solution on current generation by a redox hydrogel electrode. The electrode surface is coated with a thin film of hydrogel matrix, consisting of an osmium (Os) redox polymer including tethered Os complexes, polymer backbone, and a redox enzyme. In this case, the enzymes employed are flavin adenine dinucleotide-dependent glucose dehydrogenase (FAD-GDH), which catalyzes glucose oxidation, and the result was compared with that reported earlier for glucose oxidase (GOx). The hydrogel matrix facilitates efficient electron transfer from glucose to the electrode via collision of the Os complexes and thus acts as a mediator. The degree of impact of anions on current generation is characteristic of the Hofmeister series. Chaotropic anions, such as nitrate and chloride, increase and decrease the catalytic current produced by FAD-GDH and GOx hydrogel electrodes, respectively. Such anions can adsorb onto the cationic region of the FAD-GDH surface and induce a negative charge, which enhances electrostatic interactions between the enzyme and the positively charged Os polymer. Kosmotropic anions, such as sulphate and phosphate increase the catalytic current due to hydrogel shrinkage, which increases the relative concentrations of both enzyme and mediator within the hydrogel architecture due to an increase in density. High-performance electrode design depends on understanding the impact of ion identity on catalytic current responses of redox hydrogel electrodes.
Formation of metallic colloids in CaF2 by intense ultraviolet light (2011)

Highest purity CaF2 single crystals are irreversibly modified when irradiated with millions of pulses of 193 nm light at fluences of 120 mJ/cm2. Mie theory explains the observed haze by attributing the wavelength dependent extinction and the ratio between absorption and scattering to metallic colloids with radii in the range of 20 to 30 nm and a fractional volume of up to 2.8·10-7. Non-contact scanning force microscopy (NC-AFM) measurements performed on a surface produced by in-vacuo cleavage reveals that laser irradiation additionally produces a 104 times higher volume density of colloids with a radius of 1 to 2 nm.
Energetics of Na<sup>+</sup>Transport through the Electrode/Cathode Interface in Single Solvent Electrolytes (2017)

Here, the activation energy of desolvation for Na-ion electrolyte systems were studied using temperature dependent electrochemical impedance spectroscopy (EIS). Propylene carbonate (PC) and tetraglyme were chosen as solvents in single solvent electrolyte solution coupled with NaClO<sub>4</sub>, NaPF<sub>6</sub>, NaAsF<sub>6</sub>, NaBF<sub>4</sub>, and NaOFt salts. The results demonstrate the insertion and desolvation processes are extremely fast at or above room temperature. The data shows under optimal salt chemistry the desolvation activation energy is less than 21 kJ/mole. This is in contrast to the ~50 kJ/mole measured for analogous Li systems. The dominant factor affecting performance was the anion. Indeed, anions with lower donor numbers (PF<sub>6</sub><sup>–</sup>, AsF<sub>6</sub><sup>–</sup>) had more than 30 kJ/mole lower desolvation energies than species like NaBF<sub>4</sub> and NaOFt.
Synthesis and Hole‐Transporting Property of a Novel Poly(<i>N</i>‐vinylcarbazole) Copolymer with Metal‐Coordination Sites (2005)

Abstract Summary: Hole transporting poly( N ‐vinylcarbazole) copolymers with phenylazomethine dendron units acting as metal ligation sites were synthesized. These polymers possess both hole‐transport and metal‐collecting units with simple σ ‐bond linkages. Complexation in the phenylazomethine dendron unit within these copolymers by SnCl 2 has been successfully observed by the change in the UV‐vis spectra. The complexation changes the HOMO/LUMO energy gap that results in a spectral red‐shift. Using copolymers as a hole‐transport layer, only complexation with metal ions leads to an enhanced maximum luminescence. Such a complexation results in a high electroluminescence efficiency because the p ‐type‐doped structure acts as the hole‐transport layer. Copolymerization for the preparation of DPAG n ( x )‐Cbz( y ). magnified image Copolymerization for the preparation of DPAG n ( x )‐Cbz( y ).
Correlation analysis of the beam angle dependence for elastography (2006)

Signal decorrelation is a major source of error in the displacements estimated using correlation techniques for elastographic imaging. Previous papers have addressed the variation in the correlation coefficient as a function of the applied compression for a finite window size and an insonification angle of zero degrees. The recent use of angular beam-steered radio-frequency echo signals for spatial angular compounding and shear strain estimation have demonstrated the need for understanding signal decorrelation artifacts for data acquired at different beam angles. In this paper, we provide both numerical and closed form theoretical solutions of the correlation between pre- and post-compression radio-frequency echo signals acquired at a specified beam angle. The expression for the correlation coefficient obtained is a function of the beam angle and the applied compression for a finite duration window. Accuracy of the theoretical results is verified using tissue-mimicking phantom experiments on a uniformly elastic phantom using beam-steered data acquisitions on a linear array transducer. The theory predicts a faster decorrelation with changes in the beam or insonification angle for longer radio-frequency echo signal segments and at deeper locations in the medium. Theoretical results provide useful information for improving angular compounding and shear strain estimation techniques for elastography.
Immobilization of monolayer protected lipophilic gold nanorods on a glass surface (2012)

We present a novel process of immobilization of gold nanorods (GNRs) on a glass surface. We demonstrate that by exploiting monolayer protection of the GNRs, their unusual optical properties can be completely preserved. UV-visible spectroscopy and atomic force microscopy analysis are used to reveal the optical and morphological properties of monolayer protected immobilized lipophilic GNRs, and molecular dynamics simulations are used to elucidate their surface molecule arrangements.
Disrupting the HDAC6-ubiquitin interaction impairs infection by influenza and Zika virus and cellular stress pathways (2022)

The deacetylase HDAC6 has tandem catalytic domains and a zinc finger domain (ZnF) binding ubiquitin (Ub). While the catalytic domain has an antiviral effect, the ZnF facilitates influenza A virus (IAV) infection and cellular stress responses. By recruiting Ub via the ZnF, HDAC6 promotes the formation of aggresomes and stress granules (SGs), dynamic structures associated with pathologies such as neurodegeneration. IAV subverts the aggresome/HDAC6 pathway to facilitate capsid uncoating during early infection. To target this pathway, we generate designed ankyrin repeat proteins (DARPins) binding the ZnF; one of these prevents interaction with Ub in vitro and in cells. Crystallographic analysis shows that it blocks the ZnF pocket where Ub engages. Conditional expression of this DARPin reversibly impairs infection by IAV and Zika virus; moreover, SGs and aggresomes are downregulated. These results validate the HDAC6 ZnF as an attractive target for drug discovery.
Advanced Design and Fabrication of Microwave Components Based on Shape Optimization and 3D Ceramic Stereolithography Process (2011)

Advanced Design and Fabrication of Microwave Components Based on Shape Optimization and 3D Ceramic Stereolithography Process
Time evolution of predictability of epidemics on networks (2015)

Epidemic outbreaks of new pathogens, or known pathogens in new populations, cause a great deal of fear because they are hard to predict. For theoretical models of disease spreading, on the other hand, quantities characterizing the outbreak converge to deterministic functions of time. Our goal in this paper is to shed some light on this apparent discrepancy. We measure the diversity of (and, thus, the predictability of) outbreak sizes and extinction times as functions of time given different scenarios of the amount of information available. Under the assumption of perfect information---i.e., knowing the state of each individual with respect to the disease---the predictability decreases exponentially, or faster, with time. The decay is slowest for intermediate values of the per-contact transmission probability. With a weaker assumption on the information available, assuming that we know only the fraction of currently infectious, recovered, or susceptible individuals, the predictability also decreases exponentially most of the time. There are, however, some peculiar regions in this scenario where the predictability decreases. In other words, to predict its final size with a given accuracy, we would need increasingly more information about the outbreak.