gebhart/patrepeval huggingface dataset:
A Unified Molecular Signature of Systemic Lupus Erythematosus Revealed by Integrated, Multi-Cohort Transcriptomic Analysis (2019)

Abstract Systemic lupus erythematosus (SLE) is a complex autoimmune disease that follows an unpredictable disease course and affects multiple organs and tissues. We performed an integrated, multi-cohort analysis of 7,471 transcriptomic profiles from 40 independent studies to identify robust gene expression changes associated with SLE. We identified a 93-gene signature (SLE MetaSignature) that is differentially expressed in the blood of SLE patients compared to healthy volunteers; distinguishes SLE from other autoimmune, inflammatory, and infectious diseases; and persists across diverse tissues and cell types. The SLE MetaSignature correlated significantly with disease activity and other clinical measures of inflammation. We prospectively validated the SLE MetaSignature in an independent cohort of pediatric SLE patients using a microfluidic RT-qPCR array. We found that 14 of the 93 genes in the SLE MetaSignature were independent of interferon-induced and neutrophil-related transcriptional profiles that have previously been associated with SLE. Pathway analysis revealed dysregulation associated with nucleic acid biosynthesis and immunometabolism in SLE. We further refined a neutropoeisis signature and identified under-appreciated transcripts related to immune cells and oxidative stress. Our multi-cohort, transcriptomic analysis has uncovered under-appreciated genes and pathways associated with SLE pathogenesis, with the potential to advance clinical diagnosis, biomarker development, and targeted therapeutics for SLE.
The Role of Palladium Nanoparticles as Catalysts for Carbon–Carbon Coupling Reactions (2007)

This chapter contains sections titled: Introduction Stable Palladium Colloids and Nanoparticles Palladium Colloids in the Heck Reaction Palladium Colloids in Other C-C Coupling Reactions Ligand-free Palladium Catalysts The Ligand-free Heck Reaction Ligand-free Palladium as Catalyst in Other C-C Bond Forming Reactions Palladacycles, Pincers and Other Palladium Complexes as Precursors of Palladium Nanoclusters Palladium Supported on Solids as Catalysts for Carbon–Carbon Coupling Reactions Heck Coupling by Supported (Solid) Pd Catalysts – General Motivation Progress in Heck Reactions Catalyzed by Palladium Supported on Solids – Activation of Bromobenzene and Aryl Chlorides Heck Reactions of Non-activated Aryl Bromides Reactions of Aryl Chlorides Conclusions from the Literature Reports Properties of the Catalyst Importance of Reaction Conditions Potential for Practical Applications Supported Palladium Catalysts in Other Coupling Reactions Mechanistic Aspects of Heck (and Related) Reactions by (Supported) Nanoparticles: Homogeneous or Heterogeneous Catalysis? Mechanistic Cycle Conclusions
Expression of syndecan in transformed mouse keratinocytes. (1992)

The results suggest, that transformed epithelial cells can modulate the appearance of syndecan on the cell-surface by at least two ways: (a) by altering its glycosylation or (b) by increasing its shedding from the cell surface. These modulations, together with overall suppression of syndecan expression, could be associated with malignant transformation of keratinocytes.
Proximity exchange coupling across an MgO tunnel barrier detected via spin precession (2020)

Proximity exchange coupling across an MgO tunnel barrier is observed up to room temperature. The proximity exchange field, which ferromagnetic Fe exerts on the spin accumulation in a Fe/MgO/Si tunnel contact, modifies the spin precession of the spin accumulation at the MgO/Si interface and is detected via the inverted Hanle effect in a three-terminal configuration. It produces shifts and hysteresis of the inverted Hanle curves, and discontinuities at the coercive field of the ferromagnet, at which the magnetization and thereby the exchange field is reversed. The proximity exchange field is observed not only at low temperature, as we previously reported, but also at room temperature. We compare the magnitude of the exchange field at different temperatures, and complement this with data on the tunnel resistance and the tunnel spin polarization, which was extracted from four-terminal non-local spin transport in the same devices.
SQLCM: a continuous monitoring framework for relational database engines (2004)

The ability to monitor a database server is crucial for effective database administration. Today's commercial database systems support two basic mechanisms for monitoring: (a) obtaining a snapshot of counters to capture current state, and (b) logging events in the server to a table/file to capture history. We show that for a large class of important database administration tasks the above mechanisms are inadequate in functionality or performance. We present an infrastructure called SQLCM that enables continuous monitoring inside the database server and that has the ability to automatically take actions based on monitoring. We describe the implementation of SQLCM in Microsoft SQL Server and show how several common and important monitoring tasks can be easily specified in SQLCM. Our experimental evaluation indicates that SQLCM imposes low overhead on normal server execution end enables monitoring tasks on a production server that would be too expensive using today's monitoring mechanisms.
Measurement of the Difference of Time-IntegratedCPAsymmetries inD0→K−K+andD0→π−π+Decays (2016)

A search for CP violation in D^{0}→K^{-}K^{+} and D^{0}→π^{-}π^{+} decays is performed using pp collision data, corresponding to an integrated luminosity of 3 fb^{-1}, collected using the LHCb detector at center-of-mass energies of 7 and 8 TeV. The flavor of the charm meson is inferred from the charge of the pion in D^{*+}→D^{0}π^{+} and D^{*-}→D[over ¯]^{0}π^{-} decays. The difference between the CP asymmetries in D^{0}→K^{-}K^{+} and D^{0}→π^{-}π^{+} decays, ΔA_{CP}≡A_{CP}(K^{-}K^{+})-A_{CP}(π^{-}π^{+}), is measured to be [-0.10±0.08(stat)±0.03(syst)]%. This is the most precise measurement of a time-integrated CP asymmetry in the charm sector from a single experiment.
Tight-Binding Molecular Dynamics of Shock Waves in Methane (1999)

The behavior of shock-compressed methane at high temperatures and pressures is studied using nonequilibrium molecular dynamics and linear-scaling tight-binding electronic structure theory in simulations containing as many as 1728 molecules. For certain piston velocities, a chemical dissociation wave evolves that lags behind the compressive shock front. At about 1 ps, the dissociation region consists mainly of molecular hydrogen and hydrocarbon polymers. Shock wave experiments, which access much longer time scales, suggest that the hydrocarbons ultimately decompose into elemental carbon.
Multi-functional low-pass filters with dynamically-controlled in-band rejection notches (2016)

A new class of multi-functional low-pass filters (LPFs) with multiple dynamically-controlled rejection bands in their passband is reported. They are based on series-cascaded RF modules that functionalize a low-pass (LP) transfer function with/without an embedded absorptive notch (AN). In this manner, multiple rejection bands that exhibit theoretically-infinite attenuation and do not affect the passband insertion loss (IL) are incorporated within the passband of a highly-selective LPF that features smaller size and lower IL than a conventional cascade of individual filter blocks. Further advantages include: i) scalability to an arbitrary number of rejection bands, ii) independent control of the ANs in terms of frequency and isolation (IS), and iii) the ability to control the number of active notches in the passband. The concept is experimentally validated through a manufactured lumped-element prototype with two frequency-tunable ANs. They are located within a low-IL (<0.8 dB) LPF with cut-off frequency of 765 MHz and wide out-of-band IS (<30 dB between 0.9–11 GHz). Moreover, they can be independently controlled or merged into a wider rejection band for frequencies between 275–491 MHz (1.8⌶1). Independent control of AN IS (15–58 dB) is also shown.
The alpha C protein mediates internalization of group BStreptococcuswithin human cervical epithelial cells (2002)

Group B Streptococcus (GBS) is the leading cause of bacterial chorioamnionitis and neonatal pneumonia, sepsis, and meningitis. Deletion of the alpha C protein gene (bca) attenuates the virulence of GBS in an animal model; significant survival differences in the first 24 h of infection suggest a pathogenic role for the alpha C protein early in the infection process. We examined the role of alpha C protein in the association between GBS and mucosal surfaces using a human cervical epithelial cell line, ME180. Fluorescent and confocal microscopy and flow cytometry demonstrated that 9-repeat alpha C protein binds to the surface of ME180 cells. Isolated N-terminal region of this protein also binds to these cells and competitively inhibits binding of the full protein. Wild-type GBS strain A909 and the bca-null isogenic mutant JL2053 bound similarly to the surface of ME180 cells. However, A909 entered these cells threefold more. Internalization of A909 was inhibited with 2- and 9-repeat alpha C and with N-terminal region alone but not by repeat region-specific peptide. Translocation across polarized ME180 membranes was fivefold greater for A909 than for JL2053. These findings suggest a role for the alpha C protein in interaction with epithelial surfaces and initiation of infection.
(Invited) Machine Learning for DNA/SWCNT Based Molecular Perceptron: Finding Sequences and Training Sensor Arrays (2022)

Single wall carbon nanotube (SWCNT) based biosensors provide opportunities for building an ultra-sensitive biosensing system due to their unique optical properties and strong sensitivity to changes in the local environment. Consequently, much effort has been made to develop SWCNT-based sensors. However, the usual method is based on one-to-one recognition which is a difficult way to detect a variety of molecules. In this study, we describe a sensing system, which we call the Molecular Perceptron, that uses an array of weakly-specific sensors combined with a machine learning model. We show how machine learning algorithms, along with choice of feature representation, can be used both for discovery of special resolving DNA sequences and to predict presence and concentration of biomarkers. DNA/SWCNT hybrids were utilized to optically detect biomarker analytes by observing changes in the fluorescence spectra of each SWCNT. Using the experimental data, machine learning models were trained using three different algorithms: Support Vector Machine, Random Forest, and Artificial Neural Network. We demonstrated this platform in gynecologic cancers, often diagnosed at advanced stages, leading to low survival rates. We investigated the detection of protein biomarkers in uterine lavage samples, which are enriched with certain cancer markers compared to blood. We found that the method enables the simultaneous detection of multiple biomarkers in patient samples, with F1-scores of ~0.95 in uterine lavage samples from patients with cancer. This work demonstrates the potential of perception-like systems for the development of multiplexed sensors of disease biomarkers without the need for specific molecular recognition elements. We also demonstrated that machine learning models trained on relatively small DNA sequence data sets can very accurately predict new resolving DNA sequences.
Efficient implementation of space time coding for broadband wireless communications (2003)

This paper presents an efficient implementation of space-time coding for broadband wireless communications. A user-friendly menu-driven space time (ST) trellis coding simulator with a graphical user interface (GUI) is developed. The simulator is used to predict the improved performance and diversity gains of a ST coding system through a number of parameters including type of trellis codes and channel fading. Results are presented to demonstrate the versatility of the developed simulator for predicting the performance of a ST coding system under different coding and channel conditions.
Multiple Microabscesses in the Central Nervous System (1989)

We reviewed 2,107 consecutive autopsies with neuropathologic examination at the Medical Center Hospital of Vermont, and identified 92 cases with significant pathologic evidence for infection involving the central nervous system (CNS). Of these, 35 took the form of multiple microabscesses. There were 19 men and 16 women, mean age 56. All patients were chronically ill, usually with an associated impaired immunity. The lung was the most frequent site of primary infection, and sepsis was often present. The most commonly identified causative organisms were Staphylococcus aureus and Candida albicans. Patients with CNS microabscesses developed a progressive encephalopathy associated with waxing and waning signs and symptoms. Laboratory and neuroradiologic studies were not helpful in elucidating the problem. We conclude that multiple microabscesses are a frequent, usually unrecognized, manifestation of CNS infection, and should be considered in the differential diagnosis of encephalopathy in hospitalized patients with chronic disease, immunosuppression and sepsis.
Comparison of metal-dependent catalysis by HIV-1 and ASV integrase proteins using a new and rapid, moderate throughput assay for joining activity in solution (2009)

A simplified, assay for measuring the joining activity of retroviral IN in solution is described, which offers several advantages over previous methods and the standard radioactive gel analyses. Based on comparisons of signal to background ratios, the assay is 10-30 times more sensitive than gel analysis, allows more rapid and accurate biochemical analyses of IN catalytic activity, and moderate throughput screening of inhibitory compounds. The assay is validated, and its utility demonstrated in a comparison of the metal-dependent activities of HIV-1 and ASV IN proteins.
Intersystem crossing observed by ultrasonic relaxation of the 2T .dblharw. 6A spin equilibrium of hexadentate iron(III) complexes in solution (1978)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTIntersystem crossing observed by ultrasonic relaxation of the 2T .dblharw. 6A spin equilibrium of hexadentate iron(III) complexes in solutionRobert A. Binstead, James K. Beattie, Eric V. Dose, Michael F. Tweedle, and Lon J. WilsonCite this: J. Am. Chem. Soc. 1978, 100, 18, 5609–5614Publication Date (Print):August 1, 1978Publication History Published online1 May 2002Published inissue 1 August 1978https://pubs.acs.org/doi/10.1021/ja00486a005https://doi.org/10.1021/ja00486a005research-articleACS PublicationsRequest reuse permissionsArticle Views80Altmetric-Citations26LEARN 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
3-Dimensional Graphene Carbon Nanotube Carpet-Based Microsupercapacitors with High Electrochemical Performance (2012)

In this research, 3-dimensional (3D) graphene/carbon nanotube carpets (G/CNTCs)-based microsupercapacitors (G/CNTCs-MCs) were fabricated in situ on nickel electrodes. The G/CNTCs-MCs show impedance phase angle of -81.5° at a frequency of 120 Hz, comparable to commercial aluminum electrolytic capacitors (AECs) for alternating current (ac) line filtering applications. In addition, G/CNTCs-MCs deliver a high volumetric energy density of 2.42 mWh/cm(3) in the ionic liquid, more than 2 orders of magnitude higher than that of AECs. The ultrahigh rate capability of 400 V/s enables the microdevices to demonstrate a maximum power density of 115 W/cm(3) in aqueous electrolyte. The high-performance electrochemical properties of G/CNTCs-MCs can provide more compact ac filtering units and discrete power sources in future electronic devices. These elevated electrical features are likely enabled by the seamless nanotube/graphene junctions at the interface of the differing carbon allotropic forms.
Efficiency comparison of spatial and spectral diversity techniques for fading mitigation in free-space optical communications over tactical-range distances (2013)

In long-range situations, the performance of free-space optical (FSO) communication links is strongly impacted by atmospheric turbulence. In this paper we compare efficiency of turbulence effects mitigation in FSO communication links using spectral (wavelength) and spatial diversity techniques. Numerical analysis of both techniques is performed considering FSO communication setting with single-mode fiber-collimator transceivers. In the case of spectral diversity setting, the fiber-collimators are based on the use of photonic crystal fibers that provide single-mode operation for three distinct wavelengths (532, 1064 and 1550nm). In the spatial diversity communication setting, analysis is performed using multiple-transceiver configurations. Analysis includes both received signal's statistical and temporal spectral characteristics.
Video--post- vehicle tumor vascular area from Enzymatic Depletion of Tumor Hyaluronan Induces Antitumor Responses in Preclinical Animal Models (2023)

&lt;p&gt;Video - 2-D ultrasound cine loop of post- vehicle tumor vascular area Vehicle at t = 8h; Mouse #413&lt;/p&gt;
255: Clusterin May Regulate NF-KB-Regulated Genes (2006)

You have accessJournal of UrologyDiscussed Poster, Sunday, May 21, 2006, 9:00 am - 12:00 pm1 Apr 2006255: Clusterin May Regulate NF-KB-Regulated Genes Norihiro Hayashi, Susan Ettinger, Eliana Beraldi, Amina Zoubeidi, Ladan Fazli, Palma Rocchi, Colleen Nelson, and Martin E. Gleave Norihiro HayashiNorihiro Hayashi More articles by this author , Susan EttingerSusan Ettinger More articles by this author , Eliana BeraldiEliana Beraldi More articles by this author , Amina ZoubeidiAmina Zoubeidi More articles by this author , Ladan FazliLadan Fazli More articles by this author , Palma RocchiPalma Rocchi More articles by this author , Colleen NelsonColleen Nelson More articles by this author , and Martin E. GleaveMartin E. Gleave More articles by this author View All Author Informationhttps://doi.org/10.1016/S0022-5347(18)32522-9AboutPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "255: Clusterin May Regulate NF-KB-Regulated Genes." The Journal of Urology, 175(4S), pp. 84–85 © 2016 by American Urological AssociationFiguresReferencesRelatedDetails Volume 175Issue 4SApril 2006Page: 84-85 Advertisement Copyright & Permissions© 2016 by American Urological AssociationMetricsAuthor Information Norihiro Hayashi More articles by this author Susan Ettinger More articles by this author Eliana Beraldi More articles by this author Amina Zoubeidi More articles by this author Ladan Fazli More articles by this author Palma Rocchi More articles by this author Colleen Nelson More articles by this author Martin E. Gleave More articles by this author Expand All Advertisement PDF downloadLoading ...
Supplementary Figure 3 from FLT3 Ligand Enhances the Cancer Therapeutic Potency of Naked RNA Vaccines (2023)

&lt;p&gt;PDF file - 1.40 MB&lt;/p&gt;
Rhodium catalysed enantioselective synthesis of mono-(halo)-methyl-cyclopropanes (2018)

The catalytic asymmetric synthesis of mono-fluoro-, -chloro- and -bromomethyl-1,2-diaryl cyclopropane ester is described. The reaction, using Rh2((S)-BTPCP)4 as a catalyst, allowed the formation of the desired cyclopropanes in good to excellent yields (up to 99%) and excellent diastereoselectivities (up to >20 : 1) and with a high level of enantioselectivities (up to 98% ee). Finally, the synthetic utility of the chiral cyclopropanes was also demonstrated.
Preliminary results of the cachexia prevalence study in hematology from HEMODIAG cohort: prevention by adapted physical activity perspectives (2019)

Les lymphomes et le myelome sont des hemopathies malignes traitees par chimiotherapies. Ces traitements favorisent la survenue d’une cachexie, caracterisee par une perte de poids involontaire, entrainant une augmentation du risque de mortalite et une diminution de la qualite de vie. L’objectif principal de cette etude etait d’investiguer la prevalence de la cachexie chez les patients atteints d’un lymphome ou d’un myelome au sein de la cohorte HEMODIAG, selon les criteres diagnostiques de Fearon et al. et Martin et al. Respectivement, parmi les 146 patients inclus dans notre etude, 16 % des patients sont cachectiques via le critere de Fearon contre 38 % via celui de Martin. Base sur une matrice de correlation correlee a la survie, le score de Martin semble plus pertinent pour evaluer la cachexie. L’activite physique adaptee constituerait un moyen de prevenir la cachexie en agissant sur l’ensemble des mecanismes physiopathologiques, mais aucune etude ne le prouve chez l’humain atteint de cancer. Nos prochains travaux s’attacheront donc a evaluer l’effet preventif d’un programme d’APA supervise au domicile du patient atteint de lymphome ou de myelome sur la cachexie.
Organic Synthesis in Micro Reactors (2004)

This article reviews the current and future applications of micro reactors in the field of chemistry, biochemistry and drug discovery. The fabrication and physical characterisation of micro reactors, together with details of their use and operation is described. Liquid and gas phase reactions have been used to illustrate the advantages of performing chemical reactions in micro reactors. A brief evaluation of the possible advantages that micro fabrication could offer in developing biological applications, based on miniaturized devices is also presented.