gebhart/patrepeval huggingface dataset:
Concomitant Antibiotic Usage Does Not Further Increase the Risk of Inflammatory Bowel Disease with Isotretinoin Treatment for Acne: A Review of the Food and Drug Administration Adverse Event Reporting System (2012)

Purpose: Studies have linked isotretinoin prescribed for acne with the development of inflammatory bowel disease (IBD). Exposure to oral antibiotics in the treatment of acne, specifically the tetracycline group, has also been shown to be associated with the development of IBD. We reviewed all reports of isotretinoin and antibiotic associated IBD in patients with acne in the Food and Drug Administration (FDA) Adverse Event Reporting System (AERS) to compare the risk of IBD development with isotretinoin or oral antibiotic exposure and to investigate whether an augmentation in risk occurs with concomitant usage of both. Methods: 2,562,390 files between January 2003 and June 2011 were downloaded from the FDA AERS and analyzed using SPSS 20 (IBM Co. Armonk, NY, USA). A search was conducted for cases of IBD reported with generic and trade names of isotretinoin and oral antibiotics (cephalosporins, penicillins, teracyclines, metronidazole, lincosamides, nitrofurantoin, macrolides, quinolones, and sulfonamides) with an indication of acne. For comparison, control drugs (Alka seltzerTM, brivanib alaninate, alendronic acid, ketoconazole, omeprazole, and paclitaxel) restricted to an indication of acne but not known to be associated with IBD were used. Similarly, control reactions (calculus, hernia, joint dislocation, viral infection, herpes, and neoplasm) with the study and control drugs were identified. Concomitant antibiotic exposure was then identified for primary suspect cases listed with isotretinoin. Due to a potential reporting bias with lawyer initiated reports, only reports from medical professionals and consumers were included in this analysis. Odds ratios were calculated to determine risk using Fisher's exact test. Results: There were 265 cases of IBD with isotretinoin treatment as primary suspect while only 6 cases were reported with oral antibiotics. Isotretinoin exposure was associated with an increased risk of development of IBD (OR 40.368, CI 95% 2.25-724.52, p-value < 0.001), while no increased risk was seen with oral antibiotic exposure (OR 6.76, CI 95% .33-139.82, p-value = 0.277). Exposure to both isotretinoin and oral antibiotics together did not demonstrate an increased risk of developing IBD regardless of the number of antibiotics exposed compared to patients exposed to isotretinoin alone (Table 1).Table: Added risk of IBD from antibiotic exposure with isotretinoin useConclusion: Isotretinoin exposure is associated with the development of IBD. Based on this analysis, exposure to oral antibiotics does not appear to produce IBD or augment the effect of isotretinoin for developing IBD.
Use of Proteins Identified through a Functional Genomic Screen To Develop a Protein Subunit Vaccine That Provides Significant Protection against Virulent Streptococcus suis in Pigs (2017)

<i>Streptococcus suis</i> is a bacterium that is commonly carried in the respiratory tract and that is also one of the most important invasive pathogens of swine, commonly causing meningitis, arthritis, and septicemia. Due to the existence of many serotypes and a wide range of immune evasion capabilities, efficacious vaccines are not readily available. The selection of <i>S. suis</i> protein candidates for inclusion in a vaccine was accomplished by identifying fitness genes through a functional genomics screen and selecting conserved predicted surface-associated proteins. Five candidate proteins were selected for evaluation in a vaccine trial and administered both intranasally and intramuscularly with one of two different adjuvant formulations. Clinical protection was evaluated by subsequent intranasal challenge with virulent <i>S. suis</i> While subunit vaccination with the <i>S. suis</i> proteins induced IgG antibodies to each individual protein and a cellular immune response to the pool of proteins and provided substantial protection from challenge with virulent <i>S. suis</i>, the immune response elicited and the degree of protection were dependent on the parenteral adjuvant given. Subunit vaccination induced IgG reactive against different <i>S. suis</i> serotypes, indicating a potential for cross protection.
Flexible Functional Split and Fronthaul Delay: A Queuing-Based Model (2021)

We study the delay over virtual RAN (vRAN) topologies, entailing base stations that are divided into centralized and distributed units, as well as the packet-switched fronthaul network that connects them. We consider the use of flexible functional split, where the functions that are executed at each of these two entities can be dynamically shifted. We propose a queuing-based model, which is able to precisely mimic the behavior of such nodes, and we validate it by means of extensive simulations. We also exploit Jackson Networks theory to establish the end-to-end delay over the fronthaul network, allowing us to assess the impact of having different networking policies and conditions (for instance, background traffic or heterogeneous technologies). Thanks to the simulator we can also broaden the analysis, by studying the delay variability. In addition, we conduct an in-depth analysis of the performance exhibited by a realistic network setup, whose particular characteristics might hinder the services performance, due to the longer dwell times at each split configuration. The results evince the validity of the proposed model, even under realistic conditions. We show that it might not be enough to guarantee an average stable operation of the centralized/distributed units, but the traffic load should remain below the slowest service rate, to avoid reaching unacceptable delays. An increase of > 100× is observed in the delay, using the realistic network setup, when these conditions do not hold.
Systemic Administration of a Recombinant AAV1 Vector Encoding IGF-1 Improves Disease Manifestations in SMA Mice (2014)

Spinal muscular atrophy is a progressive motor neuron disease caused by a deficiency of survival motor neuron. In this study, we evaluated the efficacy of intravenous administration of a recombinant adeno-associated virus (AAV1) vector encoding human insulin-like growth factor-1 (IGF-1) in a severe mouse model of spinal muscular atrophy. Measurable quantities of human IGF-1 transcripts and protein were detected in the liver (up to 3 months postinjection) and in the serum indicating that IGF-1 was secreted from the liver into systemic circulation. Spinal muscular atrophy mice administered AAV1-IGF-1 on postnatal day 1 exhibited a lower extent of motor neuron degeneration, cardiac and muscle atrophy as well as a greater extent of innervation at the neuromuscular junctions compared to untreated controls at day 8 posttreatment. Importantly, treatment with AAV1-IGF-1 prolonged the animals' lifespan, increased their body weights and improved their motor coordination. Quantitative polymerase chain reaction and western blot analyses showed that AAV1-mediated expression of IGF-1 led to an increase in survival motor neuron transcript and protein levels in the spinal cord, brain, muscles, and heart. These data indicate that systemically delivered AAV1-IGF-1 can correct several of the biochemical and behavioral deficits in spinal muscular atrophy mice through increasing tissue levels of survival motor neuron.
Crystallization and preliminary X-ray crystallographic analysis of UDP-glucuronic acid:flavonol-3-O-glucuronosyltransferase (VvGT5) from the grapevineVitis vinifera (2012)

Grapevine (Vitis vinifera) glycosyltransferase 5 (VvGT5) is a UDP-glucuronic acid:flavonol-3-O-glucuronosyltransferase that catalyses the 3-O-specific glucuronosylation of flavonols using UDP-glucuronic acid as a sugar donor to produce flavonol 3-O-glucosides, which are important bioactive phytochemicals. Recombinant VvGT5 expressed in Escherichia coli cells was purified and crystallized by the sitting-drop vapour-diffusion method. A full set of X-ray diffraction data was collected to 2.2 Å Bragg spacing from a single crystal using a synchrotron-radiation source. The crystal was hexagonal, belonging to space group P6(1)22, with unit-cell parameters a = b = 102.70, c = 535.92 Å. The initial phases were determined by the molecular-replacement method.
GC Content of Early Metazoan Genes and Its Impact on Gene Expression Levels in Mammalian Cell Lines (2018)

With the genomes available for many animal clades, including the early-branching metazoans, one can readily study the functional conservation of genes across a diversity of animal lineages. Ectopic expression of an animal protein in, for instance, a mammalian cell line is a generally used strategy in structure-function analysis. However, this might turn out to be problematic in case of distantly related species. Here we analyzed the GC content of the coding sequences of basal animals and show its impact on gene expression levels in human cell lines, and, importantly, how this expression efficiency can be improved. Optimization of the GC3 content in the coding sequences of cadherin, alpha-catenin, and paracaspase of Trichoplax adhaerens dramatically increased the expression of these basal animal genes in human cell lines.
Interest of the MIXGRID setup for elastic spectral efficiency (2013)

We quantify the benefit of elastic WDM networks aligning channels on one irregular grid of optical frequencies on all their transmission links to mitigate the routing constraints. The channels are modulated at constant baud rate with variable bit rate.
PMP22 antisense oligonucleotides reverse Charcot-Marie-Tooth disease type 1A features in rodent models (2017)

Charcot-Marie-Tooth disease type 1A (CMT1A) is caused by duplication of peripheral myelin protein 22 (PMP22) and is the most common hereditary peripheral neuropathy. CMT1A is characterized by demyelination and axonal loss, which underlie slowed motor nerve conduction velocity (MNCV) and reduced compound muscle action potentials (CMAP) in patients. There is currently no known treatment for this disease. Here, we show that antisense oligonucleotides (ASOs) effectively suppress PMP22 mRNA in affected nerves in 2 murine CMT1A models. Notably, initiation of ASO treatment after disease onset restored myelination, MNCV, and CMAP almost to levels seen in WT animals. In addition to disease-associated gene expression networks that were restored with ASO treatment, we also identified potential disease biomarkers through transcriptomic profiling. Furthermore, we demonstrated that reduction of PMP22 mRNA in skin biopsies from ASO-treated rats is a suitable biomarker for evaluating target engagement in response to ASO therapy. These results support the use of ASOs as a potential treatment for CMT1A and elucidate potential disease and target engagement biomarkers for use in future clinical trials.
Synthesis of a New Copper-Azobenzene Dicarboxylate Framework in the Form of Hierarchical Bulk Solids and Thin Films without and with Patterning (2011)

Reaction of copper(II) acetate with azobenzene-4,4′-dicarboxylic acid results in the formation of a metal–organic framework with the unexpected stoichiometry of Cu(II):ligand of 2:1. The bulk synthesis results in microspheres assembled from either nanobricks or nanoflakes, depending on the ratio of the reactants in solution. While the former behaves like a bulk solid with clear reflections in the X-ray and electron diffraction experiments, the latter obviously is dominated by surface effects, with a significant fraction of slightly expanded elemental cells and a significantly increased outer surface area. The material could also be deposited on a variety of surfaces using a stepwise layer-by-layer growth, permitting the observation of the changes in composition at each of the deposition steps. The orientation of the crystallites could be influenced by the choice of surface functionalities and their order. When the surfaces became chemically patterned, in this case by microcontact printing (μCP), the deposits could be localized, with the nucleation/growth rate being the determining factor for the preferred growth sites.
BRAIN: BehavioR Based Adaptive Intrusion Detection in Networks: Using Hardware Performance Counters to Detect DDoS Attacks (2016)

Denial-of-Service (DoS) and Distributed Denial-of Service (DDoS) attacks account for one third of all service downtime incidents. Current DoS/DDoS attacks are not only limited to knocking down online services, but they also disguise other malicious attacks such as delivering malware, data-theft, wire fraud and even extortion. Detection of these attacks is predominantly based on the packet data and metrics derived only from packets. This work proposes a host based DDoS detection framework called BRAIN: BehavioR based Adaptive Intrusion detection in Networks. BRAIN leverages already available Hardware Performance Counters in modern processors to model the application behavior using low-level hardware events. BRAIN combines network statistics and modeled application behavior to detect DDoS attacks using machine learning. Our experiments show that BRAIN can detect multiple types of DDoS attacks, including those are undetectable by existing tools with an accuracy of 99.8% and a false alarm rate of 0%.
Expression of Concern: Human amniotic epithelial cells can differentiate into granulosa cells and restore folliculogenesis in a mouse model of chemotherapy-induced premature ovarian failure (2015)

Expression of concern After publication of this article [1] it was brought to the Editors’ attention that it was previously published by the OMICS Journal of Stem Cell Research & Therapy. The authors report that they requested retraction before submission to Stem Cell Research & Therapy but did not receive a response. The OMICS Journal of Stem Cell Research & Therapy has now removed the article from its website without a formal retraction notice. Given that this article is no longer a duplicate publication, we have decided not to retract this version. We are issuing this Expression of Concern to alert readers should they find versions of the OMICS Journal of Stem Cell Research & Therapy article before it was removed from that journal’s website. We apologize to all affected parties.
Analgesic Efficacy and Safety of Curcuminoids in Clinical Practice: A Systematic Review and Meta-Analysis of Randomized Controlled Trials (2015)

Curcuminoids supplements may be a safe and effective strategy to improve pain severity, by warranting further rigorously conducted studies to define the long-term efficacy and safety.
2-GHz band man-made noise evaluation for cryogenic receiver front-end (2008)

This paper presents measured results of man-made noise in urban and suburban areas in the 2-GHz band with amplitude probability distribution (APD) in order to evaluate the impact of man-made noise on an experimental cryogenic receiver front-end (CRFE). The CRFE comprises a high-temperature superconducting filter, cryogenically-cooled low-noise amplifier, and highly reliable cryostat that is very compact. The CRFE is anticipated to be an effective way to achieve efficient frequency utilization and to improve the sensitivity of mobile base station receivers. It is important to measure the characteristics of the man-made noise in typical cellular base station antenna environments and confirm their impact on the CRFE reception with APD because if man-made noise has a stronger effect than thermal noise, the CRFE would fail to offer any improvement in sensitivity. The measured results suggest that the contribution of man-made noise in the 2-GHz band can be ignored as far as the wideband code division multiple access (W-CDMA) system is concerned.
The Effect of Pressure and Shear on Autologous Fat Grafting (2013)

Higher aspiration pressures up to -0.83 atm did not affect fat graft viability in vivo. Positive pressure up to 6 atm also did not affect fat graft viability. The degree of shear stress, which is a function of flow rate, did significantly affect fat graft viability. Fat grafts injected slowly with low shear stress significantly outperformed fat injected with high shear stress. These data suggest that shear stress is a more important variable regarding fat graft viability than pressure.
2009 - Development of a drug-disease simulation model for rituximab in follicular non-Hodgkin lymphoma (2009)

International audience
Discovery and uses of pegvisomant: a growth hormone antagonist. (2008)

Growth hormone (GH) is a well established participant in several complex physiological processes including growth, differentiation, and metabolism. Recombinant human GH is a drug that has been approved for use for several clinical conditions where the action of GH is diminished or completely lacking. Thus there is considerable interest in developing novel drugs that modify the function of GH. Only in the last several decades have the detailed structural features of GH along with its interaction with its receptor been elucidated. In this review we summarise the basic structural and functional properties of GH, its receptor and their interaction. In addition, we discuss the discovery and development of an effective GH receptor antagonist, pegvisomant, and summarise potential therapeutic uses of this drug.
Uplink Coordinated Multi-Point in field trials and ray tracing simulations (2014)

Coordinated Multi-Point (CoMP) detection and transmission promises great improvements in cellular network coverage and throughput. To make full advantage of CoMP, however, appropriate radio planning is required that considers decoding of UEs at clusters of multiple BSs. Therefore, planning tools need accurate models that capture multi-cell propagation characteristics. This paper presents the analysis of uplink joint detection CoMP using ray tracing (RT). The main contribution is a comparison of RT simulation results with those of transmission experiments obtained through field trials. For this purpose, the testbed was modeled in a RT simulator. Measured and simulated results were evaluated for conventional and joint detection.
Integrated microwave photonics (2015)

Microwave signal generation using the heterogeneous photonic integration platform is described. Preliminary results from a heterogeneously integrated photonic microwave signal generator are shown. Heterogeneous integration, as was recently demonstrated, allows for superior performance of certain devices compared to purely III-V devices and we outline the benefits it brings. Finally, we address narrow-linewidth tunable lasers as one of key components of low phase noise photonic microwave signal generators and show the possibility of achieving sub-kHz linewidths by utilizing on-chip high-Q ring resonators.
Is the MC1R variant p.R160W associated with Parkinson's? (2015)

Additional Supporting Information may be found in the online version of this article. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
PICO - the probe of inflation and cosmic origins (2018)

The Probe of Inflation and Cosmic Origins (PICO) is a NASA-funded study of a Probe-class mission concept. The top-level science objectives are to probe the physics of the Big Bang by measuring or constraining the energy scale of inflation, probe fundamental physics by measuring the number of light particles in the Universe and the sum of neutrino masses, to measure the reionization history of the Universe, and to understand the mechanisms driving the cosmic star formation history, and the physics of the galactic magnetic field. PICO would have multiple frequency bands between 21 and 799 GHz, and would survey the entire sky, producing maps of the polarization of the cosmic microwave background radiation, of galactic dust, of synchrotron radiation, and of various populations of point sources. Several instrument configurations, optical systems, cooling architectures, and detector and readout technologies have been and continue to be considered in the development of the mission concept. We will present a snapshot of the baseline mission concept currently under development.
La nueva economía rural europea. Especialización territorial de calidad en la Isla de Texel y la Sierra de Cádiz (2013)

- Grupo de investigación Antropología y Filosofía (SEJ-126). Universidad de Granada. - Área de Antropología Social. Universidad de Jaén. - Laborarorio de Antropología Social y Cultural (HUM-472). Universidad de Almería. - Departamento de Filosofía II. Universidad de Granada.
Filter Cake Porosity and Permeability Profile Along the Horizontal Well and Their Impact on Filter Cake Removal (2015)

Abstract The filter cake evaluation involves many comprehensive testing and procedures to determine the filter cake properties such as thickness, mineralogy, porosity, permeability, and filtration to design the optimal mud program. For the maximum reservoir contact (MRC) and extended reach (ER) wells where the horizontal section could be 3000 ft or more in those wells, the filter cake formed by the drilling fluid varied from one section to another in the long horizontal section. Therefore, the process of filter cake removal in maximum reservoir contact and extended reach wells should consider the variation in the filter cake properties to achieve an efficient removal process. This research focuses on evaluating the filter cake porosity and permeability profile through the horizontal wells. Moreover, the impact of the filter cake porosity and permeability on the removal process is presented in this work. To achieve the objective of this work, high pressure high temperature (HPHT) fluid loss test was conducted to form the filter cake using actual drilling fluid samples. The compositional and structural analysis of filter cake was carried out using scanning electron microscopy (SEM), X-ray diffraction (XRD), and X-Ray Fluorescence (XRF). The drilling fluid studied samples were collected from real field rig while drilling the horizontal section. The results showed that the drilling operation was initiated with drilling fluid that was capable of forming a filter cake with low porosity (5 %) and permeability (0.01 md) to minimize the filtration volume. In the first part of the horizontal section the filter cake porosity and permeability increased sharply as more feet of horizontal section drilled. The porosity increased to about 35% and permeability to 0.25 md. After that it remains stable with slight decrease. This growth in the filter cake porosity from 5 to 35% reduced the liquid to solid ratio in the removal process from 28 gm per 500 ml up to 18 gm per ml. The result of this work linked the filter cake properties (thickness, porosity, and mineralogy) in the maximum reservoir contact and extended reach wells with solid to liquid ratio needed to be used in the filter cake removal process. This work will help to reevaluate the filter cake removal and stimulation recipes that were designed based on constant filter cake properties.