gebhart/patrepeval huggingface dataset:
64Cu-labeled F(ab’)2 fragments of daratumumab for early visualization of CD38-positive lymphoma (2019)

350 Purpose: CD38 showed strongly over-expression in several kinds of lymphoma, especially for multiple myeloma (MM). Daratumumab is a FDA-approved CD38 specific monoclonal human antibody, which could be used for immunoPET imaging after radiolabeling. However, the intact antibody usually has a long blood circulation and late uptake peak in target. Therefore, this study used the F(ab’)2 fragments of daratumumab to visualize CD38 in a CD38-positive lymphoma model.
 Methods: F(ab’)2 fragments of daratumumab were prepared using IdeS enzyme and purified with Protein A beads. They were further tested by HPLC and gel electrophoresis. After conjugated with p-SCN-Bn-NOTA (NOTA), the fragments were radiolabeled with 64Cu (t1/2 = 12.7 h). F(ab’)2 fragments of human non-specific IgG and the intact antibody daratumumab were used as controls and prepared using the same methods. In vitro, fluorescein dye conjugated daratumumab-F(ab’)2 was used to evaluate the cellular uptake. CD38-positive Ramos cells were implanted subcutaneously to build a lymphoma murine model. Serial small animal PET imaging was performed after injection of 64Cu labeled F(ab’)2-daratumumab, 64Cu labeled F(ab’)2-IgG or intact daratumumab. PET data were analyzed by drawing ROI. Biodistribution study and histological staining were performed at the end of time point.
 Results: HPLC and SDS-PAGE results showed that the molecular weight of F(ab’)2 fragments was about 110 kDa, suggesting a successful digestion. Fluorescein dye conjugated F(ab’)2-daratumumab bound with cell membrane, observed by microscopy. After conjugated with NOTA, the F(ab’)2 fragments or intact antibody were labeled with 64Cu (labeling yield > 90%). PET imaging showed 64Cu-NOTA-F(ab’)2-daratumumab had a rapid and high tumor uptake as early as 4 h post-injection (8.2 ± 0.9 %ID/g) and reached the peak at 12 h (9.5 ± 0.7 %ID/g) (n = 4). In the comparison, 64Cu-NOTA -F(ab’)2-IgG demonstrated a near-background tumor uptake in Ramos model (no more than 2% at any time point). Both of labeled F(ab’)2 fragments showed the highest uptake in kidneys. Even 64Cu labeled intact antibody showed an increasing tumor uptake (up to 8.3 ± 1.4 %ID/g at 48 h), uptake in the blood pool was still high (6.9 ± 0.8 %ID/g at 48 h), as well as other blood-rich organs. The tumor-to-background ratios of 64Cu-NOTA -F(ab’)2-daratumumab were significantly higher than those of daratumumab after 4 h post injection (P<0.05). 64Cu-NOTA -F(ab’)2-daratumumab showed the highest tumor-to-blood ratio at 18.9 ± 4.6 and tumor-to-muscle ratio at 40.4 ± 1.6 at 48 h, while the ratios of intact antibody were 1.2 ± 0.3 (blood) and 13.1 ± 6.0 (muscle), respectively. Biodistribution results at 48 h post-injection verified the PET imaging results. Finally, immunofluorescent staining confirmed the Ramos tumor showed strong expression of CD38.
 Conclusions: 64Cu labeled F(ab’)2-daratumumab showed an early and high tumor uptake in CD38-positive lymphoma, along with low background, thus it provides a potential PET imaging agent for better usage in clinic in the future.
Multiplex real-time RT-PCR method for the diagnosis of SARS-CoV-2 by targeting viral N, RdRP and human RP genes (2022)

Corona Virus Disease 2019 (COVID-19) is a disease caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). This pandemic has brought the world to a standstill and threatened human lives. Many methods are known to date to detect this virus. Due to their relative sensitivity, polymerase chain reaction (PCR)-based assays are the most frequently applied and considered the gold standard. However, due to the rapid mutation rate of the viral genome and the emergence of new variants, existing protocols need to be updated and improved. Designing a fast and accurate PCR-based assay is of great importance for the early detection of this virus and more efficient control of the spread of this disease. This study describes a fast, reliable, easy-to-use, and high-throughput multiplex SARS-CoV-2 RT-PCR detection method. The assay was designed to detect two viral genes (N and RdRP) and a human gene (RP) simultaneously. The performance and the sensitivity of the assay were tested in 28 SARS-CoV-2 positive samples and compared with commercial kits, which showed 100% positive percent agreement with a limit of detection (LOD) value of 1.40 and 0.81 copies/µL or 35.13 and 20.31 copies/reaction for RdRP and N genes, respectively. The current assay is found accurate, reliable, simple, sensitive, and specific. It can be used as an optimized SARS-CoV-2 diagnostic assay in hospitals, medical centers, and diagnostic laboratories as well as for research purposes.
Fast, Structured Clinical Documentation via Contextual Autocomplete. (2020)

We present a system that uses a learned autocompletion mechanism to facilitate rapid creation of semi-structured clinical documentation. We dynamically suggest relevant clinical concepts as a doctor drafts a note by leveraging features from both unstructured and structured medical data. By constraining our architecture to shallow neural networks, we are able to make these suggestions in real time. Furthermore, as our algorithm is used to write a note, we can automatically annotate the documentation with clean labels of clinical concepts drawn from medical vocabularies, making notes more structured and readable for physicians, patients, and future algorithms. To our knowledge, this system is the only machine learning-based documentation utility for clinical notes deployed in a live hospital setting, and it reduces keystroke burden of clinical concepts by 67% in real environments.
Interaction proteomics of the HMGA chromatin architectural factors (2008)

The high mobility group A (HMGA) chromatin architectural transcription factors are a group of proteins involved in development and neoplastic transformation. They take part in an articulated interaction network, both with DNA and other nuclear proteins, organizing multimolecular complexes at chromatin level. Here, we report the development of a novel in vitro strategy for the identification of HMGA molecular partners based on the combination of an RP-HPLC prefractionation procedure, 2-DE gels, blot-overlay and MS. To demonstrate that our approach could be a reliable screening method we confirmed a representative number of interactions in vitro by GST pull-down and far-Western and in vivo by co-affinity purification. This approach allowed us to enlarge the HMGA molecular network confirming their involvement also in non-transcriptional-related processes such as RNA processing and DNA repair.
TRBO: A High-Efficiency Tobacco Mosaic Virus RNA-Based Overexpression Vector (2007)

Transient expression is a rapid, useful approach for producing proteins of interest in plants. Tobacco mosaic virus (TMV)-based transient expression vectors can express very high levels of foreign proteins in plants. However, TMV vectors are, in general, not efficiently delivered to plant cells by agroinfection. It was determined that agroinfection was very efficient with a 35S promoter-driven TMV replicon that lacked the TMV coat protein gene sequence. This coat protein deletion vector had several useful features as a transient expression system, including improved ease of use, higher protein expression rates, and improved biocontainment. Using this TMV expression vector, some foreign proteins were expressed at levels of 3 to 5 mg/g fresh weight of plant tissue. It is proposed that this new transient expression vector will be a useful tool for expressing recombinant proteins in plants for either research or production purposes.
A Perceptual Grouping Hierarchy for Appearance-Based 3D Object Recognition (1999)

In this paper we consider the problem of 3D object recognition and the role that perceptual grouping processes must play. In particular, we argue that reliance on a single level of perceptual grouping is inadequate, since it is responsible for the specific weaknesses of several well-known recognition techniques. Instead, recognition must use a hierarchy of perceptual grouping processes. We describe an appearance-based system that uses four distinct levels of perceptual grouping to represent 3D objects in a form that allows not only recognition, but reasoning about 3D manipulation of a sort that has been supported in the past only by 3D geometric models. The results of the algorithms have been previously reported, and the main contribution of this paper is the development of the perceptual organization hierarchy.
Spotlight on microspherical nanoscopy: Experimental quantification of super-resolution (2017)

A classification of label-free super-resolution imaging mechanisms is given based on the nonlinear reduction of the point-spread function (PSF), near-field scanning, image magnification and gain, structured and sparse illumination, and information approaches. We argue that the super-resolution capability of contact microspheres stems from an image magnification effect taking place in close proximity to the object with contributions of its optical near-fields. We discuss several conditions for quantifying the super-resolution in a label-free microscopy: i) use of standalone objects or long-period arrays as opposed to subwavelength periodic structures, ii) use a convolution with two-dimensional PSF for calculating images, and iii) avoidance of coherent imaging which can lead to dramatic artifacts. We demonstrate a resolution of ∼λ/7 for imaging nanoplasmonic structures and propose a combination of microspherical nanoscopy with nanoplasmonic illumination for imaging biomedical samples. We applied these techniques for imaging actin protein filaments and yeast cells and observed a resolution advantage over standard microscopy.
Comparison of two optical coherence tomography systems to identify human brain tumor (2021)

The identification of <i>ex vivo</i> brain tumor tissue was investigated with two different optical coherence tomography systems exploiting two optical parameters. The optical parameters were calculated from semantically labelled OCT B-scans.
Plasma cytokine response in mice with bacterial infection (2000)

During systemic bacterial infection, a network of pro-inflammatory cytokines is activated and blood levels of these cytokines are elevated, albeit inconsistently, with large individual variations and depending on microbial characteristics and structure.
Assistência Farmacêutica nos 30 anos do SUS na perspectiva da integralidade (2018)

This article examines pharmaceutical services and access to essential medicines in Brazil during the 30 years since the advent of Brazil's Unified Health System from a comprehensiveness perspective. The following topics are addressed: the "realignment" of pharmaceutical services; human resources in pharmaceutical services; the essential medicines concept; the rational use of medicines; technological advances and drug manufacturing; and ethical regulation. With a strong regulatory focus and a structural framework centered on the National Medicines Policy, the past three decades represent a mixture of progress and setbacks, considering the national complexities of the healthcare system and the political, economic and social changes that have influenced policy and access to medicines, which is a key concern even in the world's richest countries, as the forums of discussion on global health have demonstrated. We show that major steps forward have been taken, highlighting that the recent fiscal austerity measures imposed by the government threaten to seriously undermine social progress.
Characterization of a novel and potent collagen antagonist, caffeic acid phenethyl ester, in human platelets: In vitro and in vivo studies (2007)

The most important findings of this study suggest that CAPE specifically inhibits collagen-induced platelet activation. Thus, CAPE treatment may represent a novel approach to lowering the risk of or improving function in thromboembolism-related disorders.
A Calibration Method for MEMS Inertial Sensors Based on Optical Tracking (2007)

A MAG-muIMU which is based on MEMS accelerometers, gyroscopes and magnetometers has been developed for real-time estimation of human hand motions. Appropriate filtering, transformation and sensor fusion techniques are combined in the ubiquitous digital writing instrument (UDWI) to record the handwriting on any surface. However, because of the sensors' intrinsic biases and random noise such as circuit thermal noise, a calibration system that provides good reference measurement parameters must be used to compare the output of the MAG-muIMU sensors. We propose here a novel idea to calibrate three-dimensional linear accelerations, angular velocities and space attitude through optical tracking techniques. The optical tracking system (OTS) developed by our group consists of two parts: 1) 2D trajectory calibration that is used to obtain linear accelerations of the UDWI in a particular frame defined by us; 2) multiple camera calibration that is used for attitude calibration of the UDWI. An essential relationship to transform reference frames and angular velocities can be guaranteed after real-time attitude calibration. Hence, the entire nine-dimensional output of the MAG-muIMU can be rectified according to these more accurate data obtained from optical tracking.
Presence of a genistein‐responsive inhibitory mechanism on interleukin‐1α‐induced NF‐κB activation (2001)

Interleukin 1 (IL-1) is known to activate the signal transduction machinery, including the transcription factor, nuclear factor kappa B (NF-kappaB). The activation mechanism of NF-kappaB has been studied intensively, while the negative regulatory mechanisms of NF-kappaB remain to be clarified. In the present study, we found that genistein, a tyrosine kinase inhibitor, augmented IL-1alpha-dependent NF-kappaB activation, suggesting the presence of a tyrosine kinase mediating a suppression signal on NF-kappaB. As determined by luciferase reporter gene assay using kappaB-responsive element, genistein enhanced IL-1alpha-induced NF-kappaB activation. Although genistein failed to increase luciferase activity at 1 and 3 h after IL-1alpha stimulation, it induced prolonged activation beginning at 6 h after the initial stimulation. We next examined whether genistein augmented the DNA-binding activity of NF-kappaB, using electrophoretic mobility shift assay. In the case of the control experiment, the binding of NF- kappaB to the kappaB-responsive element peaked at 30 min after IL-1alpha stimulation, and decreased thereafter. In contrast, treatment with genistein maintained the maximum binding activity for at least 2 h after stimulation. Moreover, genistein enhanced the IL-1alpha-dependent degradation of IkappaBalpha. Taken together, our results indicate that genistein augments IkappaB degradation, resulting in continuous NF-kappaB activation. This suggests the possibility that tyrosine kinase negatively regulates NF-kappaB.
Real-Time Approach of Grid-Parallel Simulation for Automated Distribution Grids (2022)

Distribution grids are subject to constant change due to transformations in energy transmission, generation and consumption. Among other reasons, the integration of renewable energy sources (RES) and increasing electromobility make safe and reliable grid operation in conventional structures more difficult. More monitoring devices are increasingly being installed to better track grid conditions and make them available for analysis functions. A powerful grid automation system is becoming a key factor in the operation of distribution grids. Novel automation functions as well as decision support capabilities are required to cope with adverse network conditions and the massive amount of data. Complementing classical monitoring systems, this paper shows an approach and use cases of a real-time simulation (RT) parallel to the grid based on measured data, system identification and state estimation of the real grid. The system extends the monitoring functionalities to an influence reactive system that can reproduce the network operation in a realistic environment. As with hardware-in-the-loop (HiL) simulations, this approach provides a platform for testing and monitoring the automation functions of distribution networks.
Prebiotic Effects of a Novel Combination of Galactooligosaccharides and Maltodextrins (2014)

Prebiotics are used for stimulating the growth of beneficial microorganisms in the gut. However, it is very difficult to find a suitable prebiotic mixture that exclusively supports the growth of beneficial microbes such as bifidobacteria and lactobacilli. We tested the effects of a prebiotic mixture in vitro by incubating it with fecal samples and in vivo by administration of the prebiotic supplement to healthy adult volunteers, followed by analysis of their fecal microbiota. The effect of the oligosaccharides on bacterial metabolism was studied by analyzing short-chain fatty acid (SCFA) production in vitro and the SCFA pattern for the stool samples of volunteers. In the in vitro test, a higher proportion of bifidobacteria (25.77%) was seen in the total bacterial population after cultivation on a prebiotic mixture than on the control medium (7.94%). The gram-negative anaerobe count significantly decreased from 8.70 to 6.40 log CFU/g (from 35.21% to 0.60%) and the Escherichia coli count decreased from 7.41 to 6.27 log CFU/g (from 1.78% to 0.44%). Administration of a prebiotic mixture in vivo (9 g of galactooligosaccharides [GOS]+1 g of maltodextrins; daily for 5 days) significantly increased the fecal bifidobacterial count from 9.45 to 9.83 log CFU/g (from 40.80% to 53.85% of total bacteria) and reduced the E. coli count from 7.23 to 6.28 log CFU/g (from 55.35% to 45.06% of total bacteria). The mixture comprising GOS and maltodextrins thus exhibited bifidogenic properties, promoting the performance of bifidobacteria by boosting their growth and inhibiting the growth of undesirable bacteria.
Formulation of Liver-Specific PLGA-DY-635 Nanoparticles Loaded with the Protein Kinase C Inhibitor Bisindolylmaleimide I (2020)

Bisindolylmaleimide I (BIM-I) is a competitive pan protein kinase C inhibitor with anti-inflammatory and anti-metastatic properties, suggested to treat inflammatory diseases and various cancer entities. However, despite its therapeutic potential, BIM-I has two major drawbacks, i.e., it has a poor water solubility, and it binds the human ether-à-go-go-related gene (hERG) ion channels, potentially causing deadly arrhythmias. In this case, a targeted delivery of BIM-I is imperative to minimize peripheral side effects. To circumvent these drawbacks BIM-I was encapsulated into nanoparticles prepared from poly(lactic-<i>co</i>-glycolic acid) (PLGA) functionalized by the near-infrared dye DY-635. DY-635 served as an active targeting moiety since it selectively binds the OATP1B1 and OATP1B3 transporters that are highly expressed in liver and cancer cells. PLGA-DY-635 (BIM-I) nanoparticles were produced by nanoprecipitation and characterized using dynamic light scattering, analytical ultracentrifugation, and cryogenic transmission electron microscopy. Particle sizes were found to be in the range of 20 to 70 nm, while a difference in sizes between the drug-loaded and unloaded particles was observed by all analytical techniques. In vitro studies demonstrated that PLGA-DY-635 (BIM-I) NPs prevent the PKC activation efficiently, proving the efficacy of the inhibitor after its encapsulation, and suggesting that BIM-I is released from the PLGA-NPs. Ultimately, our results present a feasible formulation strategy that improved the cytotoxicity profile of BIM-I and showed a high cellular uptake in the liver as demonstrated in vivo by intravital microscopy investigations.
Formation characterization and rheological properties of zirconia and ceria-stabilized zirconia (2010)

Zirconia and ceria-stabilized zirconia (12Ce-TZP) were synthesized by the dicarboxylate coprecipitation technique such as fumarate, succinate, tartarate and adipate. The formation of these dicarboxylate precursors was studied by elemental analysis, thermal analysis and infrared spectroscopy. The precursors were further decomposed at 650oC for 2 hours to form respective zirconia and ceria-stabilized zirconia. The composition of these oxides was checked by Atomic absorption spectrometer and Energy dispersive X-ray analysis. The structural and morphological characterization of these oxides was done by using X-ray diffraction analysis, surface area, scanning electron micrographs and particle size distribution analysis. These properties were found depending to great extent on the nature of the precursors. The zirconia and ceria-stabilized zirconia obtained from adipate precursor were found to be good for slip- casting. The slips (i.e., suspensions) of these oxides with different solid contents were prepared at different pH with distilled water and ethanol as dispersing agents, with and without deflocculant. The suspension rheological flow (i.e., variation of shear stress and viscosity with shear rate) was determined. The minimum viscosities were observed at pH = 10.16 for ZrO2- water and pH = 10.26 for 12Ce–TZP-water system. The slip, green and sedimentation bulk density were measured.
Définir une identité sonore de marque :méthodologie et outils (2015)

National audience
PML: a Language for Platform Modeling (2024)

Modeling the computational platforms is necessary to analyze the execution characteristics of systems developed using a model-based approach. In this paper, we introduce a novel platform modeling language: PML that is based on (a) transformational concepts borrowed from graph transformation languages, and (b) generative concepts from platform modeling, like 'kernel skeleton'. PML relies on higher-level, compact constructs that represent a special case of model transformations, and which are then used to specify platform semantics. The paper also illustrates how PML constructs can be compiled into lower-level constructs of more traditional model transformational languages, such as GReAT.
Chitosan Bio-Active Designer Materials and Orthodontics: Development and Evaluation of Novel Materials as Enamel Protective Agents (2016)

Objective: The aim of the investigation is to further develop and evaluate a versatile designed chitosan based bio-active materials for the prevention of demineralization around the orthodontic brackets, while maintaining acceptable shear bond strength while not leaving any residual adhesive on the tooth surface after removal of the brackets from the enamel surface and compare the performance of the Clinpro and Tooth Mousse as commercially available protective agents in-vitro.