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15,733 results for “article”
Proteo Dataset (2023) for article "Proteo: A Framework for the Generation and Evaluation of Malleable MPI Applications"
<p>This dataset is the one used by the publication "Proteo: A Framework for the Generation and Evaluation of Malleable MPI Applications". The data are the data processed after the experiments to obtain the graphs and perform the analysis of the two applications shown.</p><p>On the one hand, there are data from the conjugate gradient (CG) execution and on the other hand, data from the Proteo framework, configured to emulate the CG.</p><p>The set is divided into 4 sections, each representing the results obtained for each result section of the article:</p><ul><li><strong>5.3</strong>: Similarity results between CG and Proteo configured to emulate CG. These results were obtained from the previous paper "Configurable synthetic application for studying malleability in HPC" at the PDP2023 conference. It consists of 4 datasheets:<ul><li><i>Nasp CG-VS-Proteo.xlsx</i>: Datasheet showing the total execution, iteration and computation times of Nasp (System_1) with the CG and Proteo. Used to create Figures 7 and 8.</li><li><i>JupiterThor CG-VS-Proteo.xlsx: </i>Datasheet showing the total execution, iteration and computation times of Jupiter (System_2) and Thor (System_3) with the CG and Proteus. Used to create Figures 7 and 8.</li><li><i>Comparison Comms CG Only.xlsx</i>: Datasheet showing MPI_Allgatherv communication times for different sizes on Nasp, Jupiter and Thor systems (System_1, System_2 and System_3). Used to create Table 1.</li><li><i>Comms CV_VS_Proteo.xlsx</i>: Datasheet showing MPI_Allgatherv communication times between the CG and Proteo for different sizes in Nasp, Jupiter and Thor systems (System_1, System_2 and System_3). Used to create Table 2.</li></ul></li><li><strong>5.4.1</strong>: Evaluation of the reconfiguration techniques in isolation of Proteo for synchronous methods. Used to create Figure 9. It is divided into three files:<ul><li><i>dataG.pkl</i>: Contains data on the complete runtimes in Proteo. The description can be found in the file <i>Proteo_dataG_description.txt</i></li><li><i>dataM.pkl</i>: Contains data on reconfiguration times in Proteo. The description can be found in the file <i>Proteo_dataM_description.txt</i></li><li><i>dataL.pkl</i>: Contains data on iteration times in Proteo. The description can be found in the file <i>Proteo_dataL_description.txt</i></li></ul></li><li><strong>5.4.2</strong>: Evaluation of the reconfiguration in a malleable application, CG against Proteo. Used to create Figure 10 and 11. It is divided into two directories, differentiating between CG and Proteus. In total there are the following 5 files:<ul><li><i>dataG.pkl</i>: Contains data on the complete runtimes in Proteo. The description can be found in the file <i>Proteo_dataG_description.txt</i></li><li><i>dataM.pkl</i>: Contains data on reconfiguration times in Proteo. The description can be found in the file <i>Proteo_dataM_description.txt</i></li><li><i>dataL.pkl</i>: Contains data on iteration times in Proteo. The description can be found in the file <i>Proteo_dataL_description.txt</i></li><li><i>dataCG_G.pkl</i>: Contains data on the complete execution times in the CG. The description can be found in the CG<i>_dataG_description.txt</i></li><li><i>dataCG_M.pkl</i>: Contains data on reconfiguration times in the CG. The description can be found in the CG<i>_dataM_description.txt</i></li></ul></li><li><strong>5.4.3</strong>: Evaluation of a malleable emulated application, CG against Proteo. Used to create Figure 12, 13 and 14. It is divided into two directories, differentiating between CG and Proteus. In total there are the following 5 files:<ul><li><i>dataG.pkl</i>: Contains data on the complete runtimes in Proteo. The description can be found in the file <i>Proteo_dataG_description.txt</i></li><li><i>dataM.pkl</i>: Contains data on reconfiguration times in Proteo. The description can be found in the file <i>Proteo_dataM_description.txt</i></li><li><i>dataL.pkl</i>: Contains data on iteration times in Proteo. The description can be found in the file <i>Proteo_dataL_description.txt</i></li><li><i>dataCG_G.pkl</i>: Contains data on the complete execution times in the CG. The description can be found in the CG<i>_dataG_description.txt</i></li><li><i>dataCG_M.pkl</i>: Contains data on reconfiguration times in the CG. The description can be found in the CG<i>_dataM_description.txt</i></li></ul></li></ul>
Supplementary Materials for article entitled 'On Italian Spatial Prepositions and Measure Phrases: Reconciling Data with Theoretical Accounts', published in Linguistics
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Generative AI in Education and Research: A systematic mapping and bibliometric analysis of published articles
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Supplementary materials for the article entitled 'Metaphor Forces Argument Overtness', published in Linguistics
<p>see the publication for details</p>
European Multilingual News Articles Dataset with Topic Annotation
<p>The <em>European Multilingual News Articles Dataset</em> is composed of over 18 million European news articles coming from 205 media outlets belonging to 27 European countries (i.e., all EU countries belonging to the European Union) with the addition of the United Kingdom. Articles range in a time period from 2017 to 2021 and are written in their original languages, for a total of 23 different languages included.</p> <p>After selecting reliable, nationwide European media outlets, each article (i.e., title, textual content, URL, and date and time of publication) was extracted from the <a href="https://commoncrawl.org/2016/10/news-dataset-available/">Common Crawl News Corpus</a>, which contains petabytes of raw web page data collected since 2016. The dataset is released without any text pre-processing other than a cleanup of XML tags. Further, we enriched it by adding several media metadata (e.g., frequency of publication, distribution area, language, type of media). </p> <p>Moreover, we enhanced the dataset by adding - whenever possible - article-level topic annotation by using articles' URLs as a proxy of the topic discussed. In the end, we were able to assign a topic to over 4 million articles (33 unique topics, e.g., politics, sport, entertainment), thus 23.2% of the entire dataset. Further, from URLs, we also extract the types of over 4 million articles (15 unique article types, e.g., news, international, multimedia).</p>
Data Used for Article: Speeding up large wind farms layout optimization using gradients, parallelization, and a heuristic algorithm for the initial layout
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Dataset related to article "Identification of a gut-microbiota signature linked to epileptogenesis in a rat model of acquired epilepsy"
<p>Five excel files containing data related to the article</p>
Supplementary Materials of article entitled 'Wide variations in Medieval French unambiguous V2 configurations are due to register'', published in Linguistics
<p>See the publication for details</p>
Dataset related to article "Standardized Diagnostic Reference Levels for Paediatric Interventional Cardiology: data from an Italian referral centre"
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Data series of seismic events for the article "Seismic monitoring using the telecom fiber network"
<p>The file "catalog.h5" contains the catalog of seismic events analyzed in the paper "Seismic monitoring using the telecom fiber network" by S. Donadello et al., Commun Earth Environ 5, 178 (2024) <a href="https://doi.org/10.1038/s43247-024-01338-2">https://doi.org/10.1038/s43247-024-01338-2</a> (formerly "Earthquake observatory with coherent laser interferometry on the telecom fiber network" on arXiv preprint).</p> <p>The reported data correspond to raw recordings, acquired by coherent interferometry techniques on a telecommunication fiber (see also <a href="doi.org/10.1109/TIM.2023.3288255">https://doi.org/10.1109/TIM.2023.3288255</a>), and decimated to a lower sampling rate.</p> <p>The catalog is organized as about 900 seismic events in the period between June 19th, 2021 and Sept. 26th, 2022, between Feb. 6th and March 23th 2023, and between Nov. 9th, 2022 and Nov. 18th, 2022, according to the criteria described in the paper.</p> <p>A detailed description of the ".h5" file format is provided in "h5_file_description.txt".</p> <p>A Python3 script "h5_cat_parser.py" for data interpretation in terms of standard python structures is provided.</p>
Raw data for the article: Investigating the Differential Circulating microRNA Expression in Adolescent Females with Severe Idiopathic Scoliosis: A Proof-of-Concept Observational Clinical Study
<p>Adolescent Idiopathic Scoliosis (AIS) is the most common form of three-dimensional spinal disorder in adolescents between the ages of 10 and 18 years of age, most commonly diagnosed in young women when severe disease occurs. Patients with AIS are characterized by abnormal skeletal growth and reduced bone mineral density. The etiology of AIS is thought to be multifactorial, involving both environmental and genetic factors, but to date, it is still unknown. Therefore, it is crucial to further investigate the molecular pathogenesis of AIS and to identify biomarkers useful for predicting curve progression. In this perspective, the relative abundance of a panel of microRNAs (miRNAs) was analyzed in the plasma of 20 AIS patients and 10 healthy controls (HC). The data revealed a significant group of circulating miRNAs dysregulated in AIS patients compared to HC. Further bioinformatic analyses evidenced a more restricted expression of some miRNAs exclusively in severe AIS females. These include some members of the miR-30 family, which are considered promising regulators for treating bone diseases. We demonstrated circulating extracellular vesicles (EVs) from severe AIS females contained miR-30 family members and decreased the osteogenic differentiation of mesenchymal stem cells. Proteomic analysis of EVs highlighted the expression of proteins associated with orthopedic disease. This study provides preliminary evidence of a miRNAs signature potentially associated with severe female AIS and suggests the corresponding vesicular component may affect cellular mechanisms crucial in AIS, opening the scenario for in-depth studies on prognostic differences related to gender and grade.</p>
Raw data for the article: MicroRNA-30d and -483-3p for bi-ventricular remodelling and miR-126-3p for pulmonary hypertension in advanced heart failure
<p><strong>Aims: </strong>MicroRNAs play a role in pathogenic mechanisms leading to heart failure. We measured a panel of 754 miRNAs in the myocardial tissue and in the serum of patients with heart failure with reduced ejection fraction due to dilatative idiopathic cardiomyopathy (DCM, N = 10) or ischaemic cardiomyopathy (N = 3), referred to left ventricular assist device implant. We aim to identify circulating miRNAs with high tissue co-expression, significantly associated to echocardiographic and haemodynamic measures.</p> <p><strong>Methods and results: </strong>We have measured a panel of 754 miRNAs in the myocardial tissue [left ventricular (LV) apex] and in the serum obtained at the same time in a well selected study population of end-stage heart failure with reduced ejection fraction due to either DCM or ischaemic cardiomyopathy, referred to continuous flow left ventricular assist device implant. We observed moderate agreement for miR-30d, miR-126-3p, and miR-483-3p. MiR-30d was correlated to LV systolic as well as diastolic volumes (r = 0.78, P = 0.001 and r = 0.80, P = 0.005, respectively), while miR-126-3p was associated to mPAP and PCWP (r = -0.79, P = 0.007 and r = -0.80, P = 0.005, respectively). Finally, serum miR-483-3p had an association with right ventricular end diastolic diameter (r = -0.73, P = 0.02) and central venous pressure (CVP) (r - 0.68 p 0.03).</p> <p><strong>Conclusions: </strong>In patients with DCM, few miRNAs are co-expressed in serum and tissue: They are related to LV remodelling (miR-30d), post-capillary pulmonary artery pressure (miR-126-3p), and right ventricular remodelling/filling pressures (miR-483-3p). Further studies are needed to confirm their role in diagnosis, prognosis or as therapeutic targets in heart failure with reduced ejection fraction.</p>
Raw data for the article: Oncolytic Effect of Zika Virus in Neuroendocrine Pancreatic Tumors: New Perspectives for Therapeutic Approaches
<p>Pancreatic cancer (PCa) is the fifth leading cause of cancer mortality. Recently, our group and others have demonstrated the oncolytic activity of the Zika virus (ZIKV) against glioblastoma. The peculiar features of this virus offer the opportunity to use an agent already tested in vivo through natural transmission, with minimal effects on adults, to specifically target a tumor such as glioblastoma. This remarkable specificity prompted us to explore the potential use of ZIKV oncolytic action against other tumor types. In particular, we focused on the subgroup of pancreatic tumors with a neuroendocrine origin known as neuroendocrine tumors (NETs). We found that ZIKV exerts its oncolytic activity by specifically infecting NET cells, leading to growth inhibition and cell death. We also assessed whether the oncolytic action could be extended to pancreatic tumors different from NETs. However, as expected, the viral specificity is limited to NETs and is not applicable to adenocarcinoma tumors, indicating a narrow spectrum of action for this virus. These findings support the potential use of ZIKV in therapeutic approaches not only in glioblastoma, but also against other tumors, such as neuroendocrine pancreatic tumors.</p>
Raw data for the article: Two Sides of The Same Coin: Normal and Tumoral Stem Cells, The Relevance of In Vitro Models and Therapeutic Approaches: The Experience with Zika Virus in Nervous System Development and Glioblastoma Treatment
<p>Neural stem cells (NSCs) were described for the first time more than two decades ago for their ability to differentiate into all neural cell lineages. The isolation of NSCs from adults and embryos was carried out by various laboratories and in different species, from mice to humans. Similarly, no more than two decades ago, cancer stem cells were described. Cancer stem cells, previously identified in hematological malignancies, have now been isolated from several solid tumors (breast, brain, and gastrointestinal compartment). Though the origin of these cells is still unknown, there is a wide consensus about their role in tumor onset, propagation and, in particular, resistance to treatments. Normal and neoplastic neural stem cells share common characteristics, and can thus be considered as two sides of the same coin. This is particularly true in the case of the Zika virus (ZIKV), which has been described as an inhibitor of neural development by specifically targeting NSCs. This understanding prompted us and other groups to evaluate ZIKV action in glioblastoma stem cells (GSCs). The results indicate an oncolytic activity of this virus vs. GSCs, opening potentially new possibilities in glioblastoma treatment.</p>
Raw data for the article: Cytokine storm and severe hepatitis in pregnancy due to herpes simplex virus 2
<p><strong>Case presentation: </strong>A pregnant woman developed hepatitis due to a herpes simplex virus 2 primary infection with a severe systemic inflammatory response. Treatment with acyclovir and human immunoglobulin was given and both mother and baby survived.</p> <p><strong>Purpose: </strong>We provide the first description of the inflammatory response associated with herpetic hepatitis in pregnancy.</p>
Raw data for the article: 3D Culture and Interferon-? Priming Modulates Characteristics of Mesenchymal Stromal/Stem Cells by Modifying the Expression of Both Intracellular and Exosomal microRNAs
<p>Mesenchymal stromal/stem cells (MSCs) have emerged as a therapeutic tool in regenerative medicine. Recent studies have shown that exosome (EXO)-derived microRNAs (miRNAs) play a crucial role in mediating MSC functions. Additionally, intracellular miRNAs have been found to regulate MSC therapeutic capacities. However, the molecular mechanisms underlying miRNA-mediated MSC effects are not fully understood. We used 3D culture and IFN-γ to prime/enhance the MSC therapeutic effects in terms of functional miRNAs. After priming, our analysis revealed stable variations in intracellular miRNA among the MSC biological replicates. Conversely, a significant variability of miRNA was observed among EXOs released from biological replicates of the priming treatment. For each priming, we observed distinct miRNA expression profiles between the MSCs and their EXOs. Moreover, in both types of priming, gene ontology (GO) analysis of deregulated miRNAs highlighted their involvement in tissue repair/regeneration pathways. In particular, the 3D culture enhanced angiogenic properties in both MSCs and EXOs, while IFN-γ treatment enriched miRNAs associated with immunomodulatory pathways. These findings suggest that 3D culture and IFN-γ treatment are promising strategies for enhancing the therapeutic potential of MSCs by modulating miRNA expression. Additionally, the identified miRNAs may contribute to understanding the molecular mechanisms underlying the miRNA-mediated therapeutic effects of MSCs.</p>
Raw data for the article: Risk factors for surgical site infection following cardiac surgery in a region endemic for multidrug resistant organisms
<p><strong>Objectives: </strong>To identify risk factors for surgical site infections following cardiosurgery in an area endemic for multidrug resistant organisms.</p> <p><strong>Design: </strong>Single-center, historical cohort study including patients who underwent cardiosurgery during a 6-year period (2014-2020).</p> <p><strong>Setting: </strong>Joint Commission International accredited, multiorgan transplant center in Palermo, Italy.</p> <p><strong>Main outcome measures: </strong>Surgical site infection was the main outcome.</p> <p><strong>Results: </strong>On a total of 3609 cardiosurgery patients, 184 developed surgical site infection (5.1 %). Intestinal colonization with multidrug resistant organisms was more frequent in patients with surgical site infections (69.6 % vs. 33.3 %; p < 0.001). About half of surgical site infections were caused by Gram-negative bacteria (n = 97; 52.7 %). Fifty surgical site infections were caused by multidrug resistant organisms (27.1 %), with extended-spectrum Beta-lactamase-producing Enterobacterales (n = 16; 8.7 %) and carbapenem-resistant Enterobacterales (n = 26; 14.1 %) being the predominant resistance problem. However, in only 24 of surgical site infections caused by multidrug resistant organisms (48 %), mostly carbapenem-resistant Enterobacterales (n = 22), a pathogen match between the rectal surveillance culture and surgical site infections clinical culture was demonstrated. Nevertheless, multivariate logistic regression analysis identified a rectal swab culture positive for multidrug resistant organisms as an independent risk factor for SSI (odds ratio 3.95, 95 % confidence interval 2.79-5.60). Other independent risk factors were female sex, chronic dialysis, diabetes mellitus, previous cardiosurgery, previous myocardial infarction, being overweight/obese, and longer intubation time.</p> <p><strong>Conclusion: </strong>In an area endemic for carbapenem-resistant Enterobacterales, intestinal colonization with multidrug resistant organisms was recognized as independent risk factor for surgical site infections.</p> <p><strong>Implications for clinical practice: </strong>No causal relationship between colonization with resistant pathogens and subsequent infection could be demonstrated. However, from a broader epidemiological perspective, having a positive multidrug resistant organisms colonization status appeared a risk factor for surgical site infections. Therefore, strict infection control measures to prevent cross-transmission remain pivotal (e.g., nasal decolonization, hand hygiene, and skin antisepsis).</p>
Raw data of the article:Proof-of-Concept Study on the Use of Tangerine-Derived Nanovesicles as siRNA Delivery Vehicles toward Colorectal Cancer Cell Line SW480
<p>In the last years, the field of nanomedicine and drug delivery has grown exponentially, providing new platforms to carry therapeutic agents into the target sites. Extracellular vesicles (EVs) are ready-to-use, biocompatible, and non-toxic nanoparticles that are revolutionizing the field of drug delivery. EVs are involved in cell-cell communication and mediate many physiological and pathological processes by transferring their bioactive cargo to target cells. Recently, nanovesicles from plants (PDNVs) are raising the interest of the scientific community due to their high yield and biocompatibility. This study aims to evaluate whether PDNVs may be used as drug delivery systems. We isolated and characterized nanovesicles from tangerine juice (TNVs) that were comparable to mammalian EVs in size and morphology. TNVs carry the traditional EV marker HSP70 and, as demonstrated by metabolomic analysis, contain flavonoids, organic acids, and limonoids. TNVs were loaded with DDHD1-siRNA through electroporation, obtaining a loading efficiency of 13%. We found that the DDHD1-siRNA complex TNVs were able to deliver DDHD1-siRNA to human colorectal cancer cells, inhibiting the target expression by about 60%. This study represents a proof of concept for the use of PDNVs as vehicles of RNA interference (RNAi) toward mammalian cells.</p>
Raw data for the article: Regional biomechanical characterization of human ascending aortic aneurysms: Microstructure and biaxial mechanical response
<p>The ascending thoracic aortic aneurysm (ATAA) is a permanent dilatation of the vessel with a high risk of adverse events, and shows heterogeneous properties. To investigate regional differences in the biomechanical properties of ATAAs, tissue samples were collected from 10 patients with tricuspid aortic valve phenotype and specimens from minor, anterior, major, and posterior regions were subjected to multi-ratio planar biaxial extension tests and second-harmonic generation (SHG) imaging. Using the data, parameters of a microstructure-motivated constitutive model were obtained considering fiber dispersion. SHG imaging showed disruptions in the organization of the layers. Structural and material parameters did not differ significantly between regions. The non-symmetric fiber dispersion model proposed by Holzapfel et al. [25] was used to fit the data. The mean angle of collagen fibers was negatively correlated between minor and anterior regions, and the parameter associated with collagen fiber stiffness was positively correlated between minor and major regions. Furthermore, correlations were found between the stiffness of the ground matrix and the mean fiber angle, and between the parameter associated with the collagen fiber stiffness and the out-of-plane dispersion parameter in the posterior and minor regions, respectively. The experimental data collected in this study contribute to the biomechanical data available in the literature on human ATAAs. Region-specific parameters for the constitutive models are fundamental to improve the current risk stratification strategies, which are mainly based on aortic size. Such investigations can facilitate the development of more advanced finite element models capable of capturing the regional heterogeneity of pathological tissues. STATEMENT OF SIGNIFICANCE: Tissue samples of human ascending thoracic aortic aneurysms (ATAA) were collected. Samples from four regions underwent multi-ratio planar biaxial extension tests and second-harmonic generation imaging. Region-specific parameters of a microstructure-motivated model considering fiber dispersion were obtained. Structural and material parameters did not differ significantly between regions, however, the mean fiber angle was negatively correlated between minor and anterior regions, and the parameter associated with collagen fiber stiffness was positively correlated between minor and major regions. Furthermore, correlations were found between the stiffness of the ground matrix and the mean fiber angle, and between the parameter associated with the collagen fiber stiffness and the out-of-plane dispersion parameter in the posterior and minor regions, respectively. This study provides a unique set of mechanical and structural data, supporting the microstructural influence on the tissue response. It may facilitate the development of better finite element models capable of capturing the regional tissue heterogeneity.</p>
Raw data and Matlab code for the article "Impedance spectroscopy analysis of thermoelectric modules under actual energy harvesting operating conditions and a small temperature difference"
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.