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15,733 results for “article”
Raw Data for the article: The use of normothermic machine perfusion to rescue liver allografts from expanded criteria donors
<p>The use of expanded criteria donors is one of the strategies used to overcome the gap between the demand for organs and the number of donors. Physicians debate the extent to which marginal grafts can be used. In recent years, normothermic machine perfusion (NMP) has been used to test liver viability before transplantation. Grafts underwent NMP whenever histological steatosis was > 40% or there were at least three Eurotransplant criteria for expanded criteria donor (ECD). We used NMP to test 19 grafts, 3 from donation after type 3 controlled cardiac death (DCD), and 16 from donation after brain death (DBD). Only two grafts from DBD were not transplanted, because perfusion proved they were not suitable (total of 17 transplanted grafts of 19 tested grafts). Kaplan-Meier survival estimates at 30, 90, 180, and 1 year after transplant were all 94% (95% CI 84-100%); estimated 3-years survival was 82% (95% CI 62-100%). Overall survival rates did not differ from those of patients transplanted with non-perfused grafts from an ECD. In our experience, the use of very marginal grafts preventively tested by NMP does not negatively influence the patient's outcome, and increases the number of transplants in low donation areas.</p>
Raw Data for the article: Efficacy of Three Commercial Disinfectants in Reducing Microbial Surfaces' Contaminations of Pharmaceuticals Hospital Facilities
<p>To evaluate and validate the efficacy of disinfectants used in our cleaning procedure, in order to reduce pharmaceutical hospital surfaces' contaminations, we tested the action of three commercial disinfectants on small representative samples of the surfaces present in our hospital cleanrooms. These samples (or coupons) were contaminated with selected microorganisms for the validation of the disinfectants. The coupons were sampled before and after disinfection and the microbial load was assessed to calculate the Log<sub>10</sub> reduction index. Subsequently, we developed and validated a disinfection procedure on real surfaces inside the cleanrooms intentionally contaminated with microorganisms, using approximately 10<sup>7</sup>-10<sup>8</sup> total colony forming units per coupon. Our results showed a bactericidal, fungicidal, and sporicidal efficacy coherent to the acceptance criteria suggested by United States Pharmacopeia 35 <1072>. The correct implementation of our cleaning and disinfection procedure, respecting stipulated concentrations and contact times, led to a reduction of at least 6 Log<sub>10</sub> for all microorganisms used. The proposed disinfection procedure reduced the pharmaceutical hospital surfaces' contaminations, limited the propagation of microorganisms in points adjacent to the disinfected area, and ensured high disinfection and safety levels for operators, patients, and treated surfaces.</p>
Raw Data for the article: Human Amnion-Derived Mesenchymal Stromal Cells: A New Potential Treatment for Carbapenem-Resistant Enterobacterales in Decompensated Cirrhosis
<p><strong>Background: </strong>Spontaneous bacterial peritonitis (SBP) is a severe and often fatal infection in patients with decompensated cirrhosis and ascites. The only cure for SBP is antibiotic therapy, but the emerging problem of bacterial resistance requires novel therapeutic strategies. Human amniotic mesenchymal stromal cells (hA-MSCs) possess immunomodulatory and anti-inflammatory properties that can be harnessed as a therapy in such a context.</p> <p><strong>Methods: </strong>An in vitro applications of hA-MSCs in ascitic fluid (AF) of cirrhotic patients, subsequently infected with carbapenem-resistant Enterobacterales, was performed. We evaluated the effects of hA-MSCs on bacterial load, innate immunity factors, and macrophage phenotypic expression.</p> <p><strong>Results: </strong>hA-MSCs added to AF significantly reduce the proliferation of both bacterial strains at 24 h and diversely affect M1 and M2 polarization, C3a complement protein, and ficolin 3 concentrations during the course of infection, in a bacterial strain-dependent fashion.</p> <p><strong>Conclusion: </strong>This study shows the potential usefulness of hA-MSC in treating ascites infected with carbapenem-resistant bacteria and lays the foundation to further investigate antibacterial and anti-inflammatory roles of hA-MSC in in vivo models.</p>
Raw Data for the article: Functional Gastrointestinal Disorders in Patients With Epilepsy: Reciprocal Influence and Impact on Seizure Occurrence
<p><strong>Introduction:</strong> The complex relationship between the microbiota-gut-brain axis (MGBA) and epilepsy has been increasingly investigated in preclinical studies. Conversely, evidence from clinical studies is still scarce. In recent years, the pivotal role of MGBA dysregulation in the pathophysiology of functional gastrointestinal disorders (FGID) has been recognized. With this background, we aimed to investigate the prevalence of FGID in patients with epilepsy (PWE) and the possible impact of bowel movement abnormalities on seizure recurrence. <strong>Methods:</strong> A total of 120 PWE and 113 age-, sex-, and BMI-matched healthy subjects (HS) were consecutively enrolled. A questionnaire to evaluate the presence of FGID (according to Rome III diagnostic criteria) was administrated to all participants. In a subgroup of drug-resistant patients, we administered an <em>ad-hoc</em> questionnaire combining Bristol stool charts and seizure diaries to evaluate seizure trends and bowel movement changes. <strong>Results:</strong> A higher prevalence of FGID in PWE (62.5%) than in HS (39.8%) was found (<em>p</em> < 0.001). The most frequently observed disorder was constipation, which was significantly higher in PWE than in HS (43.3 vs. 21.2%, <em>p</em> < 0.001), and was not associated with anti-seizure medication intake according to multivariable analysis. In drug-resistant patients, most seizures occurred during periods of altered bowel movements, especially constipation. A significant weak negative correlation between the number of days with seizures and the number of days with normal bowel movements was observed (<em>p</em> = 0.04). According to multivariable logistic regression analysis, FGID was significantly associated with temporal lobe epilepsy as compared with other lobar localization (<em>p</em> = 0.03). <strong>Conclusions:</strong> Our clinical findings shed new light on the complex relationship between epilepsy and the MGBA, suggesting a bidirectional link between bowel movement abnormalities and seizure occurrence. However, larger studies are required to better address this important topic.</p>
Raw Data for the article: Use of 27G needles improves sensitivity and performance of ATCC anaerobe reference microorganism detection in BacT/Alert system
<p>Effective detection of microbiological contaminations present in medicinal cellular products is a crucial step to ensure patients' safety. In recent decades, several rapid microbiological methods have been developed and validated, but variabilities linked to the use of different resources have led to discordant validation of methods and performance results. Considering this, while developing an in-house BacT/Alert-based method, we evaluated all of the materials used in its validation. Of particular importance, we noticed that the syringe gauge used to inject the samples into the bottles was crucial to obtain robust results. We chose to conduct a comparative test between the BacT/Alert system and the compendial method described in the European Pharmacopoeia, using five dilutions of nine reference microorganism strains and 21G or 27G needles. Our results confirmed that the BacT/Alert system is a valid and faster alternative method to assess sterility of clinical cell therapy products, and that the use of 27G needles increases its sensitivity to detect reference anaerobe microorganisms.</p>
Raw Data for the article: Portal vein puncture-related complications during transjugular intrahepatic portosystemic shunt creation: Colapinto needle set vs Rösch-Uchida needle set
<p>Transjugular portal vein puncture is considered the riskiest step in TIPS creation with possible incidence of portal vein puncture-related complications (PVPC). The Colapinto and the Rösch-Uchida needle sets are two different needle sets currently available. To date, there have been no randomized control trials or systematic reviews which compare the incidence of PVPC when using the two different needle sets. The aim of this literature review is to assess the rate of PVPC associated with the different needle sets used in the creation of TIPS. From the described search, 1500 articles were identified and 34 met the inclusion criteria. Outcome measured was the prevalence of PVPC using the different needle sets. Overall 212 (3.6%) PVPC were reported in 5865 patients; 142 (3.5%) reported in 4000 cases using the Rösch-Uchida set and 70 (3.7%) in 1865 patients using the Colapinto set (p = 0.69). PVPC in TIPS creation are not related to the choice of needle set used in the procedure. To our knowledge, this is the first review of its kind, the results of which support the theory that while the rate of PVPC is influenced by many factors, choice of needle set does not seem to be one of them.</p>
Raw Data for the article: Potential Anti-Metastatic Role of the Novel miR-CT3 in Tumor Angiogenesis and Osteosarcoma Invasion
<p>Osteosarcoma (OS) is the most common primary bone tumor mainly occurring in young adults and derived from primitive bone-forming mesenchyme. OS develops in an intricate tumor microenvironment (TME) where cellular function regulated by microRNAs (miRNAs) may affect communication between OS cells and the surrounding TME. Therefore, miRNAs are considered potential therapeutic targets in cancer and one of the goals of research is to accurately define a specific signature of a miRNAs, which could reflect the phenotype of a particular tumor, such as OS. Through NGS approach, we previously found a specific molecular profile of miRNAs in OS and discovered 8 novel miRNAs. Among these, we deepen our knowledge on the fifth candidate renamed now miR-CT3. MiR-CT3 expression was low in OS cells when compared with human primary osteoblasts and healthy bone. Through TargetScan, VEGF-A was predicted as a potential biological target of miR-CT3 and luciferase assay confirmed it. We showed that enforced expression of miR-CT3 in two OS cell lines, SAOS-2 and MG-63, reduced expression of VEGF-A mRNA and protein, inhibiting tumor angiogenesis. Enforced expression of miR-CT3 also reduced OS cell migration and invasion as confirmed by soft agar colony formation assay. Interestingly, we found that miR-CT3 behaves inducing the activation of p38 MAP kinase pathway and modulating the epithelial-mesenchymal transition (EMT) proteins, in particular reducing Vimentin expression. Overall, our study highlights the novel role of miR-CT3 in regulating tumor angiogenesis and progression in OS cells, linking also to the modulation of EMT proteins.</p>
Raw Data for the article: Transjugular Intrahepatic Portosystemic Shunt: A Single-Centre Mid-term Experience Using the Viatorr Controlled-Expansion Stent
<p>Authors reported a high incidence of hepatic encephalopathy (HE) using the Viatorr Controlled Expansion stent (VCX) (Gore, Flagstaff AZ) in a cohort of 33 patients underwent transjugular intrahepatic portosystemic shunt (TIPS) creation. In detail 6 and 12 month overall HE rate was 53% and 61%. Those results are different as compared to our preliminary experience, with the same stent, in which the overall HE rate was 22% in a cohort of 75 patients and with a mean follow up of 5.8 months.</p>
dataset related to article "EXPANDING THE GENETIC SPECTRUM OF PRIMARY FAMILIAL BRAIN CALCIFICATION DUE TO SLC2OA2 MUTATIONS: A CASE SERIES"
<p>Sanger sequences (.abi files) of all patients of our Fondazione Besta Cohort.</p>
Supplementary Table S5 - Article: Transcriptome Analysis Provides Novel Insights into Salinity Stress Response in two Egyptian Rice Varieties with Different Tolerance Levels
<p><strong>Table S5.</strong> Repository data showing genes identified by MapMan in Giza 178 in different pathways. </p> <p>A, Cell wall modifications.</p> <p>B, Hemicellulose synthesis.</p> <p>C, Cellulose synthesis.</p> <p>D, Mannan-xylose-arabinose-fucose. </p> <p>E, cell wall peroxidase.</p> <p>F, TF MYB. </p> <p>G, bZIP. </p> <p>H, Histone.</p>
Supplementary Table S4 - Article: Transcriptome Analysis Provides Novel Insights into Salinity Stress Response in two Egyptian Rice Varieties with Different Tolerance Levels
<p><strong>Table S4.</strong> Repository data showing genes identified by MapMan in Giza 177 in different pathways. </p> <p>A, Cell wall modifications.</p> <p>B, Hemicellulose synthesis.</p> <p>C, Cellulose synthesis.</p> <p>D, Mannan-xylose-arabinose-fucose.</p> <p>E, cell wall peroxidase.</p> <p>F, TF MYB. </p> <p>G, bZIP. </p> <p>H, Histone.</p>
Supplementary Table S2 - Article:Transcriptome Analysis Provides Novel Insights into Salinity Stress Response in two Egyptian Rice Varieties with Different Tolerance Levels
<p><strong>Table S2.</strong> Repository data for the global analysis produced for cv Giza 177. </p> <p>A, Up regulated genes observed when comparing salt stressed plants vs unstressed controls. </p> <p>B, Down regulated genes in Giza 177 observed when comparing salt stressed plants vs unstressed controls.</p> <p>C, Gene Ontology enrichment analysis (GOEA) results for Giza 177 up regulated genes. </p> <p>D, GOEA results for Giza 177 down regulated genes. </p>
Supplementary Table S3 - Article: Transcriptome Analysis Provides Novel Insights into Salinity Stress Response in two Egyptian Rice Varieties with Different Tolerance Levels
<p><strong>Table S3.</strong> Repository data for the global analysis produced for cv Giza 178. </p> <p>A, Up regulated genes observed when comparing salt stressed plants vs unstressed controls. </p> <p>B, Down regulated genes in Giza 178 observed when comparing salt stressed plants vs unstressed controls.</p> <p>C, Gene Ontology enrichment analysis (GOEA) results for Giza 178 up regulated genes. </p> <p>D, GOEA results for Giza 178 down regulated genes. </p>
Raw Data for the article: Complete intra-laboratory validation of a LAL assay for bacterial endotoxin determination in EBV-specific cytotoxic T lymphocytes
<p>Endotoxin content is a critical factor that affects the safety of biological pharmaceutical products. International pharmacopoeias describe several reference methods to determine endotoxin levels in advanced therapy medicinal product (ATMP) preparations. Administration of ATMPs must be done as rapidly as possible to ensure complete viability and potency of the cellular product. To evaluate the endotoxin content in the shortest time possible, we chose to validate an alternative method based on the use of the Charles River Portable Testing System (PTS) and FDA-approved cartridges, compliant with the requirements of the European Pharmacopoeia and providing results in <20 min. Here, we describe a unique and complete validation approach for instrument, personnel, and analytical method for assessment of endotoxins in ATMP matrices. The PTS system provides high sensitivity and fast quantitative results and uses less raw material and accessories compared with compendial methods. It is also less time consuming and less prone to operator variability. Our validation approach is suitable for a validated laboratory with trained personnel capable of conducting the ATMP release tests, and with very low intra-laboratory variability, and meets the criteria required for an alternative approach to endotoxin detection for in-process and product-release testing of ATMPs.</p>
Raw Data or the article: Physiopathology and Diagnosis of Congestive Heart Failure: Consolidated Certainties and New Perspectives
<p>Volume overload and fluid congestion are a fundamental issue in the assessment and management of patients with heart failure (HF). Recent studies have found that in acute decompensated heart failure (ADHF), right and left-sided pressures generally start to increase before any notable weight changes take place preceding an admission. ADHF may be a problem of volume redistribution among different vascular compartments instead of, or in addition to, fluid shift from the interstitial compartment. Thus, identifying heterogeneity of volume overload would allow guidance of tailored therapy. A comprehensive evaluation of congestive HF needs to take into account myriad parameters, including physical examination, echocardiographic values, and biomarker serum changes. Furthermore, potentially useful diagnostic tools include bioimpedance to measure intercompartmental fluid shifts, and evaluation of ultrasound lung comets to detect extravascular lung water.</p>
Raw Data for the article: Usefulness of longitudinal systolic strain and delayed enhancement cardiac magnetic resonance in depicting risk of supraventricular arrythmias in patients with acute myocarditis and preserved left ventricular function
<p><strong>Background: </strong>Myocarditis have variable clinical presentation, evolution and prognosis. Aim of our study was to evaluate the value of speckle tracking echocardiography and cardiac magnetic resonance (CMR) in the short-term prediction of supraventricular arrhythmias (SVA) in patients with acute myocarditis.</p> <p><strong>Methods: </strong>Seventy patients (mean age 31±14 years old) with acute myocarditis and preserved left ventricular ejection fraction (LVEF) were enrolled. Longitudinal systolic strain (LS) of the left ventricle (LV), mechanical dispersion (MD) and CMR with quantitative measurement of delayed enhancement (DE) were performed in a subset of 43 patients. Logistic regression and ROC analysis were used to identify predictors of SVA RESULTS: Only LS measured at sup-epicardial, mid-wall and sub-endocardial level of the apical 4-chamber view was significantly lower in patients with SVA, while MD was marginally prolonged in this setting. A value of LS > - 16.1% measured at LV mid-wall in the apical 4-chamber view (ROC-AUC .75, Sensitivity 63%, Specificity 85%) was the most accurate measure to identify patients with SVA. DE mass was also helpful with a ROC-AUC .76; a DE-Mass > 18.9 gr. had a Sensitivity 63% and a Specificity 77%, to identify patients at risk of SVA.</p> <p><strong>Conclusions: </strong>Both DE mass and LS were associated with higher risk of SVA in patients with acute myocarditis and preserved LVEF. However, LS measured at the mid-wall level and limited to LV segments included in the apical 4-chamber view was the most accurate measure and did not show interaction with DE mass.</p>
Aligned DNA sequence matrix for phylogenetic analyses in the article "Dos nuevas especies del grupo Pristimantis boulengeri (Anura: Strabomantidae) de la cuenca alta del río Napo, Ecuador" by Bejarano, et al.
<p>Matrix in nexus format that include sequences of 16S (1-1295), RAG1 (1296-1922), 12S (1923-3306), and COI (3307-3984) for 97 specimens belonging to the genus <em>Pristimantis</em>, in addition to specimens of <em>Strabomantis</em> and <em>Niceforonia</em> as outgroups.</p>
Images and data accompanying article: Remarkable response of hollow thermoplastic microspheres-elastomer matrix composites in uniaxial tension.
<p><strong>Images and data accompanying article:<br> Remarkable response of hollow thermoplastic microspheres-elastomer matrix composites in uniaxial tension.*</strong><br> <em>By Michel Coret, Erwan Verron & Pierre Rublon</em><br> <strong>(<a href="http://hal.archives-ouvertes.fr/hal-03480982">https://hal.archives-ouvertes.fr/hal-03480982</a>)</strong></p> <p><br> <strong>Abstract of the article</strong><br> In the last few years, the mechanical response of hollow thermoplastic micro-spheres-elastomer matrix composites has been investigated. The large majority of the studies focuses on their compressive properties and particularly on the stress-strain response. In the present paper, large strain uniaxial tension experiments are conducted on thermoplastic microspheres filled polyurethane elastomer. Six volume fractions of microspheres are considered. Thanks to a two-camera setup and digital image correlation measurements, the volumetric response of the materials is extensively analyzed. As a major result, the remarkable volumetric behaviour is highlighted: the hydrostatic pressure vs. volume change curves admit several extrema that may be read as the macroscopic signature of the complex microstructural phenomena involved during deformation. Moreover, it is shown that the size of the volumetric loading-unloading hysteresis loop is directly related to the volume fraction of microspheres in the materials.<br> Experimental test methodology is described within the article. The objective of the deposit is to share data.</p> <p><strong>Description of the deposit</strong><br> <strong>Objectives:</strong></p> <p>The objective of this deposit is to share all the data needed to retrieve the results presented in the article (<a href="http://hal.archives-ouvertes.fr/hal-03480982">https://hal.archives-ouvertes.fr/hal-03480982</a>). This deposit do not explain any experimental methodology, that can be found in the article.</p> <p><strong>Data overview:</strong></p> <ol> <li>The images taken during the tests (raw data)</li> <li>Force and displacement measured by the tensile machine (raw data).</li> <li>Surface strain field on face and lateral sides of the tensile specimen (obtain by Digital Image Correlation)</li> <li>Averaged and filtered</li> </ol> <p><strong>Data description:</strong><br> 1. Image directories:<strong> "YY/MM/DD_poro_xx_spec_nn"</strong></p> <ul> <li> YY/MM/DD: date of the test</li> <li> xx: specimen porosity (can be one of these values [0, 05, 10, 15, 20, 25] in %)</li> <li> nn: Specimen number</li> </ul> <p> In each directory you will find:</p> <ul> <li> YY/MM/DD_poro_xx_spec_nn-aaaaa_0.tif (face side *aaaaa* image)</li> <li> YY/MM/DD_poro_xx_spec_nn-bbbbb_1.tif (lateral side *bbbbb* image</li> <li> YY/MM/DD_poro_xx_spec_nn.csv (Synchronized analogic data with images) <ul> <li>Column A: Image n°</li> <li>Columns B & C: Image file name</li> <li>Columns D & E: Timestamp</li> <li>Columns F & G: Analog data (Volts)</li> <li>Column H: Position of the jack (millimeter)</li> <li>Column I: Measured force (N)</li> </ul> </li> </ul> <p>2. Scalar data directory: <strong>Data_csv/</strong></p> <ul> <li><strong>DIC</strong>: strain average results from digital image correlation on face side (axis xy) and lateral side (axis yz) <ul> <li>Column A: Image n°</li> <li>Column B, C, D (Hencky strains): exx, eyy & exy</li> <li>Column E, F (Hencky eigen strains): e1 & e2</li> </ul> </li> </ul> <p> </p> <ul> <li><strong>Machine</strong>: displacement and force from tensile machine for each image <ul> <li>Column A: Image n°</li> <li>Columns B & C: Image file name</li> <li>Columns D & E: Timestamp</li> <li>Columns F & G: Analog data (Volts)</li> <li>Column H: Position of the jack (millimeter)</li> <li>Column I: Measured force (N)</li> </ul> </li> </ul> <p> </p> <ul> <li><strong>Post</strong>: Average + smoothed data for each porosities <ul> <li>Column A: Longitudinal stretch <span class="math-tex">\(\lambda\)</span></li> <li>Column B: Nominal stress P</li> <li>Column C: Lateral stretch ratio <span class="math-tex">\(\lambda_w=\lambda_t\)</span><br> </li> </ul> </li> </ul>
Publication times for COVID-19 articles and associated preprints
<p>These are two datasets of COVID-19 peer-reviewed journal and review articles and associated with them medRxiv and bioRxiv preprints. Datasets contain DOI of preprint and its published version, and publication times associated with each step: pre-submission time, review time, production stage time, and the elapsed time. One dataset was collected on 4 May 2021 and it includes a total of 4,031 deduplicated journal article-preprint pairs. Another dataset was collected on 19 October 2020 and it includes 1,099 journal article-preprint pairs. These files are associated with the submission of a manuscript "Publication Practices during the COVID-19 Pandemic: Expedited publishing or simply an early bird effect?" to the journal Learned Publishing in 2022.</p>
Full data set for "Real-Space Observation of Fluctuating Antiferromagnetic Domains" article in Science Advances
<p>This is the full data set for the article, sufficient to reproduce any results shown. The data and data files description, and data retrieval instructions are in the Readme.txt file. </p>
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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.