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3,684 results for “extract”
Fig. 4. MCF-7 in Ethanolic extract of Mimosa caesalpiniifolia leaves: Chemical characterization and cytotoxic effect on human breast cancer MCF-7 cell line
Fig. 4. MCF-7 cell diameter (μm) after treatment with cyclophosphamide (CP, 550 μg/mL) and different concentrations (5.0–320.0 μg/mL) of the ethanolic extract of Mimosa caesalpiniifolia leaves (EEM) for 24 or 48 h, compared to the negative control cells (NC). Results are expressed as mean ± SEM of three independent experiments. Different letters indicate significant differences (p <0.01) by the Tukey test. Note cell-diameter reduction after treatment, in comparison to the negative control cells, thereby indicating EEM cytotoxicity.
Supplementary material for: Cytotoxic properties of free and nano-encapsulated methanolic extracts of Ganoderma mushrooms
<p>These are data and supplementary materials for the manuscript "<span>Cytotoxic properties of free and nano-encapsulated methanolic extracts of <em>Ganoderma</em> mushrooms"</span></p>
Data from: Choice of capture and extraction methods affect detection of freshwater biodiversity from environmental DNA
Environmental DNA (eDNA) is used to detect biodiversity by the capture, extraction, and identification of DNA shed to the environment. However, eDNA capture and extraction protocols vary widely across studies. This use of different protocols potentially biases detection results and could significantly hinder a reliable use of eDNA to detect biodiversity. We tested whether choice of eDNA capture and extraction protocols significantly influenced biodiversity detection in aquatic systems. We sampled lake and river water, captured and extracted eDNA using six combinations of different protocols with replication, and tested for the detection of four macroinvertebrate species. Additionally, using the same lake water technical replicates, we compared the effect of capture and extraction protocols on metabarcode detections of biodiversity using 16S for eubacteria and cytochrome c oxidase I (COI) for eukaryotes. Protocol combinations for capture and extraction of eDNA significantly influenced DNA yield and number of sequences obtained from next generation sequencing. We found significantly different detection rates of species ranging from zero percent to thirty-three percent. Differences in which protocol combinations produced the highest metabarcoded biodiversity were detected and demonstrate that different protocols are required for different biodiversity targets. Our results highlight that the choice of molecular protocols used for capture and extraction of eDNA from water can strongly affect biodiversity detection. Consideration of biases caused by choice of protocols should lead to a more consistent and reliable molecular workflow for repeatable and increased detection of biodiversity in aquatic communities.
Data from: HyRAD-X, a versatile method combining exome capture and RAD sequencing to extract genomic information from ancient DNA
Over the last decade, protocols aimed at reproducibly sequencing reduced-genome subsets in non-model organisms have been widely developed. Their use is however limited to DNA of relatively high molecular weight. During the last year, several methods exploiting hybridization capture using probes based on RAD-sequencing loci have circumvented this limitation and opened avenues to the study of samples characterized by degraded DNA, such as historical specimens. Here, we present a major update to those methods, namely Hybridization capture from RAD-derived probes obtained from a reduced eXome template (hyRAD-X), a technique applying RAD-sequencing to messenger RNA from one or few fresh specimens to elaborate bench-top produced probes, i.e., a reduced representation of the exome, further used to capture homologous DNA from a samples set. In contrast to previous hybridization-capture methods, the reference catalog on which reads are aligned does not rely on de novo assembly of anonymous RAD-sequencing loci, but on an assembled transcriptome obtained from RNAseq data, thus increasing the accuracy of loci definition and Single-Nucleotide-Polmorphisms (SNP) call, and targeting, specifically, expressed genes. Finally, the capture step of hyRAD-X relies on RNA probes, increasing stringency of hybridization, making it well suited for low-content DNA samples. As a proof of concept, we applied hyRAD-X to subfossil needles from the coniferous tree Abies alba, collected in lake sediments (Origlio, Switzerland) and dating back from 7200-5800 years before present (BP). More specifically we investigated genetic variation before, during, and after an anthropogenic perturbation that caused an abrupt decrease in Abies alba population size, 6500-6200 years BP. HyRAD-X produced a matrix encompassing 524 exome-derived SNPs. Despite a lower observed heterozygosity was observed during the 6.500-6.200 years BP time slice, genetic composition was nearly identical before and after the perturbation, indicating that re-expansion of the population after the decline was driven by autochthonous specimens. To the best of our knowledge, this is the first time a population genomic study incorporating ancient DNA samples of tree subfossils is conducted at a moderate cost using reproducible exome-reduced complexity.
Extracting physiological information in experimental biology via Eulerian video magnification
<p><b>Background:</b></p> <p>Videographic material of animals can contain inapparent signals, such as color changes or motion that hold information about physiological functions, such as heart and respiration rate, pulse wave velocity and vocalization. Eulerian video magnification allows enhancement of such signals to enable their detection. The purpose of this study is to demonstrate how signals relevant to experimental physiology can be extracted from non-contact videographic material of animals.</p> <p><b>Results: </b></p> <p>We applied Eulerian video magnification to detect physiological signals in a range of experimental models and in captive and free ranging wildlife. Neotenic Mexican axolotls were studied to demonstrate the extraction of heart rate signal of non-embryonic animals from dedicated videographic material. Heart rate could be acquired both in single and multiple animal setups of leucistic and normally colored animals under different physiological conditions (resting, exercised or anesthetized) using a wide range of video qualities. Pulse wave velocity could also be measured in the low blood pressure system of the axolotl as well as in the high pressure system of the human being. Heart rate extraction was also possible from videos of conscious, unconstrained zebrafish and from non-dedicated videographic material of sand lizard and giraffe. This technique also allowed for heart rate detection in embryonic chickens <i>in ovo</i> through the eggshell and in embryonic mice <i>in utero,</i> and could be used as a gating signal to acquire two-phase volumetric micro-CT data of the beating embryonic chicken heart. Additionally, Eulerian video magnification was used to demonstrate how vocalization induced vibrations can be detected in infrasound producing Asian elephants. </p> <p><b>Conclusions:</b></p> <p>Eulerian video magnification provides a technique to extract inapparent temporal signals from videographic material of animals. This can be applied in experimental and comparative physiology where contact based recordings (e.g. heart rate) cannot be acquired.</p>
Experimental data of manuscript "Marine Target Extraction Based on Adjoint Covariance Correction Model"
<p>Experimental data of manuscript "Marine Target Extraction Based on Adjoint Covariance Correction Model"</p>
Magnetic resonance imaging in the assessment of pancreatic cancer with quantitative parameter extraction by means of dynamic contrast-enhanced magnetic resonance imaging, diffusion kurtosis imaging and intravoxel incoherent motion diffusion-weighted imaging
<p>We uploaded IVIM and DKI parameters values of included patients in the manuscript: Fusco, Roberta, Adele Piccirillo, Mario Sansone, Vincenza Granata, Paolo Vallone, Maria L. Barretta, Teresa Petrosino, Claudio Siani, Raimondo Di Giacomo, Maurizio Di Bonito, Gerardo Botti, and Antonella Petrillo. 2021. "Radiomic and Artificial Intelligence Analysis with Textural Metrics, Morphological and Dynamic Perfusion Features Extracted by Dynamic Contrast-Enhanced Magnetic Resonance Imaging in the Classification of Breast Lesions" Applied Sciences 11, no. 4: 1880. https://doi.org/10.3390/app11041880</p>
Radiomic and Artificial Intelligence Analysis with Textural Metrics, Morphological and Dynamic Perfusion Features Extracted by Dynamic Contrast-Enhanced Magnetic Resonance Imaging in the Classification of Breast Lesions
<p>We uploaded the 15 morphological features of 91 samples of 85 patients analyzed in the manuscript: Fusco, Roberta, Adele Piccirillo, Mario Sansone, Vincenza Granata, Paolo Vallone, Maria L. Barretta, Teresa Petrosino, Claudio Siani, Raimondo Di Giacomo, Maurizio Di Bonito, Gerardo Botti, and Antonella Petrillo. 2021. "Radiomic and Artificial Intelligence Analysis with Textural Metrics, Morphological and Dynamic Perfusion Features Extracted by Dynamic Contrast-Enhanced Magnetic Resonance Imaging in the Classification of Breast Lesions" Applied Sciences 11, no. 4: 1880. https://doi.org/10.3390/app11041880</p>
Figure 2 in Successful identification of the final instar nymph of Quintilia carinata (Thunberg) (Hemiptera: Cicadidae) by DNA extraction from the exuvium
Figure 2. Legs of the final instar nymph of Quintilia carinata: (A) Lateral view of left foreleg. acf, accessory tooth of femur; apt, apical tooth of tibia; bt, blade of tibia; f, femur; fc, femoral comb; itf, intermediate tooth of femur; pbt, point of blade of tibia; ptf, posterior tooth of femur; t, trochanter; ti, tibia; ta, tarsus. (B) Distal spines of mesotibia. (C) Distal spines of metatibia. Scale bars: (A) 2 mm, (B) 1 mm, (C) 1 mm.
Figure 1 in Successful identification of the final instar nymph of Quintilia carinata (Thunberg) (Hemiptera: Cicadidae) by DNA extraction from the exuvium
Figure 1. Exuvium of the final instar nymph of Quintilia carinata. (A) Lateral view. (B) Dorsal view of head. Scale bars: (A) 8 mm, (B) 2 mm.
Data for "A method for intuitively extracting macromolecular dynamics from structural disorder"
<p>Analyses associated with the manuscript "A method for intuitively extracting macromolecular dynamics from structural disorder".</p>
Minerando Motivações para Aplicação de Extract Method: Um Estudo Preliminar
<p>Conjuntos de dados utilizados na pesquisa.</p>
A green method of extracting and recovering flavonoids from Acanthopanax senticosus using deep eutectic solvents
<p><span>In recent years, green extraction of bioactive compounds from herbal medicines has generated widespread interest. Deep eutectic solvents (DES) have widely replaced traditional organic solvents in the extraction process. In this study, the efficiencies of eight tailor-made DESs in extracting flavonoids from <i>Acanthopanax senticosus</i> (AS) were compared. Response surface methodology (RSM) was employed to optimize the influencing parameters including ultrasonic power, HBA-HBD ratio, water content, solid-liquid ratio, extraction temperature and extraction time. DES composed of glycerol and levulinic acid at a 1:1 ratio was established as the most suitable extraction medium. Optimal conditions were ultrasonic power of 500W, water content of 28%, solid-liquid ratio of 1:18 g·mL<sup>-1</sup>, extraction temperature of 55℃ and extraction time of 73 minutes. The extraction yield of AS total flavonoids reached 23.928±0.071 mg·g<sup>-1</sup>, which was 86.3% and 43.8% higher compared with traditional solvent soak and ethanol reflux extraction methods, respectively. Macroporous resin (D-101, HPD-600, S-8 and AB-8) was used to recover flavonoids from extracts. The AB-8 resin showed higher adsorption/desorption performance, with a recovery rate of total flavonoids of up to 71.56±0.256%. In addition, DES solvent could be efficiently recovered through this process and reused. In summary, ultrasonic-assisted DES combined with the macroporous resin enrichment method is exceptionally effective in extracting flavonoids from AS and provides a promising environmentally friendly and recyclable strategy for flavonoid extraction from natural plant sources.</span></p>
A Mechanism for Automatically Extracting Reusable and Maintainable Code Idioms from Software Repositories
<p>The provided dataset contains the data used by "A Mechanism for Automatically Extracting Reusable and Maintainable Code Idioms from Software Repositories", in order to extract maintainable and reusable code idioms from the most popular GitHub repositories. The dataset includes the code snippets, the Abstract Syntax Trees and repositories information about Control Flow Statements (if-blocks, for-blocks, enhanced-for-blocks, try-blocks, while-blocks, switch-blocks and do-blocks) data coming from the top GitHub projects.</p>
Radiomics and Artificial Intelligence Analysis with Textural Metrics Extracted by Contrast-Enhanced Mammography in the Breast Lesions Classification.
<p>We uploaded the database of 104 lesions included in the manuscript: Fusco R, Piccirillo A, Sansone M, Granata V, Rubulotta MR, Petrosino T, Barretta ML, Vallone P, Di Giacomo R, Esposito E, Di Bonito M, Petrillo A. Radiomics and Artificial Intelligence Analysis with Textural Metrics Extracted by Contrast-Enhanced Mammography in the Breast Lesions Classification. Diagnostics (Basel). 2021 Apr 30;11(5):815. doi: 10.3390/diagnostics11050815. PMID: 33946333; PMCID: PMC8146084.</p>
Sceliphron biotic interactions extracted from the literature
<p>No description provided.</p>
Integration-based Extraction and Visualization of Jet Stream Cores - Demo Data
<p>Demo data for the publication "Integration-based Extraction and Visualization of Jet Stream Cores", containing the meteorological attirbutes for September 01, 2016 at 00:00. The data is derived from ERA5.</p> <p>The ERA5 data is courtesy of the European Centre for Medium-Range Weather Forecasts (ECMWF) and is documented here: <a href="https://confluence.ecmwf.int/display/CKB/ERA5%3A+data+documentation">https://confluence.ecmwf.int/display/CKB/ERA5%3A+data+documentation</a> The data is available under the Copernicus License Agreement: <a href="https://cds.climate.copernicus.eu/api/v2/terms/static/licence-to-use-copernicus-products.pdf">https://cds.climate.copernicus.eu/api/v2/terms/static/licence-to-use-copernicus-products.pdf</a></p>
Vaccination and equity - overview of systematic reviews - data extraction
<p>Data extracted from systematic reviews included in an overview of systematic review.</p>
Identifiers in source code extracted from 13,000,000 public GitHub repositories (October 2016)
<p>101 files, indexed LZO archives for Hadoop/Spark.<br> Each file is text lines with the format:</p> <p>(‘<GitHub repo name>', [(‘<name>', <count>),(‘<name>', <count>),(‘<name>', <count>)])</p> <p> </p>
VAMDC extraction with identifier = 5c91e7c7-e0c9-474f-b76a-62bff7b38468
<div>This is a dataset extracted from http://vamdc.icb.cnrs.fr/gecasda/tap/ VAMDC node.</div><div>Query originating this dataset: query=select * where ( inchikey in ['quzpnffhzprkjd-aklpvkdbsa-n', 'quzpnffhzprkjd-bjudxgsmsa-n', 'quzpnffhzprkjd-igmarmgpsa-n', 'quzpnffhzprkjd-oiobtwansa-n', 'quzpnffhzprkjd-oubtzvsysa-n'] ); </div><div> Data source version: 1</div><div>Data format: XSAMS 12.07</div><div>Query uuid in VAMDC query store: 5c91e7c7-e0c9-474f-b76a-62bff7b38468</div>
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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.