Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
700
datasets available to search
ShareScore release 0.9.0
Dataset results
700 results for “ex vivo”
7 Tesla MRI of the ex vivo human brain at 100 micron resolution
Open the record for dataset details and reuse information.
Dataset related to article "Molecular Studies and ex vivo Complement assay on Endothelium Highlight the Genetic Complexity of Atypical Hemolytic Uremic Syndrome: The Case of a Pedigree With a Null CD46 Variant".
<p><em>The files contain raw data related to the article "Molecular Studies and ex vivo Complement assay on Endothelium Highlight the Genetic Complexity of Atypical Hemolytic Uremic Syndrome: The Case of a Pedigree With a Null CD46 Variant", available from <a href="https://www.frontiersin.org/articles/10.3389/fmed.2020.579418/full">https://www.frontiersin.org/articles/10.3389/fmed.2020.579418/ful</a>l.</em></p> <p>File <strong>"Genetic and clinical data"</strong>:</p> <ul> <li>In the sheet "485 aHUS patients" are reported data obtained from the screening of 485 unrelated patients with aHUS including rare variants (RVs) in complement disease-associated genes (<em>CFH, CD46, CFI, C3, CFB </em>and <em>THBD</em>), the presence of <em>CFH-CFHR</em> genomic rearrangements and/or anti-FH antibodies.</li> <li>In the sheet "Pedigrees with c.286+2T>G" are listed all pedigrees carrying the c.286+2T>G variant, the diseases status of all subjects and the age of disease onset of patients. In bold are indicated pedigrees (n=7) used to study the penetrance of aHUS in c.286+2T>G carriers.</li> <li>In the sheet "Haplotypes" are reported genotypes used to evaluate the association between the presence of <em>CFH-H3</em> and <em>CD46<sub>GGAAC</sub></em> risk haplotypes and aHUS. Results of this analysis are reported in Table 3 of the published paper.</li> <li>In the sheet "Raw data Fig.2" are reported data of "platelet count" and "serum creatinine" of the proband used to elaborate Figure 2.</li> </ul> <p>In the file <strong>"C3 and C5b-9 deposition"</strong> is reported the quantification of serum-induced C3 and C5b-9 deposition on human microvascular endothelial cell line (HMEC-1). The fluorescent staining was evaluated with Image J and expressed as pixel<sup>2 </sup>per field analyzed. The fields with the lowest and highest values were excluded from calculation. These values were used to elaborate data included in Table 2 and in Figure 5.</p> <p>In the file <strong>"CD46 protein expression"</strong> are reported data of CD46 expression on peripheral blood mononuclear cells (PBMCs) isolated from the proband, his relatives and healthy volunteers. Data of specific expression of CD46 (evaluated for SCR1 or for SCR4 as reported in the materials and methods section) are indicated as median fluorescence intensity (MFI) percentage compared with the control.</p> <p>In the ppt file <strong>"cDNA amplification and sequencing results"</strong> is reported:</p> <ul> <li>the agarose gel image of the amplified cDNA from the control (ctr), the proband (IV-8) and his healthy father (III-7).</li> <li>Electropherograms obtained from the cDNA sequencing of the control (ctr), the proband (IV-8) and his healthy father (III-7).</li> </ul> <p>Additional data will be made available by the authors, without undue reservation, to any qualified researcher. </p>
Silver Nanoparticles Alter Cell Viability Ex Vivo and in Vitro and Induce Proinflammatory Effects in Human Lung Fibroblasts
<p>Dataset for data generated and presented in following article by Löfdahl et al in Nanomaterials 2020, 10, 1868. doi:10.3390/nano10091868</p>
Supplementary Material: Evaluation of Cyanea capillata Sting Management Protocols Using Ex Vivo and In Vitro Envenomation Models
<p>Supplementary files for Doyle, T.K.; Headlam, J.L.; Wilcox, C.L.; MacLoughlin, E.; Yanagihara, A.A. Evaluation of <em>Cyanea capillata</em>Sting Management Protocols Using Ex Vivo and In Vitro Envenomation Models. <em>Toxins</em> <strong>2017</strong>, <em>9</em>, 215. Video S1: Vinegar Application to Gelatin-Adherent Cnidae</p>
FIGURE 4 in Ex vivo three-dimensional reconstruction of Acutiramus: a giant pterygotid sea scorpion
FIGURE 4. Acutiramus macrophthalmus showing arrangement of ventral structures. AMNH-FI 2253; specimen from the Silurian (Pridoli), Bertie Group, Waterville, Oneida County, NY (Clarke and Ruedemann, 1912: pl. 71, fig. 6): A. complete specimen; B. close-up of ventral structures; C. interpretive drawing of B. Abbreviation: Ap.II.co, appendage II coxae. Specimens photographed under ethanol.
FIGURE 9. 3D in Ex vivo three-dimensional reconstruction of Acutiramus: a giant pterygotid sea scorpion
FIGURE 9. 3D reconstruction of Acutiramus based on examined specimens in lateral view. A. Reconstruction with chelicerae outstretched. B. Reconstruction with chelicerae rotated. The 3D pdf associated with this reconstruction, figure S1, is available in the online supplement (https://doi.org/10.5531/sd.sp.61).
FIGURE 8. 3D in Ex vivo three-dimensional reconstruction of Acutiramus: a giant pterygotid sea scorpion
FIGURE 8. 3D reconstruction of Acutiramus based on examined specimens in dorsal and ventral view. A, D. Reconstruction with chelicerae outstretched: A. dorsal view; D. ventral view. B, E. Reconstruction with chelicerae rotated: B. dorsal view; E. ventral view. C, F. Close-up of prosomal region in ventral view: C. all prosomal appendages; F. close-up of appendages II–V with appendages VI and metastoma removed. The 3D pdf associated with this reconstruction, figure S1, is available in the online supplement (https:// doi.org/10.5531/sd.sp.61).
FIGURE 7 in Ex vivo three-dimensional reconstruction of Acutiramus: a giant pterygotid sea scorpion
FIGURE 7. Acutiramus macrophthalmus showing ventral morphology. YPM IP 208195 from the Late Silurian (Pridoli), Bertie Group, Fiddlers Green dolomite, Phelps Waterline Member, SW of Spinnersville, Millers Mills Quadrangle, Herkimer County, NY (Briggs and Roach, 2020: figs. 10, 11): A. complete specimen. B. close-up of rectangle in A showing reduced appendage II (white arrow); C. interpretive drawing of close-up in B showing key morphologies and the possible articulation locality for the chelicerae (black arrows). B converted to grayscale. Abbreviation: ELS, epistomal lateral sutures. A, B. Photographs by Jessica Utrup.
FIGURE 5 in Ex vivo three-dimensional reconstruction of Acutiramus: a giant pterygotid sea scorpion
FIGURE 5. Erettopterus bilobus from the Silurian (latest Llandovery and Wenlock) Patrick or Kip Burn formation, Scotland. NHMUK PI In 59343 (Kjellesvig-Waering, 1964: pl. 53, fig. 1): A. complete specimen; B. closeup of rectangle in A showing the purported cheliceral articulation with the epistoma; C. interpretive drawing of B showing the reduction in cheliceral width proximal to the epistoma. Abbreviation: ELS, epistomal lateral sutures. Specimen photographed under ethanol.
Micro-CT Imaging Dataset on ex-vivo Ovine Functional Spinal Segments as Healthy, Injured and Treated with Cement Discoplasty
<p>General information:</p> <p>- This dataset contains micro-CT images and mechanical test data from ovine functional spinal units (FSU). <br> - The micro-CT data was produced using a Bruker SkyScan 1172. The settings for the scans are given in the '.log' files in each folder. <br> - The compression testing was conducted on an MTS 858 Mini Bionix T/II. The settings for each test can be found in test '.txt' files.<br> - In short, every FSU was mechanically tested in compression under different conditions. Before and after every test, the FSUs were scanned to ensure there was no damage<br> to the sample. More information can be found in the related publication: <br> - The mechanical testing data is arranged in folders with consecutive cycles. It is highly recommended to use the last three cycles for analysis. </p> <p>Data set notation:</p> <p>- All the datasets are noted by Sheep number. Sh7 = Sheep 7; Sh8 = Sheep 8; Sh9 = Sheep 9. In the publication, the numbers were switched to 1,2,3 respectively.<br> - files denoted with '_rec' contain the reconstruction of the projection images. <br> - 'Tested' or 'After test' files refers to the scan after mechanical testing. </p>
Pre-processed ex vivo MRI data for manuscript titled "Neuroanatomical and cognitive biomarkers of alpha-synuclein propagation in a mouse model of synucleinopathy prior to onset of motor symptoms""
<p>Repository for <em>ex vivo</em> magnetic resonance imaging data from the project titled "Presymptomatic neuroanatomical and cognitive biomarkers of alpha-synuclein propagation in a mouse model of synucleinopathy"</p> <p>Contains the pre-processed <em>ex vivo</em> T1-weighted images (Bruker 7T; 70 micron isotropic voxel resolution) for M83 alpha-synuclein A53T hemizygous mice that received either a phosphate buffered saline (PBS) or alpha-synuclein pre-formed fibrils (PFF) injection in the right dorsal striatum. Full subject list can be viewed with the "subject_list.csv" file. More details are available in the manuscript. </p>
Figure 3 in Analysis of the toxicological and pharmacokinetic profile of Kaempferol-3-O-β-D-(6"-E-p-coumaryl) glucopyranoside - Tiliroside: in silico, in vitro and ex vivo assay
Figure 3. Photomicrography of exfoliated oral mucosa cells with: (A) karyorrhexis; (B) karyolysis; (C) micronucleus; (D) binucleation; and (E) macronucleus. Magnification X1000.
Figure 2 in Analysis of the toxicological and pharmacokinetic profile of Kaempferol-3-O-β-D-(6"-E-p-coumaryl) glucopyranoside - Tiliroside: in silico, in vitro and ex vivo assay
Figure 2. Cytotoxic effect of tiliroside (H. velutina) against RBC; (C-) Negative control (erythrocytes 0.5%), (C+) Positive control (1% Triton X-100). P <0.05 (*), P <0.01(**) and P <0.001 (***) versus positive control.
Quantitative susceptibility mapping of articular cartilage: ex vivo findings at multiple orientations and following different degradation treatments
<p>This dataset contains all the raw source data and MATLAB analysis functions that comprise the study:</p> <p><br> Quantitative susceptibility mapping of articular cartilage: Ex vivo findings at multiple orientations and following different degradation treatments</p> <p>Magnetic Resonance in Medicine | DOI: 10.1002/mrm.27216</p> <p>Nykänen Olli(1*), Rieppo Lassi(2,3), Töyräs Juha(1,4), Kolehmainen Ville(1), Saarakkala Simo(2,3,5), Shmueli Karin(6) and Nissi Mikko Johannes(1)</p> <p>(1) Department of Applied Physics, University of Eastern Finland, POB 1627, FI-70211 Kuopio, Finland<br> (2) Research Unit of Medical Imaging, Physics and Technology, University of Oulu, POB 5000, FI-90014 Oulu, Finland<br> (3) Medical Research Center Oulu, Oulu University Hospital and University of Oulu, Oulu, Finland<br> (4) Diagnostic Imaging Center, Kuopio University Hospital, Kuopio, Finland<br> (5) Department of Diagnostic Radiology, Oulu University Hospital, Oulu, Finland<br> (6) Department of Medical Physics & Biomedical Engineering, University College London(UCL), London, United Kingdom</p> <p><br> *Corresponding author:<br> Olli Nykänen<br> Department of Applied Physics,<br> University of Eastern Finland<br> POB 1627<br> FI-70211, Kuopio, Finland<br> olli.nykanen@uef.fi<br> +358-50-5556357</p> <p><br> Keywords: cartilage, collagen matrix, quantitative susceptibility mapping, MRI, osteoarthritis</p> <p><br> Included folders and files are:<br> - article_figures: all figures published in the manuscript<br> - data: all MRI, histological, and PLM data used in this article<br> - matlab_functions: matlab functions used in data analysis with subfolders:<br> - aedes_plugins: plugins for aedes (http://aedes.uef.fi) for calculation of QS- and T2* maps<br> - fitting_functions: functions for fitting relaxation times or TKD-method for QSM, used by the functions in above folder<br> - miscellaneous_functions: small helper functions for a number of small tasks utilized by the other scripts and functions<br> - ReadMe.txt: this file</p> <p><br> Notes for setting up Aedes correctly for this dataset:<br> Run Aedes -> Tools -> Edit VNMR Defaults:<br> - Return: FT + K-space<br> - DC: off<br> - Zeropadding: off<br> - Sorting & fastread: on<br> - Precision: single<br> - Read_fcn: readvnmr<br> - Orient: no</p> <p>See more info in separate readme files included in each folder.</p> <p><br> (Olli Nykänen, Apr 17, 2018)</p>
Ex vivo [18F]Fenoprofen PET imaging
<p>Coronal slice, maximum intensity projection (MIP) static PET image, and CT image of representative TPA-treated ear (A, C and E) or normal ear (B, D and F) harvested from the mice injected intravenously with [<sup>18</sup>F]Fenoprofen. (G) Dynamic PET time-activity curve (tac) of organ ROIs in nude mice injected with a rapid intravenous bolus of [<sup>18</sup>F]Fenoprofen, imaged for 30 minutes post-injection. (H) Uptake of [<sup>18</sup>F]Fenoprofen in TPA-treated or normal ear measured by ROIs hand-drawn on static <em>ex vivo</em> PET images. (I) Uptake of [<sup>18</sup>F]Fenoprofen in TPA-treated or normal ear measured by gamma counting.</p>
Data and code from: Deep learning-based autonomous retinal vein cannulation in ex vivo porcine eyes
Open the record for dataset details and reuse information.
Sample data for analysis of period/frequency gradient and phase gradient in spreadouts, ex vivo models of somitogenesis
<p>Here are timelapse imaging (as .tif) of a dynamic Notch signaling reporter (i.e. LuVeLu) in spreadouts, ex vivo models of somitogenesis. Also here are the corresponding period and phase wavelet movies, generated using a wavelet analysis workflow developed by Gregor Mönke. These sample data are used to run an accompanying Python script, available at: <a href="https://github.com/PGLSanchez/EMBL_OscillationsAnalysis/tree/master/FrequencyPhase_GradientSlopeAnalysis">https://github.com/PGLSanchez/EMBL_OscillationsAnalysis/tree/master/FrequencyPhase_GradientSlopeAnalysis</a></p>
Labeling and tracking of immune cells in ex vivo human skin
<p>Example imaging datasets linked to the publication 'Labeling and tracking of immune cells in ex vivo human skin' (doi: 10.1038/s41596-020-00435-8).</p> <p>Additional information filenames:<br> - m = ex vivo murine skin<br> - h = ex vivo human skin<br> - mCD8= anti-murine CD8-AF594 nanobody staining (red)<br> - hCD8= anti-human CD8-AF594 nanobody staining (red)<br> - Hoechst= Hoechst 33342 staining (grey)<br> - CD1a= anti-hCD1a-AF488 staining (green)<br> - CD103= anti-hCD103-AF488 staining (green)<br> - SHG = second harmonic generation (cyan)</p> <p>Imaris x64 v9.2.0.</p>
Combined single-cell quantitation of host and SIV genes and proteins ex vivo reveals host-pathogen interactions in individual cells
<p>Single cell gene expression data for the paper "Combined single-cell quantitation of host and SIV genes and proteins ex vivo reveals host-pathogen interactions in individual cells" to appear in PLOS Pathogens.</p> <p>Package contains two single cell data sets, one consisting of single cells from PBMCs in three animals, and the other three tissues from one animal.</p> <p>The single-cells are grouped based on the SIV viral genes that they express.</p> <p> </p>
Accumulation of 3-aminopropylphosphonate in the ex vivo brain observed by phosphorus-31 nuclear magnetic resonance
<p>This dataset contains primary data for DOI: 10.1002/nbm.4721</p><p>NMR in Biomedicine. 2022; 35(8):e4721</p><p>Title: Accumulation of 3-aminopropylphosphonate in the ex vivo brain observed by phosphorus-31 nuclear magnetic resonance</p><p>Authors: David Shaul, Benjamin Grieb, Naama Lev-Cohain, Jacob Sosna, J. Moshe Gomori, Rachel Katz-Brull</p><p> </p><p>These primary datasets contain data presented in the above publication and consist of 31P-NMR spectra. </p><p> </p><p>Please consult the Archive Guide.</p>
ScienceDex guides
Understand access before you commit
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.