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274 results for “Spheroid”
Supplementary Material for A Global Analysis of Dark Matter Signals from 27 Dwarf Spheroidal Galaxies using 11 Years of Fermi-LAT Observations
<p><strong>Description of the Supplementary Data</strong></p> <p>This record contains tabulated Bayesian and frequentist exclusion limits, profile likelihood maps and posterior probability maps for the publication S. Hoof, A. Geringer-Sameth, and R. Trotta, “<i>A Global Analysis of Dark Matter Signals from 27 Dwarf Spheroidal Galaxies using 11 Years of Fermi-LAT Observations</i>,” <a href="https://doi.org/10.1088/1475-7516/2020/02/012">JCAP 02 (2020) 012</a> (also available on the <a href="https://arxiv.org/abs/1812.06986">arXiv</a>). The dwarf spheroidal galaxies considered in this work are (in alphabetical order): Aquarius II, Boötes I, Canes Venatici I, Canes Venatici II, Carina, Carina II, Coma Berenices, Draco, Draco II, Fornax, Grus I, Hercules, Horologium I, Leo I, Leo II, Leo IV, Leo V, Pegasus III, Pisces II, Reticulum II, Sculptor, Segue 1, Sextans, Tucana II, Ursa Major I, Ursa Major II, and Ursa Minor.</p> <p>This record consists of the following files, which correspond to the limits presented Figures 9 and 10 of the paper. The files can be downloaded individually or obtained by downloading and unpacking the <code>record_2612268.zip</code>. In what follows,<code><strong>[CHANNEL]</strong></code> refers to the annihilation channel used, i.e. <i>e<sup>+</sup> e<sup>-</sup></i>, <i>μ<sup>+</sup> μ<sup>-</sup></i>, <i>τ<sup>+</sup> τ<sup>-</sup></i>, <i>b b̄</i>, <i>c c̄</i>, <i>t t̄</i>, <i>g g</i>, <i>W<sup>+</sup> W<sup>-</sup></i>, and <i>Z Z</i>. We also provide a simple plotting script for <code>Python</code>, named <code>plotting_script.py</code>, which provides basic plotting routines for all files.</p> <ul> <li>One-dimensional limits on <i><σ v></i>. The files <code>oneD_frequentist_limits_<strong>[CHANNEL]</strong>_channel.txt</code> contain the frequentist limits (at 95% confidence level, 1 degree of freedom) given the value of the WIMP mass <i>m<sub>χ</sub></i> tabulated there. The files <code>oneD_Bayesian_limits_<strong>[CHANNEL]</strong>_channel.txt</code> contain the Bayesian limit (95% credibility conditioned on the mass <i>m<sub>χ</sub></i> tabulated there).</li> <li>Two-dimensional grid of profile likelihood values. The files <code>twoD_profile_likelihood_map_<strong>[CHANNEL]</strong>_channel.txt</code> contain the natural logarithm of the profile likelihood w.r.t. the global best-fit likelihood value for that channel together with the corresponding values of <i>m<sub>χ</sub></i> and <i><σ v></i>. Note that for obtaining the limits in Fig. 10, which are conditioned on the WIMP mass, one needs to rescale the profile likelihood values with the maximum profile likelihood for a given WIMP mass.</li> <li>Two-dimensional grid of posterior probabilities for each combination of <i>m<sub>χ</sub></i> and <i><σ v></i>. The files <code>twoD_posterior_probability_map_<strong>[CHANNEL]</strong>_channel.txt</code> contain probabilities (obtained using a log-uniform prior on <i><σ v></i>) together with the corresponding values of <i>m<sub>χ</sub></i> and <i><σ v></i>. The tabulated values of <i>m<sub>χ</sub></i> and <i><σ v></i> correspond to the centres of the respective bins in <i>m<sub>χ</sub></i> and <i><σ v></i> and the posterior probability contained in them (the total posterior probability sums to 1).</li> </ul> <p>Please contact the authors if you require different data or have any questions regarding this data set.</p>
Microwave single scattering properties of non-spheroidal rain drops
<p>The database contains single scattering properties (SSP) of non-spheroidal droplets. They were modeled using the parameterization by Chuang and Beard (1990) which make use of Chebyshev polynomials. Spherical and spheroidal drop are also included for reference. The spheroidal drops are set to have the same aspect ratio as the Chebyshev drops.</p> <p>The frequency and temperature grid is identical to the one used for the SSP database presented in Eriksson et al. (2018). Frequencies range from 1 to 886.4 GHz and 5 temperatures from 230 to 310 K are included. Sizes range from 10 μm to 5.75 mm, with logarithmic spacing up to 1 mm and linear spacing above 1 mm in steps of 0.25 mm. Note that below 788 μm the Chebyshev drops are essentially spherical, and are therefore not included. At sizes below 788 μm the spheroidal drop SSP can be used instead.</p> <p>A manuscript (Ekelund et al., 2020) has been submitted to Atmospheric Measurement Techniques, which will serve as the main documentation of the data.</p> <p>Database Specifications:</p> <p>Format:<br> NetCDF4</p> <p>Version:<br> 1.0.0</p> <p>Shapes:<br> Chebyshev (non-spheroidal), spheroidal, sphere.</p> <p>Diameter grid (um):<br> 1.00, 1.27, 1.61, 2.04, 2.59, 3.29, 4.18, 5.30, 6.72, 8.53, 10.83, 13.74, 17.43, 22.12, 28.07, 35.62, 45.20, 57.36, 72.79, 92.37, 117.21, 148.74, 188.74, 239.50, 303.92, 385.66, 489.39, 621.02, 788.05, 1000.00, 1250.00, 1500.00, 1750.00, 2000.00, 2250.00, 2500.00, 2750.00, 3000.00, 3250.00, 3500.00, 3750.00, 4000.00, 4250.00, 4500.00, 4750.00, 5000.00, 5250.00, 5500.00, 5750.00.</p> <p>Frequency grid (GHz):<br> 1.00, 1.40, 3.00, 5.00, 7.00, 9.00, 10.00, 13.40, 15.00, 18.60, 24.00, 31.30, 31.50, 35.60, 50.10, 57.60, 88.80, 94.10, 115.30, 122.20, 164.10, 166.90, 175.30, 191.30, 228.00, 247.20, 314.20, 336.10, 439.30, 456.70, 657.30, 670.70, 862.40, 886.40.</p> <p>Temperature grid (K):<br> 230, 250, 270, 290, 310.</p> <p>References:</p> <p>Ekelund, R., Eriksson, P., and Kahnert, M.: Microwave single scattering properties of non-spheroidal rain drops, Atmos. Meas. Tech. Discuss., https://doi.org/10.5194/amt-2020-85, in review, 2020.</p> <p>Eriksson, P., Ekelund, R., Mendrok, J., Brath, M., Lemke, O., and Buehler, S. A.: A general database of hydrometeor single scattering properties at microwave and sub-millimetre wavelengths, Earth Syst. Sci. Data, 10, 1301–1326, https://doi.org/10.5194/essd-10-1301-2018, 2018.</p>
Brightfield images of cells and spheroids in wells annotated with bounding boxes
<p>The images in this dataset show cells in different developmental stages upon forming spheroids. They can go through several developmental sages: Starting from cells, they turninto compacted objects and then into spheroids. Ultimately, they can die and disintegrate. The objects are annotated with bounding boxes that carry these respective labels. The dataset in its current form can be upload to an OMERO server using the omero-cli-transfer package - simply download the zip file, log into your omero server and use the `omero transfer unpack` command as shown on the <a href="https://github.com/ome/omero-cli-transfer">omero-cli-transfer documentation</a>.</p> <p>The dataset can be used to train object detection models such as a <a href="https://docs.ultralytics.com/models/yolov8/">yolo classifier </a>- the linked repository provides a tutorial on how to do so.</p>
Active Foam Dynamics of Tissue Spheroid Fusion (Datasets and scripts)
<p>The file attached supporting information for the paper "Active Foam Dynamics of Tissue Spheroid Fusion". Included are data from experiments, data from simulations, and a singularity image to execute a demo simulation similarly to the ones of the paper. </p>
Generation of beta-like cell subtypes from differentiated human induced pluripotent stem cells in 3D spheroids
<p>This repository contains single-cell RNA-sequencing data files (raw FASTQ files generated from Illumina HiSeq sequencing) related to the article entitled "Generation of beta-like cell subtypes from differentiated human induced pluripotent stem cells in 3D spheroids" by Lisa Morisseau et al. (2023) published in the Molecular Omics journal (DOI: 10.1039/d3mo00050h).</p> <p> </p>
Experimental Results of "Bioprinting Cell- and Spheroid-Laden Protein-Engineered Hydrogels as Tissue-on-Chip Platforms"
<p>This repository contains the experimental results of the article "Bioprinting Cell- and Spheroid-Laden Protein-Engineered Hydrogels as Tissue-on-Chip Platforms" by Duarte Campos, D., Lindsay, C., Roth, J., LeSavage, B., Seymour, A., Krajina, B., Ribeiro, R., Costa, P., Heilshorn, S., published in <em>Front. bioeng. biotechnol. </em><strong>8, 374</strong> (2020). https://doi.org/10.3389/fbioe.2020.00374</p>
A quantitative analysis of the interplay of environment, neighborhood and cell state in 3D spheroids - Dataset
<p>This is the umbrella archive that contains all the datasets and code associated with:</p> <p><strong>A quantitative analysis of the interplay of environment, neighborhood, and cell state in 3D spheroids</strong></p> <p> Vito RT Zanotelli<br> Matthias Leutenegger<br> Xiao‐Kang Lun<br> Fanny Georgi<br> Natalie de Souza<br> Bernd Bodenmiller</p> <p><em>Mol Syst Biol. (2020) 16: e9798</em><br> <a href="https://doi.org/10.15252/msb.20209798">https://doi.org/10.15252/msb.20209798</a></p> <p><em>Please cite this article if you re-use any of the data or code.</em></p> <p>Datasets:</p> <ul> <li>Brightfield plate images: Contains all plate acquisitions for the individual sphere plates before pooling <ul> <li>4 cellline experiment: <ul> <li>p173: <a href="http://doi.org/10.5281/zenodo.3991929">10.5281/zenodo.3991929</a></li> <li>p176: <a href="http://doi.org/10.5281/zenodo.3991931">10.5281/zenodo.3991931</a></li> </ul> </li> <li>Overexpression experiment: <ul> <li>p161: <a href="http://doi.org/10.5281/zenodo.3991925">10.5281/zenodo.3991925</a></li> <li>p165: <a href="http://doi.org/10.5281/zenodo.3991927">10.5281/zenodo.3991927</a><br> </li> </ul> </li> </ul> </li> <li>Slidescan images: Contains all fluorescent slidescan images of the cuts derived from the pooled spheroid sample blocks <ul> <li>4 cellline experiment: <ul> <li>p173: <a href="http://doi.org/10.5281/zenodo.3991921">10.5281/zenodo.3991921</a></li> <li>p176: <a href="http://doi.org/10.5281/zenodo.3991923">10.5281/zenodo.3991923</a></li> </ul> </li> <li>Overexpression experiment: <ul> <li>p161: <a href="http://doi.org/10.5281/zenodo.4066430">10.5281/zenodo.4066430</a></li> <li>p165: <a href="http://doi.org/10.5281/zenodo.3991919">10.5281/zenodo.3991919</a><br> </li> </ul> </li> </ul> </li> <li>Spillover acquisitions: Contains all spillover acquisitions associated with the two experiments: <ul> <li>4 cellline experiment: <ul> <li>p173/p176: <a href="http://doi.org/10.5281/zenodo.3991945">10.5281/zenodo.3991945</a></li> </ul> </li> <li>Overexpression experiment: <ul> <li>p161/p165: <a href="http://doi.org/10.5281/zenodo.3991947">10.5281/zenodo.3991947</a><br> </li> </ul> </li> </ul> </li> <li>Imaging mass cytometry acquisitions: <ul> <li>4 cellline experiment: <ul> <li>p173: <a href="http://doi.org/10.5281/zenodo.3991937">10.5281/zenodo.3991937</a></li> <li>p176: <a href="http://doi.org/10.5281/zenodo.3991939">10.5281/zenodo.3991939</a></li> </ul> </li> <li>Overexpression experiment: <ul> <li>p161: <a href="http://doi.org/10.5281/zenodo.3991933">10.5281/zenodo.3991933</a></li> <li>p165: <a href="http://doi.org/10.5281/zenodo.3991935">10.5281/zenodo.3991935</a><br> </li> </ul> </li> </ul> </li> <li>Processed data set: <ul> <li>4 cellline experiment: <a href="https://doi.org/10.5281/zenodo.3991942">10.5281/zenodo.3991942</a></li> <li>Overexpression experiment: <a href="http://doi.org/10.5281/zenodo.4271917">10.5281/zenodo.4271917</a></li> </ul> </li> </ul> <p>Code:</p> <p>A snakemake pipeline to reproduce the analyses from this raw data can be found at: <a href="http://github.com/BodenmillerGroup/SpheroidPublication">http://github.com/BodenmillerGroup/SpheroidPublication</a></p> <p>A version already containing all the containers can be found at: <a href="http://doi.org/10.5281/zenodo.4071861">10.5281/zenodo.4071861</a></p> <p> </p>
Gastric cancer spheroid
<p>3D<em> in vitro</em> culture of gastric cancer cells stably transfected with a mEmerald vector that stains a membrane protein.</p> <p>Image acquired at Light-sheet microscope, 488 laser, Nikon Plan Fluor 10x NA 0.3, step size (voxel) of 5 um</p>
An extended stellar halo discovered in Fornax dwarf spheroidal using Gaia EDR3
<p>We provide the catalog of Fornax member candidate, including the three final samples, as well as the data of surface density profiles, see the example python code of loading the data, as well as the explanation of each quantity.</p>
Dataset and code for paper "An automated quantification tool for angiogenic sprouting from endothelial spheroids"
<p>This repository contains raw data and code for the manuscript with DOI: 10.3389/fphar.2022.883083</p>
Text-fig. 14. Photomicrographs of thin sections of specimen BP/16/1732 Palmoxylon dutoitii from Mhengere Hill, Gorongosa, Mozambique. a: transverse section (TS) with four fibre vascular bundles (fvb) and poorly preserved parenchyma between; b: diagram of one of the fvbs in (a) of the reniform type (f – fibres, mx – metaxylum, p – phloem, px – protoxylum); c: close up of the vascular part of a fvb with 2 metaxylem elements and the collapsed cells to the lower left represents the phloem; d: fvb with 2 metaxylem elements, fibrous part to the left and parencymarous ground tissue to the right; e: lower magnification of fvb in (c); f: fvb with three metaxylem elements and phloem patch below; g: longitudinal section (LS) showing the vascular sections alternating with the fibrous sections; h: LS showing the horizontal thickening on the walls of the metaxylem vessels and a patch of parenchyma to the right (darker cells); i: spheroid echinate phytoliths that are typical of Hyphaene and Borassus. in Stratigraphy, Chronology And Palaeontology Of The Tertiary Rocks Of The Cheringoma Plateau, Mozambique
Text-fig. 14. Photomicrographs of thin sections of specimen BP/16/1732 Palmoxylon dutoitii from Mhengere Hill, Gorongosa, Mozambique. a: transverse section (TS) with four fibre vascular bundles (fvb) and poorly preserved parenchyma between; b: diagram of one of the fvbs in (a) of the reniform type (f – fibres, mx – metaxylum, p – phloem, px – protoxylum); c: close up of the vascular part of a fvb with 2 metaxylem elements and the collapsed cells to the lower left represents the phloem; d: fvb with 2 metaxylem elements, fibrous part to the left and parencymarous ground tissue to the right; e: lower magnification of fvb in (c); f: fvb with three metaxylem elements and phloem patch below; g: longitudinal section (LS) showing the vascular sections alternating with the fibrous sections; h: LS showing the horizontal thickening on the walls of the metaxylem vessels and a patch of parenchyma to the right (darker cells); i: spheroid echinate phytoliths that are typical of Hyphaene and Borassus.
Fig. 5 in Two New Species of Spheroid Ectoparasitic Isopods (Epicaridea: Dajidae) Attached to the Antennules of Brachyuran Crab Hosts, with Description of a New Genus and Species of Hyperparasite (Epicaridea: Cryptoniscoidea)
Fig. 5. Akrophryxus acinaces sp. nov., paratype cryptoniscus larva (A–J; SMBL-V0651), SEM. A, Ventral view; B, lateral view; C, ventral view of cephalon showing antennules, mouthparts and first pereopods; D, right pereopod 2; E, left pereopod 3; F, right pereopod 4; G, right pereopods 5–7; H, lateral view of pereomeres 6 and 7 showing distinct notch and indentation; I, multifid setae of left pereopod 4; J, multifid setae of left pereopod 7; K, posterior end, ventral view. Scale bars: 100 µm (A, B); 50 µm (C, K); 30 µm (D–F); 20 µm (G); 10 µm (H–J).
Fig. 1 in Two New Species of Spheroid Ectoparasitic Isopods (Epicaridea: Dajidae) Attached to the Antennules of Brachyuran Crab Hosts, with Description of a New Genus and Species of Hyperparasite (Epicaridea: Cryptoniscoidea)
Fig. 1. Akrophryxus acinaces sp. nov., holotype (SMBL-V0649) and paratype (SMBL-V0652) females, attached to the right and left antennules of host, Pycnoplax surugensis (Rathbun, 1932), respectively; images taken while alive. A, Dorsal view; B, en-face view; C, close-up of paratype on left antennule; D, posterior view of holotype attached to host antennule; E, lateral view of holotype, removed from host; F, posterior view of holotype, removed from host. Scale bars: 3 mm (A, B); 1 mm (C–F).
Fig. 9 in Two New Species of Spheroid Ectoparasitic Isopods (Epicaridea: Dajidae) Attached to the Antennules of Brachyuran Crab Hosts, with Description of a New Genus and Species of Hyperparasite (Epicaridea: Cryptoniscoidea)
Fig. 9. Chimaeroniscus spheramator gen. et sp. nov., holotype cryptoniscus larva, ZRC 2022.0003. A, Dorsal view (specimen broken across pleomere 2); B, right antennule; C, left antenna; D, left pereopod 1; E, left pereopod 3; F, left pereopod 7; G, terminal pleomere, dorsal view; H, left uropod, dorsal view; I, left pleopod 2. Scale bars: 200 µm (A); 50 µm (B–I).
Fig. 8 in Two New Species of Spheroid Ectoparasitic Isopods (Epicaridea: Dajidae) Attached to the Antennules of Brachyuran Crab Hosts, with Description of a New Genus and Species of Hyperparasite (Epicaridea: Cryptoniscoidea)
Fig. 8. Akrophryxus pallipalicus sp. nov., allotype male (A–D), ZRC 2022.0002. A, Dorsal view; B, dorsal view; antenna; C, left antennule (A1), antenna (A2), and pereopod 1; D, right pereopod 6. Scale bars: 100 µm (A, B); 50 µm (C, D).
Fig. 3 in Two New Species of Spheroid Ectoparasitic Isopods (Epicaridea: Dajidae) Attached to the Antennules of Brachyuran Crab Hosts, with Description of a New Genus and Species of Hyperparasite (Epicaridea: Cryptoniscoidea)
Fig. 3. Akrophryxus acinaces sp. nov., paratype female (A, B: SMBL-V0652) and holotype female (C-M: SMBL-V0649). A, View of pereopods clutching host antennule (pereopods 1 and 5 labeled); B, view of pereopods, mouth (Mo), antenna (An), and oostegite 1 (O1); C, left pereopods 2–5, labeled with numbers; D, left pereopod 1, insets show scales and setae of pereopod 1; E, lateral view of left antenna; F, dorsal view of left antenna; G, left maxilliped, lateral view, arrow shows digitiform extension inserted in fold of oostegite 1 shown in I; H, left maxilliped, ventral view, arrow shows digitiform extension; I, left oostegite 1, lateral view showing fold where digitiform extension of maxilliped resides; J, left oostegite 1, ventral view; K, left oostegite 2; L, left oostegite 3; M, left oostegite 4. Scale bars: 500 µm (A, B); 250 µm (C–M); 10 µm (D inset).
Fig. 7 in Two New Species of Spheroid Ectoparasitic Isopods (Epicaridea: Dajidae) Attached to the Antennules of Brachyuran Crab Hosts, with Description of a New Genus and Species of Hyperparasite (Epicaridea: Cryptoniscoidea)
Fig. 7. Akrophryxus pallipalicus sp. nov., holotype female, ZRC 2022.0001, attached to antennule of Parapalicus armatus Castro, 2000 (ZRC 2016.0412). A, Lateral view; B, top down view; C, anterior view; D, lateral view of dissected specimen showing host antennule in-situ, circles indicate developing eggs in ovary; E, view of left antenna (An), mouth (Mo), and anterior end of keel (ke); F, left maxilliped, ventral view, arrow shows digitiform extension inserted in fold of oostegite 1 shown in I; G, left maxilliped, lateral view, arrow shows digitiform extension; H, left oostegite 1, lateral view showing fold where digitiform extension of maxilliped resides; I, left oostegite 1, ventral view; J, left pereopod 1 (inset shows scales); K, left pereopod 5. Scale bars: 500 µm (A–D); 1 mm (E); 250 µm (F–I); 50 µm (J, K); 10 µm (J inset).
Fig. 2 in Two New Species of Spheroid Ectoparasitic Isopods (Epicaridea: Dajidae) Attached to the Antennules of Brachyuran Crab Hosts, with Description of a New Genus and Species of Hyperparasite (Epicaridea: Cryptoniscoidea)
Fig. 2. Akrophryxus acinaces sp. nov., holotype female (SMBL-V0649) attached to Pycnoplax surugensis (Rathbun, 1932). A, Posterior view; B, lateral view; C, anterior view (opposite side to that shown in A), host antennule facing viewer; D, top down view; E, lateral view of dissect- ed specimen shown host antennule in-situ (Mo=Mouth), dashed circles show developing eggs in ovary; F, lateral view of dissected specimen with antennule removed, dashed circles show developing eggs in ovary; G, host antennule removed from holotype. Scale bars: 1 mm (A–F).
Fig. 4 in Silicified and phosphatized Tianzhushania, spheroidal microfossils of possible animal origin from the Neoproterozoic of South China
Fig. 4. Tianzhushania in thin−section of phosphorites from the Weng'an area. A. Tianzhushania ornata (Xiao and Knoll, 2000) comb. nov., MESIG 10008 (42.1/98.2), cross−section view of specimen lacking the surrounding multilamellar outer covering (arrow in A1 shows position of A2); A2, close−up of A1, showing contour of prominences. B. Tianzhushania sp., MESIG 10008 (59.7/96.2), cross−section view of surface tubercles. C. Tianzhushania sp., MESIG 10007 (19.1/84.3), equatorial view of the tubercular wall.
Fig. 7 in Silicified and phosphatized Tianzhushania, spheroidal microfossils of possible animal origin from the Neoproterozoic of South China
Fig. 7. Phosphatized globular fossils from Doushantuo phosphorites in the Weng'an area. A. MESIG 21070, Tianzhushania ornata (Xiao and Knoll, 2000) comb. nov. with enclosed smooth internal body. B–J. Parapandorina raphospissa Xue et al. 1995. B. MESIG 20296, two−cell stage. C. MESIG 21027, four−cell stage. D. MESIG 20304. E. MESIG 21031. F. MESIG 21033, eight−cell stage. G. MESIG 21037. H. MESIG 20252. I. MESIG 20258. J. MESIG 21129, possible later stages. K, L. Globular fossils with smooth envelope. K. MESIG 20211. L. MESIG 21122.
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.