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9 results for “open microscopy”
РИС. 3. Раковины Зрелых глохидиев Beringiana beringiana в раЗных ракурсах: А–С – Закрытые раковины, вид со стороны створки (А), вентрального угла (В) и лигамента (С); D–F – полностью открытые раковины, вид иЗнутри (D), снаруЖи (E) и боковых краев створок (F); G, H – приоткрытые раковины, стрелка укаЗывает на остатки волокон мускулаЗамыкателЯ. МасштабнаЯ линейка 100 мкм. СканируюЩаЯ ЭлектроннаЯ микроскопиЯ. FIG. 3. Mature glochidial shells of Beringiana beringiana from different angles of view: A–C – closed shells, view from the valve side (A), ventral angle (B), and ligament (C); D–F – open shells, interior view (D), exterior view (E), and from lateral margins of valves (F); G, H – ajar shells, the arrows indicate the remains of the adductor muscle fibers. Scale bar 100 µm. Scanning electron microscopy. in Первые данные о морфологии глохидиев двустворчатых моллюсков Beringiana beringiana (Bivalvia, Unionidae) оЗера Дальнее, Камчатка
РИС. 3. Раковины Зрелых глохидиев Beringiana beringiana в раЗных ракурсах: А–С – Закрытые раковины, вид со стороны створки (А), вентрального угла (В) и лигамента (С); D–F – полностью открытые раковины, вид иЗнутри (D), снаруЖи (E) и боковых краев створок (F); G, H – приоткрытые раковины, стрелка укаЗывает на остатки волокон мускулаЗамыкателЯ. МасштабнаЯ линейка 100 мкм. СканируюЩаЯ ЭлектроннаЯ микроскопиЯ. FIG. 3. Mature glochidial shells of Beringiana beringiana from different angles of view: A–C – closed shells, view from the valve side (A), ventral angle (B), and ligament (C); D–F – open shells, interior view (D), exterior view (E), and from lateral margins of valves (F); G, H – ajar shells, the arrows indicate the remains of the adductor muscle fibers. Scale bar 100 µm. Scanning electron microscopy.
◂Fig. 1 Morphology of thecate and coccoid cells, with labelled thecal plates. a–c, i, m Light microscopy, d–h, k–l scanning electron microscopy. a Ventral view of strain GeoM*788; b dorsal view of strain GeoM*793; c apical view of strain GeoK*044; d ventral view of strain GeoK*037; e dorsal view of strain GeoM*788; f apical view of strain GeoK*024, with the dehiscence of epithecal opening indicated by a blue line; g antapical view of strain GeoK*044; h leftlateral view of strain GeoM*866; i motile cell of strain GeoK*037; k–m coccoid cells showing variability in shape and size of strains k GeoM*866, l GeoM*793 and m GeoK*024. Abbreviations: n′: apical plate, n′′: precingular plate, n′′′: postcingular plate, n′′′′: antapical plate, na: anterior intercalary plate, nC: cingular plate, Sa: anterior sulcal plate, Sd: right sulcal plate, Sp: posterior sulcal plate. Ss: left sulcal plate. Scale bar: 10 µm. UA: 15 kV in Morphological and molecular variability of Peridinium volzii Lemmerm. (Peridiniaceae, Dinophyceae) and its relevance for infraspecific taxonomy
◂Fig. 1 Morphology of thecate and coccoid cells, with labelled thecal plates. a–c, i, m Light microscopy, d–h, k–l scanning electron microscopy. a Ventral view of strain GeoM*788; b dorsal view of strain GeoM*793; c apical view of strain GeoK*044; d ventral view of strain GeoK*037; e dorsal view of strain GeoM*788; f apical view of strain GeoK*024, with the dehiscence of epithecal opening indicated by a blue line; g antapical view of strain GeoK*044; h leftlateral view of strain GeoM*866; i motile cell of strain GeoK*037; k–m coccoid cells showing variability in shape and size of strains k GeoM*866, l GeoM*793 and m GeoK*024. Abbreviations: n′: apical plate, n′′: precingular plate, n′′′: postcingular plate, n′′′′: antapical plate, na: anterior intercalary plate, nC: cingular plate, Sa: anterior sulcal plate, Sd: right sulcal plate, Sp: posterior sulcal plate. Ss: left sulcal plate. Scale bar: 10 µm. UA: 15 kV
Source data belonging to "Visualisation of dCas9 target search in vivo using an open-microscopy framework"
<p>Source data corresponding to "Visualisation of dCas9 target search <em>in vivo</em> using an open-microscopy framework". Contains pTarget and pNonTarget raw datasets, as well as all localization data, cell UV intensity data, cell outline data, and analysed diffusion coefficient lists.</p>
Text-fig. 48. Scanning electron microscope (SEM, a, b, d–i) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c) images of "One-seeded fruit sp. 2" (a–c), "Unassigned, unnamed fruits" (d–f), Pazliopsis sp. (g, h) and "Follicular fruit with exotestal seeds" (i); Catefica locality, Portugal. a) Lateral view of fruit showing remains of tepals (te) and a single stamen (st); b) Detail of fruit surface showing short, scale-like, peltate trichomes (arrows); c) Transverse section (orthoslice xy0475) of fruit containing a single seed showing tepals (te) and fruit surface with peltate trichomes (arrow); note partial preservation of internal nutritive tissue; d) Fruit in lateral view showing the almost smooth epidermis with scattered openings; e) Detail of fruit surface from (d) showing the scattered openings in the epidermis interpreted as burst secretory cells (arrows); f) Dorsi-ventral view of tiny fruit with an irregular surface; g) Lateral view of exotestal seed assigned to cf. Pazliopsis sp.; h) Detail of fruit surface of seed in (g) showing faint facets of outer palisade layer with fine jigsaw-puzzle outlines of the anticlinal walls; i) Lateral view of fragmentary follicular fruit showing two exposed exotestal seeds. Specimens, Catefica 153-S174314 (a–c), Catefica 50-S170420 (d, e), Catefica 152-S174300 (f), Catefica 49-S172319 (g, h), Catefica MM158-P0272 (i). Scale bars = 300 Μm (a, c, d, f, g, i), 100 Μm (e), 50 Μm (b, h). in The Early Cretaceous Mesofossil Flora Of Catefica, Portugal: Angiosperms
Text-fig. 48. Scanning electron microscope (SEM, a, b, d–i) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c) images of "One-seeded fruit sp. 2" (a–c), "Unassigned, unnamed fruits" (d–f), Pazliopsis sp. (g, h) and "Follicular fruit with exotestal seeds" (i); Catefica locality, Portugal. a) Lateral view of fruit showing remains of tepals (te) and a single stamen (st); b) Detail of fruit surface showing short, scale-like, peltate trichomes (arrows); c) Transverse section (orthoslice xy0475) of fruit containing a single seed showing tepals (te) and fruit surface with peltate trichomes (arrow); note partial preservation of internal nutritive tissue; d) Fruit in lateral view showing the almost smooth epidermis with scattered openings; e) Detail of fruit surface from (d) showing the scattered openings in the epidermis interpreted as burst secretory cells (arrows); f) Dorsi-ventral view of tiny fruit with an irregular surface; g) Lateral view of exotestal seed assigned to cf. Pazliopsis sp.; h) Detail of fruit surface of seed in (g) showing faint facets of outer palisade layer with fine jigsaw-puzzle outlines of the anticlinal walls; i) Lateral view of fragmentary follicular fruit showing two exposed exotestal seeds. Specimens, Catefica 153-S174314 (a–c), Catefica 50-S170420 (d, e), Catefica 152-S174300 (f), Catefica 49-S172319 (g, h), Catefica MM158-P0272 (i). Scale bars = 300 Μm (a, c, d, f, g, i), 100 Μm (e), 50 Μm (b, h).
Data from: Open-top Bessel beam two-photon light sheet microscopy for three-dimensional pathology
Open the record for dataset details and reuse information.
Open Microscopy Data
<p>Raw data and rules to participate in an opinion article on open microscopy data crowdsourced over Twitter.</p>
Data underlying "EVE is an open modular data analysis software for event-based localization microscopy"
<p>Data underlying the manuscript "EVE is an open modular data analysis software for event-based localization microscopy"</p> <p>Contains raw EBS-recorded SMLM (eveSMLM) data of DNA-PAINT nanoruler, E.coli cell, and aTubulin network in Cos-7 cells (3D and high density acquisitions).</p>
MMV_Im2Im: An Open Source Microscopy Machine Vision Toolbox for Image-to-Image Transformation
<p>This dataset contains trained deep learning models and sample data for the manuscript "MMV_Im2Im: An Open Source Microscopy Machine Vision Toolbox for Image-to-Image Transformation". Please find the software and more information including tutorials here: https://github.com/MMV-Lab/mmv_im2im.</p><p> </p><p>sample_data.zip includes the following datasets:</p><ul><li>Labelfree prediction of nuclear structure from 2D/3D brighteld images<ul><li>2D<ul><li><a href="https://zenodo.org/record/6139958#.Y78QJKrMLtU">https://zenodo.org/record/6139958#.Y78QJKrMLtU</a></li><li><a href="https://zenodo.org/record/6140064#.Y78YeqrMLtU">https://zenodo.org/record/6140064#.Y78YeqrMLtU</a></li><li>Both repositories have a Creative Commons Attribution 4.0 International License</li></ul></li><li>3D<ul><li><a href="https://open.quiltdata.com/b/allencell/packages/aics/hipsc_single_cell_image_dataset">https://open.quiltdata.com/b/allencell/packages/aics/hipsc_single_cell_image_dataset</a></li><li>Terms of use: <a href="https://www.allencell.org/terms-of-use.html">https://www.allencell.org/terms-of-use.html</a></li><li>"Your use of the Content, including creation of derivative works of the services, data and tools, must be for research or other noncommercial purposes unless it is otherwise set forth in these Terms or agreed to in writing by the Allen Institute."</li></ul></li></ul></li><li>2D semantic segmentation of tissues from H&E images<ul><li><a href="https://www.kaggle.com/datasets/sani84/glasmiccai2015-gland-segmentation">https://www.kaggle.com/datasets/sani84/glasmiccai2015-gland-segmentation</a></li><li>"<strong>The dataset used in this competition is provided for research purposes only. Commercial uses are not allowed.</strong><br>If you intend to publish research work that uses this dataset, you must cite our review paper to be published after the competition"</li></ul></li><li>Instance segmentation<ul><li>2D<ul><li><a href="https://bbbc.broadinstitute.org/BBBC010">https://bbbc.broadinstitute.org/BBBC010</a></li><li>Terms of use: <a href="https://bbbc.broadinstitute.org/">https://bbbc.broadinstitute.org/</a></li><li>"Researchers are encouraged to use these image sets as reference points when developing, testing, and publishing new image analysis algorithms for the life sciences."</li></ul></li><li>3D<ul><li><a href="https://open.quiltdata.com/b/allencell/packages/aics/hipsc_single_cell_image_dataset">https://open.quiltdata.com/b/allencell/packages/aics/hipsc_single_cell_image_dataset</a></li><li>Terms of use: <a href="https://www.allencell.org/terms-of-use.html">https://www.allencell.org/terms-of-use.html</a></li><li>"Your use of the Content, including creation of derivative works of the services, data and tools, must be for research or other noncommercial purposes unless it is otherwise set forth in these Terms or agreed to in writing by the Allen Institute."</li></ul></li></ul></li><li>Compare semantic segmentation and instance segmentation<ul><li><a href="https://open.quiltdata.com/b/allencell/packages/aics/hipsc_single_cell_image_dataset">https://open.quiltdata.com/b/allencell/packages/aics/hipsc_single_cell_image_dataset</a></li><li>Terms of use: <a href="https://www.allencell.org/terms-of-use.html">https://www.allencell.org/terms-of-use.html</a></li><li>"Your use of the Content, including creation of derivative works of the services, data and tools, must be for research or other noncommercial purposes unless it is otherwise set forth in these Terms or agreed to in writing by the Allen Institute."</li></ul></li><li>Unsupervised semantic segmentation<ul><li><a href="https://open.quiltdata.com/b/allencell/packages/aics/hipsc_single_cell_image_dataset">https://open.quiltdata.com/b/allencell/packages/aics/hipsc_single_cell_image_dataset</a></li><li>Terms of use: <a href="https://www.allencell.org/terms-of-use.html">https://www.allencell.org/terms-of-use.html</a></li><li>"Your use of the Content, including creation of derivative works of the services, data and tools, must be for research or other noncommercial purposes unless it is otherwise set forth in these Terms or agreed to in writing by the Allen Institute."</li></ul></li><li>Generating synthetic images<ul><li><a href="https://open.quiltdata.com/b/allencell/packages/aics/hipsc_single_cell_image_dataset">https://open.quiltdata.com/b/allencell/packages/aics/hipsc_single_cell_image_dataset</a></li><li>Terms of use: <a href="https://www.allencell.org/terms-of-use.html">https://www.allencell.org/terms-of-use.html</a></li><li>"Your use of the Content, including creation of derivative works of the services, data and tools, must be for research or other noncommercial purposes unless it is otherwise set forth in these Terms or agreed to in writing by the Allen Institute."</li></ul></li><li>Image denoising<ul><li><a href="https://csbdeep.bioimagecomputing.com/scenarios/">https://csbdeep.bioimagecomputing.com/scenarios/</a></li><li>Two datasets: "Denoising in 3D (Planaria nuclei)" and "Denoising in 3D (Tribolium nuclei)"</li><li>Terms of use: <a href="http://csbdeep.bioimagecomputing.com/">http://csbdeep.bioimagecomputing.com/</a></li><li>"The entire CSBDeep toolbox is fully open source and intended to be used from either Python or <a href="https://fiji.sc">Fiji</a>."</li></ul></li><li>Imaging modality transformation<ul><li><a href="https://zenodo.org/record/4624364#.Y9bWOoHMIqJ">https://zenodo.org/record/4624364#.Y9bWOoHMIqJ</a></li><li>Two datasets: "Confocal_2_STED.zip" (Microtubule and Nuclear_Pore_complex)</li><li>Repository has a Creative Commons Attribution 4.0 International License</li></ul></li><li>Staining transformation:<ul><li><a href="https://zenodo.org/record/4751737#.Y9gbv4HMLVZ">https://zenodo.org/record/4751737#.Y9gbv4HMLVZ</a></li><li>Dataset "BC-DeepLIIF_Training_Set.zip" and "BC-DeepLIIF_Validation_Set.zip"</li><li>Repository has a Creative Commons Attribution 4.0 International License</li></ul></li></ul><p> </p>
◂Fig. 5 Cells of phylogenetically related strains (light microscopy). a Thecate cell in dorsal view. b Thecate cell in ventral view, note the sulcus extending onto the epitheca (arrow). c Putatively necrotic, thecate cell. d Thecate cell with one bulge on the epitheca (arrow), note that this was the only such cell among thousands of inspected cells. e, f Coccoid cells, apparently without thecae. g Two thecate cells enclosed in the parental theca. h Two connected, immotile cells enclosed in the parental thecae. j Lid of epitheca in dorsal-apical view (mirrored), composed of plates 2′‒4′, all intercalary plates and plates 2′′‒6′′. l‒m Same opened theca in ventral view (l) and dorsal view (m), note the sulcus extending onto the epitheca (arrow), the dorsal opening and all apical and all intercalary plates and plates 3′′‒5′′ remaining with the hypotheca. n Chloroplasts (as inferred from autofluorescence), note the space occupied by the nucleus. Plate labelling follows the Kofoidean notation, n′: apical plate; n′′: precingular plate; n′′′: postcingular plate; na: anterior intercalary plate. Scale= 10 µm in Bumps on the back: An unusual morphology in phylogenetically distinct Peridinium aff. cinctum (= Peridinium tuberosum; Peridiniales, Dinophyceae)
◂Fig. 5 Cells of phylogenetically related strains (light microscopy). a Thecate cell in dorsal view. b Thecate cell in ventral view, note the sulcus extending onto the epitheca (arrow). c Putatively necrotic, thecate cell. d Thecate cell with one bulge on the epitheca (arrow), note that this was the only such cell among thousands of inspected cells. e, f Coccoid cells, apparently without thecae. g Two thecate cells enclosed in the parental theca. h Two connected, immotile cells enclosed in the parental thecae. j Lid of epitheca in dorsal-apical view (mirrored), composed of plates 2′‒4′, all intercalary plates and plates 2′′‒6′′. l‒m Same opened theca in ventral view (l) and dorsal view (m), note the sulcus extending onto the epitheca (arrow), the dorsal opening and all apical and all intercalary plates and plates 3′′‒5′′ remaining with the hypotheca. n Chloroplasts (as inferred from autofluorescence), note the space occupied by the nucleus. Plate labelling follows the Kofoidean notation, n′: apical plate; n′′: precingular plate; n′′′: postcingular plate; na: anterior intercalary plate. Scale= 10 µm
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.