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473 results for “confocal”
Beyond the Surface: Exploring Ancient Plant Food Processing through Confocal Microscopy and 3D Surface Texture Analysis
<p>This repository contains the raw data and code to reproduce the analyses presented in the paper "Beyond the Surface: Exploring Ancient Plant Food Processing through Confocal Microscopy and 3D Surface Texture Analysis" by Zupancich et al.</p> <p>The repositiory includes:</p> <ul> <li>CSV files containing the raw data of 3D surface measurement of experimental active and passive tools utilised in processing cereals and legumes.</li> <li>Rmarkdown files of the code utilised to perform the analyses</li> </ul>
Confocal data of Loricera adult, NIGP203254, and Loricera larva, BA202301
<div>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices for the adult holotype of <em>Loricera carsteni</em> (NIGP203880) and the larval <em>Loricera </em>specimen BA202301 from mid-Cretaceous Burmese amber. This dataset is associated with the publication "Description of adult and larval <em>Loricera</em> from mid-Cretaceous Kachin amber (Coleoptera: Carabidae)" (DOI:10.11646/palaeoentomology.7.2.10).</div> <div> </div> <div>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 488 nm (Argon) or 561 nm (DPSS 561-10) laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</div>
Confocal and micro-CT data of Toxesbium kundratai, holotype, NIGP203543
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices and X-ray microtomography (micro-CT) slices for the holotype of <em>Toxesbium kundratai</em> (NIGP203543) from mid-Cretaceous Burmese amber. This dataset is associated with the publication "<em>Toxesbium</em> gen. nov., the first definitive member of Ernobiinae from mid-Cretaceous amber of northern Myanmar (Coleoptera: Ptinidae)" (DOI:10.1007/s12542-025-00715-2).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 488 nm (Argon) or 561 nm (DPSS 561-10) laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p> <p>Micro-CT data were obtained with a Zeiss Xradia 520 Versa 3D X-ray microscope. Scanning parameters were as follows: isotropic voxel size, 2.8752 μm; power, 3 W; acceleration voltage, 30 kV; exposure time, 2 s; projections, 3001. The TIFF stack is provided.</p>
Confocal data of Clessidromma palmeri, holotype, NIGP166270
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices for the holotype of <em>Clessidromma palmeri</em> (NIGP166270) from mid-Cretaceous Burmese amber. This dataset is associated with the publication "Revisiting the morphology of the Cretaceous ommatid beetle <em>Clessidromma palmeri</em> (Coleoptera: Archostemata: Ommatidae)" (DOI:10.11606/1807-0205/2021.61.95).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using 488 nm Argon laser excitation line. Both original CZI files and exported TIFF stacks are provided.</p>
Confocal data of Anoeuma lawrencei, NIGP175109 (holotype) and NIGP175110 (paratype)
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices for the type specimens of <em>Anoeuma lawrencei</em> (holotype, NIGP175109, and paratype, NIGP175110) from mid-Cretaceous Burmese amber. This dataset is associated with the publication "An unusual elateroid lineage from mid-Cretaceous Burmese amber (Coleoptera: Elateroidea)" (DOI:10.1038/s41598-021-01398-w).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using 488 nm Argon laser excitation line. Both original CZI files and exported TIFF stacks are provided.</p>
Confocal data of Gracilenticrus burmiticus, holotype, CNU-COL-MA2021001
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices for the holotype of <em>Gracilenticrus burmiticus</em> (CNU-COL-MA2021001) from mid-Cretaceous Burmese amber. This dataset is associated with the publication "A new genus and species of Lophocateridae from mid-Cretaceous amber of Myanmar (Coleoptera)" (DOI:10.3390/insects12121052).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using 488 nm Argon laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p>
Confocal data of Omma forte, holotype, NIGP176634
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices for the holotype of <em>Omma forte</em> (NIGP176634) from mid-Cretaceous Burmese amber. Additional confocal data for <em>Omma</em> cf. <em>manukyani</em> (NIGP176635) are also provided. This dataset is associated with the publication "New species of <em>Omma </em>Newman from mid-Cretaceous Burmese amber (Coleoptera: Archostemata: Ommatidae)" (DOI:10.3897/dez.68.74174).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using 488 nm Argon laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p>
Confocal data of Coslonatus rasnitsyni, holotype, NIGP177330
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices for the holotype of <em>Coslonatus rasnitsyni</em> (NIGP177330) from mid-Cretaceous Burmese amber. This dataset is associated with the publication "An aberrant colydiine-like tenebrionoid from mid-Cretaceous Burmese amber (Coleoptera: Tenebrionoidea: Zopheridae)" (DOI:10.11646/palaeoentomology.4.6.10).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 488 nm Argon laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p>
Confocal and micro-CT data of Basinosa pengweii, holotype, NIGP173119
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices and X-ray microtomography (micro-CT) slices for the holotype of <em>Basinosa pengweii</em> (NIGP173910) from mid-Cretaceous Burmese amber.</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using 488 nm Argon laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p> <p>Micro-CT data were obtained with a Zeiss Xradia 520 Versa 3D X-ray microscope. Scanning parameters were as follows: isotropic voxel size, 16.919 μm; power, 5 W; acceleration voltage, 60 kV; exposure time, 2 s; projections, 2001. The TIFF stack is provided.</p>
Confocal and micro-CT data of Mesonosa scandens, holotype, NIGP173928
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices and X-ray microtomography (micro-CT) slices for the holotype of <em>Mesonosa scandens</em> (NIGP173928) from mid-Cretaceous Burmese amber.</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using 488 nm Argon laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p> <p>Micro-CT data were obtained with a Zeiss Xradia 520 Versa 3D X-ray microscope. Scanning parameters were as follows: isotropic voxel size, 6.7745 μm; power, 4 W; acceleration voltage, 50 kV; exposure time, 2 s; projections, 2501. The TIFF stack is provided.</p>
Confocal and micro-CT data of Archaenosodendron spp.
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices for holotypes of <em>Archaenosodendron cretaceum</em> (CNU-COL-MA-0321), <em>Archaenosodendron explanatum</em> (NIGP177613), <em>Archaenosodendron remotidens </em>(NIGP177614) and <em>Archaenosodendron angulare</em> (NIGP177615), and X-ray microtomography (micro-CT) slices for the holotype of <em>Archaenosodendron explanatum</em>. This dataset is associated with the publication "On the Nosodendridae from mid-Cretaceous amber of northern Myanmar (Coleoptera: Nosodendroidea)" (DOI:10.11646/zootaxa.5082.3.2).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 488 nm Argon laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p> <p>Micro-CT data were obtained with a Zeiss Xradia 520 Versa 3D X-ray microscope. Scanning parameters were as follows: isotropic voxel size, 4.4634 μm; power, 3 W; acceleration voltage, 40 kV; exposure time, 4 s; projections, 2501. The TIFF stack is provided.</p>
Confocal data of Vetubrachypsectra spp.
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices for holotypes of <em>Vetubrachypsectra huchengi</em> (NIGP177984) and <em>Vetubrachypsectra burmitica</em> (NIGP170326). This dataset is associated with the publication "A new species of <em>Vetubrachypsectra </em>from mid-Cretaceous amber of northern Myanmar (Coleoptera: Brachypsectridae)" (DOI:10.3390/insects13020122).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 488 nm (Argon; for <em>V. huchengi</em>) or 561 nm (DPSS 561-10; for <em>V. burmitica</em>) laser excitation lines. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p>
Confocal images of rDRG neurons overexpressing human GDAP1 and its R120W and H123R variants
<p>Original confocal images for panels in Figure 6 in Sutinen et al. (2022). The images correspond to rDRG primary neurons overexpressing RFP or human GDAP1 (wild-type, R120W, H123R variants). Included is a Zip file with 16 TIFF files, one for each panel. </p>
Confocal and micro-CT data of Nothotytthonyx serratus, holotype, NIGP179427
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices and X-ray microtomography (micro-CT) slices for the holotype of <em>Nothotytthonyx serratus</em> (NIGP179427) from mid-Cretaceous Burmese amber. This dataset is associated with the publication "<em>Nothotytthonyx</em>, a new genus of Malthininae (Coleoptera: Cantharidae) from mid-Cretaceous amber of northern Myanmar" (DOI:10.3897/zookeys.1092.81701).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 488 nm (Argon) or 561 nm (DPSS 561-10) laser excitation lines. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p> <p>Micro-CT data were obtained with a Zeiss Xradia 520 Versa 3D X-ray microscope. Scanning parameters were as follows: isotropic voxel size, 6.1511 μm; power, 4 W; acceleration voltage, 50 kV; exposure time, 1.5 s; projections, 2401. The TIFF stack is provided.</p>
Confocal data of Vetuprostomis spp.
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices for holotypes of <em>Vetuprostomis angularis</em> (NIGP177984) and <em>Vetuprostomis gaoi</em> (NIGP170326). This dataset is associated with the publication "New species of <em>Vetuprostomis </em>from mid-Cretaceous amber of northern Myanmar (Coleoptera: Tenebrionoidea: Prostomidae)" (DOI:10.11646/zootaxa.5125.5.6).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 488 nm (Argon; for V. <em>angularis</em>) or 561 nm (DPSS 561-10; for <em>V. gaoi</em>) laser excitation lines. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p>
Confocal and micro-CT data of Rhomeocalpsua torosa, holotype, NIGP180054
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices and X-ray microtomography (micro-CT) slices for the holotype of <em>Rhomeocalpsua torosa</em> (NIGP180054) from mid-Cretaceous Burmese amber. This dataset is associated with the publication "<em>Rhomeocalpsua torosa</em> gen. et sp. nov., a unique lineage of Endomychidae from mid‑Cretaceous Burmese amber (Coleoptera: Coccinelloidea)" (DOI:10.11646/palaeoentomology.5.2.7).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 488 nm (Argon) or 566 nm (DPSS 561-10) laser excitation lines. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p> <p>Micro-CT data were obtained with a Zeiss Xradia 520 Versa 3D X-ray microscope. Scanning parameters were as follows: isotropic voxel size, 1.9324 μm; power, 4 W; acceleration voltage, 50 kV; exposure time, 1.5 s; projections, 3001. The TIFF stack is provided.</p>
Confocal and micro-CT data of Cretakarenni shaoi, holotype, NIGP177331
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices and X-ray microtomography (micro-CT) slices for the holotype of <em>Cretakarenni shaoi</em> (NIGP177331) from mid-Cretaceous Burmese amber. Additional confocal data for <em>Cretakarenni birmanicus</em> (QUST-INSECT-0003) are also provided. This dataset is associated with the publication "Minute clubbed beetles with cephalic horns in mid-Cretaceous amber from northern Myanmar (Coleoptera: Monotomidae)" (DOI:10.11865/zs.2022206).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 488 nm Argon laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p> <p>Micro-CT data were obtained with a Zeiss Xradia 520 Versa 3D X-ray microscope. Scanning parameters were as follows: isotropic voxel size, 2.0815 μm; power, 4 W; acceleration voltage, 50 kV; exposure time, 3 s; projections, 2801. The TIFF stack is provided.</p>
Confocal data of Anomocephalobus liuhaoi, holotype, NIGP177044
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices for the holotype of <em>Anomocephalobus liuhaoi</em> (NIGP177044) from mid-Cretaceous Burmese amber. Additional confocal data for <em>Erichia cretacea</em> (CNU-COL-BR2014808) are also provided. This dataset is associated with the publication "<em>Anomocephalobus</em>, a new genus of minute marsh-loving beetles from mid-Cretaceous Burmese amber (Coleoptera: Limnichidae)" (DOI:10.1590/S1984-4689.v39.e21030).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 488 nm Argon laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p>
3D+time nuclei tracking dataset of confocal fluorescence microscopy time series of C. elegans embryos
<p>The dataset consists of 3 confocal microscopy time series of <em>C. elegans</em> embryos, fully tracked with StarryNite followed by manual curation</p> <ul> <li>3 raw time-series and the corresponding tracks/lineage trees</li> <li>temporal resolution; 75s</li> <li>temporal extent: 400 frames, tracked for at least 370 frames</li> <li>spatial resolution (zyx): 0.75 x 0.15 x 0.15 μm</li> <li>spatial extent (zyx):/ 41 x 512 x 512px</li> <li>Microscope: Zeiss Axio Observer.Z1</li> </ul> <p>The annotations were created using the method described in:</p> <p><em> Santella, A., Du, Z. & Bao, Z. A semi-local neighborhood-based framework for probabilistic cell lineage tracing. BMC Bioinformatics 15, 217 (2014). <a href="https://doi.org/10.1186/1471-2105-15-217">https://doi.org/10.1186/1471-2105-15-217</a></em></p> <p>Additionally the data was extended and used for the development of a new tracking method in the following publication:</p> <p><em> Hirsch, P., Malin-Mayor C., Santella, A., Preibisch, S., Kainmueller, D., Funke, J. Tracking by weakly-supervised learning and graph optimization for whole-embryo C. elegans lineages. MICCAI 2022.</em></p> <p>For questions please contact Peter Hirsch (<a href="mailto:peter.hirsch@mdc-berlin.de">peterhirsch@posteo.de</a>).</p>
Confocal data of Homalenchodes jarzembowskii, holotype, NIGP180475
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices for the holotype of <em>Homalenchodes</em> <em>jarzembowskii</em> (NIGP180475) from mid-Cretaceous Burmese amber. This dataset is associated with the publication "<em>Homalenchodes</em>, a new genus of Serropalpini from mid-Cretaceous amber of northern Myanmar (Coleoptera: Tenebrionoidea: Melandryidae)" (DOI:10.11646/palaeoentomology.5.3.7).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 561 nm (DPSS 561-10) laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p>
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.