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324 results for “fluorescent imaging”
Figure 12 in Taxonomic synthesis of the eastern North American millipede genus Pseudopolydesmus (Diplopoda: Polydesmida: Polydesmidae), utilizing high-detail ultraviolet fluorescence imaging
Figure 12. Gonopod of Pseudopolydesmus erasus (FMNH INS3120685, scanning electron micrograph). A, right gonopod, ectal view. B, right gonopod, medial view.
Figure 8. Body ring 7 in Taxonomic synthesis of the eastern North American millipede genus Pseudopolydesmus (Diplopoda: Polydesmida: Polydesmidae), utilizing high-detail ultraviolet fluorescence imaging
Figure 8. Body ring 7 in adult male Pseudopolydesmus serratus, posterior view, showing gonopods and sternal tubercles of leg pair 9 (FMNH INS8238, ultraviolet enhancement). Note the prominent transverse ridge between processes e2 and m2 in the gonopods of Ps. serratus.
Figure 9 in Taxonomic synthesis of the eastern North American millipede genus Pseudopolydesmus (Diplopoda: Polydesmida: Polydesmidae), utilizing high-detail ultraviolet fluorescence imaging
Figure 9. Pseudopolydesmus erasus, metatergite and paranota of body ring 9. Adult male (FMNH INS3120685, ultraviolet enhancement).
Figure 4 in Taxonomic synthesis of the eastern North American millipede genus Pseudopolydesmus (Diplopoda: Polydesmida: Polydesmidae), utilizing high-detail ultraviolet fluorescence imaging
Figure 4. Schematic diagram of metatergite and ozopore bearing paranota of Pseudopolydesmus, dorsal view. Blisters: Anterior Blister (AB); Median Blister Row (MB1, MB2); Posterior Blister Row (PB1, PB2, PB3); Central Blister (CB); and Lateral Blister (LB). Paranota Corners: Anterior Medial Corner (AMC), at the medial terminus of the Paranota Leading Edge; Anterior Lateral Corner (ALC), at the anteriormost denticle; Posterior Lateral Corner (PLC), usually forms a natural point; Posterior Medial Corner (PMC), at the caudal apex of PB3. Short vertical and oblique lines represent positions of tergal setae and the small circles in each LB represent the ozopores.
Figure 3 in Taxonomic synthesis of the eastern North American millipede genus Pseudopolydesmus (Diplopoda: Polydesmida: Polydesmidae), utilizing high-detail ultraviolet fluorescence imaging
Figure 3. Schematic diagram of right gonopod telopodite of Pseudopolydesmus canadensis, medial view. Ectal processes labelled e1, e2, e3, and e4. Medial processes labelled m1, m2, m3, and m4. After R.L. Hoffman, 1974 (fig. 3).
Figure 5 in Taxonomic synthesis of the eastern North American millipede genus Pseudopolydesmus (Diplopoda: Polydesmida: Polydesmidae), utilizing high-detail ultraviolet fluorescence imaging
Figure 5. Features of the telopodite terminus in Pseudopolydesmus (scanning electron micrograph). A, terminal bristles in Pseudopolydesmus canadensis right gonopod, ectal view (FMNH INS6934). Unlike true setae, these bristles are not socketed at the base; instead, they project continuously from the cuticle of the telopodite. B, terminal bifurcation in Pseudopolydesmus serratus left gonopod, medial view (FMNH INS2819).
Figure 23 in Taxonomic synthesis of the eastern North American millipede genus Pseudopolydesmus (Diplopoda: Polydesmida: Polydesmidae), utilizing high-detail ultraviolet fluorescence imaging
Figure 23. Gonopod of Pseudopolydesmus minor. Holotype, Polydesmus euthetus (USNM). A, right gonopod, ectal view. B, right gonopod, medial view.
Figure 21 in Taxonomic synthesis of the eastern North American millipede genus Pseudopolydesmus (Diplopoda: Polydesmida: Polydesmidae), utilizing high-detail ultraviolet fluorescence imaging
Figure 21. Pseudopolydesmus minor, metatergite and paranota of body ring 10. Holotype, Polydesmus euthetus (USNM, ultraviolet enhancement).
Figure 20 in Taxonomic synthesis of the eastern North American millipede genus Pseudopolydesmus (Diplopoda: Polydesmida: Polydesmidae), utilizing high-detail ultraviolet fluorescence imaging
Figure 20. Gonopod of Pseudopolydesmus pinetorum (FMNH INS1445, scanning electron micrograph). A, left gonopod, ectal view. B, left gonopod, medial view. Both images mirrored to appear as right gonopod.
Live-cell imaging data set of HaCaT FUCCI cells with BF/DIC and fluorescence
<p>This dataset contains time-lapse acquisitions of HaCaT FUCCI cells cultured in 8-well chambered coverslips with fluorobrite media. Cells were provided by Dr. Francesco Pasqualini and Dr. Moises di Sante (<a title="http://www.syntheticphysiologylab.com/" href="http://www.syntheticphysiologylab.com/" target="_blank" rel="noreferrer noopener">http://www.syntheticphysiologylab.com</a>), and videos acquired at the Henriques Lab (<a title="https://henriqueslab.org/" href="https://henriqueslab.org/" target="_blank" rel="noreferrer noopener">https://henriqueslab.org/</a>). </p> <p>HaCaT_FUCCI_BF-live set: Nikon Ti2, Channels BF (16 bit), FITC (12 bit sensitive) and Cy5 (12 bit sensitive). 20 positions, acquired in Nikon Ti2 with a 20x/0.8, every 30 minutes for 18 hours. </p> <p><span>HaCaT_FUCCI_DIC-live set: Nikon Ti2, Channels DIC, FITC and Cy5 (all 12 bit sensitive). 20 positions, acquired in Nikon Ti2 with a 20x/0.8, every 30 minutes for 18 hours. </span></p>
Synthetic images of fluorescent spots and ground truth data
<p>Synthetical images of fluorescent spots and ground truth data created with the simcep software.</p>
Example data for "A 6-nm ultra-photostable DNA FluoroCube for fluorescence imaging"
<p>This project is described in: A 6-nm ultra-photostable DNA FluoroCube for fluorescence imaging (2019) and can be found on BioRxiv: <a href="https://www.biorxiv.org/content/10.1101/716787v1">https://www.biorxiv.org/content/10.1101/716787v1</a> and at Nature Methods: <a href="https://www.nature.com/articles/s41592-020-0782-3">https://www.nature.com/articles/s41592-020-0782-3</a></p> <p>Here, we provide example raw datasets of the DNA FluoroCubes with six dyes, Single Dye Cubes, one dye double-stranded DNA constructs, single, biotinylated dyes, and Compact Cube used to determine the photophysical properties.</p> <p>In the zip folder you will find the following datasets with raw, example total internal reflection fluorescence (TIRF) microscopy movies:</p> <p>- FluoroCube_Movies which includes the following movies:<br> - ATTO-488_FluoroCube<br> - ATTO-565_FluoroCube<br> - ATTO-647N_FluoroCube<br> - Cy3_FluoroCube<br> - Cy3N_FluoroCube<br> - Cy5_FluoroCube<br> <br> - Single-Dye-Cube_AND_dsDNA_Movies which includes the following movies:<br> - ATTO-488_dsDNA_single-dye<br> - ATTO-488_Single-Dye-Cube_single-dye<br> - ATTO-565_dsDNA_single-dye<br> - ATTO-565_Single-Dye-Cube_single-dye<br> - ATTO-647N_dsDNA_single-dye<br> - ATTO-647N_Single-Dye-Cube_single-dye<br> - Cy3_dsDNA_single-dye<br> - Cy3_Single-Dye-Cube_single-dye<br> - Cy3N_dsDNA_single-dye<br> - Cy3N_Single-Dye-Cube_single-dye<br> - Cy5_dsDNA_single-dye<br> - Cy5_Single-Dye-Cube_single-dye<br> <br> - Single-biotinylated-dye_AND_dsDNA_Movies which includes the following movies:<br> - ATTO-488_dsDNA_single-dye<br> - ATTO-488_single-biotinylated-dye<br> - ATTO-647N_dsDNA_single-dye<br> - ATTO-647N_single-biotinylated-dye<br> - Cy3_dsDNA_single-dye<br> - Cy3_single-biotinylated-dye<br> <br> - Cy3N_Single-Dye-Cube_all-positions_Movies which includes the following movies:<br> - Cy3N_Single-Dye-Cube_SDC-01_single-dye<br> - Cy3N_Single-Dye-Cube_SDC-02_single-dye<br> - Cy3N_Single-Dye-Cube_SDC-03_single-dye<br> - Cy3N_Single-Dye-Cube_SDC-04_single-dye<br> - Cy3N_Single-Dye-Cube_SDC-05_single-dye<br> - Cy3N_Single-Dye-Cube_SDC-06_single-dye<br> <br> - Compact-Cube_Movies which includes the following movies:<br> - Cy3_FluoroCube_six-dyes<br> - Cy3_Single-Dye-Cube_single-dye<br> - Cy3_Compact-Cube_six-dyes<br> - Cy3_Compact-Cube_single-dye</p>
FIG. 5 in Improving Vertebrate Skeleton Images: Fluorescence and the Non-Permanent Mounting of Cleared-and-Stained Specimens
FIG. 5. Cleared-and-stained, glycerine-gelatin embedded gill arches (with right upper gill arches removed) of Trachinotus carolinus (KUI 20087) under white light from (A) dorsal, (B) ventral, and (C) lateral view highlighting the value of fixing the specimen in position, so it can be imaged from multiple angles. The arrow highlights the third hypobranchial process. Scale bar is equal to 5 mm.
FIG. 3 in Improving Vertebrate Skeleton Images: Fluorescence and the Non-Permanent Mounting of Cleared-and-Stained Specimens
FIG. 3. American Society of Ichthyologists and Herpetologists logo recreated by embedding cleared-and-stained specimens of Hippocampus erectus (KUI 5107; left) and Anolis sp. (KUH uncat.; right) in a glycerinegelatin matrix and imaging under fluorescence. The ASIH crest was added digitally.
FIG. 2 in Improving Vertebrate Skeleton Images: Fluorescence and the Non-Permanent Mounting of Cleared-and-Stained Specimens
FIG. 2. Comparisons under different lighting regimes of a cleared-andstained specimen of Bathymaster signatus (SIO 93-174; A, C, E, and G) and a fossilized specimen of †Tanaocrossus kalliokoskii (UMNH VP 22905; B, D, F, and H). The specimens are shown under (A–B) white lighting, (C–D) red fluorescence, and (E–F) green fluorescence. For the specimen of Bathymaster, these lighting regimes allow researchers to explore the relationship between soft-tissue and bony canals. This exploration is exemplified in the combined image (G) where the red fluorescent image is placed in the R channel and the green fluorescent image is placed in the G channel to combine these two images. For the specimen of †Tanaocrossus, these lighting regimes highlight the fluorescent fossil material relative to the non-fluorescent matrix (D, F). The images taken under white and fluorescent lighting can then be combined to illustrate the (H) fossilized material with the matrix removed by using the black areas of the fluorescent images as a mask to remove the matrix from the white light image. Scale bar is equal to 5 mm. Abbreviation: pt ¼ pterotic.
FIG. 1 in Improving Vertebrate Skeleton Images: Fluorescence and the Non-Permanent Mounting of Cleared-and-Stained Specimens
FIG. 1. Comparisons of cleared-andstained fishes under white and fluorescent lighting. Dorsal view of the head of Porichthys notatus (KUI 18136) under (A) white and (B) fluorescent lighting highlighting the separation (arrows) of the ascending process of the premaxilla from the remainder of the bone. A magnified version of the separation is provided in the inset. Lateral view of Lyopsetta exilis (KUI 28289) under (C) white and (D) fluorescent lighting illustrating the value of fluorescence for ''amplifying'' lightly alizarin-redstained bone. Lateral view of the head of Neomerinthe hemingwayi (AMNH 83911) under (E) white and (F) fluorescent lighting demonstrating the value of fluorescence for quickly recognizing skeletal-element limits. Scale bar is equal to 5 mm. Abbreviations: l ¼ lachrymal, le ¼ lateral extrascapular, q ¼ quadrate, 2 ¼ second circumorbital bone, and 3 ¼ third circumorbital bone.
FIG. 4 in Improving Vertebrate Skeleton Images: Fluorescence and the Non-Permanent Mounting of Cleared-and-Stained Specimens
FIG. 4. Cleared-and-stained specimen of Eumicrotremus orbis (SIO 94- 208) under white light (upper) and fluorescent light (lower). This specimen was embedded in a glycerine-gelatin matrix with the tail bent and mouth open to pose the specimen for a rostral view, which would be otherwise challenging due to the flaccidity of the specimen. Scale bar is equal to 5 mm.
Data from: Improving automated annotation of benthic survey images using wide-band fluorescence
Large-scale imaging techniques are used increasingly for ecological surveys. However, manual analysis can be prohibitively expensive, creating a bottleneck between collected images and desired data-products. This bottleneck is particularly severe for benthic surveys, where millions of images are obtained each year. Recent automated annotation methods may provide a solution, but reflectance images do not always contain sufficient information for adequate classification accuracy. In this work, the FluorIS, a low-cost modified consumer camera, was used to capture wide-band wide-field-of-view fluorescence images during a field deployment in Eilat, Israel. The fluorescence images were registered with standard reflectance images, and an automated annotation method based on convolutional neural networks was developed. Our results demonstrate a 22% reduction of classification error-rate when using both images types compared to only using reflectance images. The improvements were large, in particular, for coral reef genera Platygyra, Acropora and Millepora, where classification recall improved by 38%, 33%, and 41%, respectively. We conclude that convolutional neural networks can be used to combine reflectance and fluorescence imagery in order to significantly improve automated annotation accuracy and reduce the manual annotation bottleneck.
(11)-Strobl2023A-DS0001--0010 – Ten Tribolium castaneum long-term live imaging datasets of embryonic development acquired with light sheet fluorescence microscopy
<p>(11)-Strobl2023A-DS0001--0010 – Ten <em>Tribolium castaneum</em> long-term live imaging datasets of embryonic development acquired with light sheet fluorescence microscopy</p>
Vacuole fusion in fluorescent images training data
<p>Fluorescent image training data for classification tasks associated with the paper ‘<strong><em>Automated quantification of vacuole fusion and lipophagy in Saccharomyces cerevisiae from fluorescence and cryo-soft X-ray microscopy data using deep learning</em></strong>’ https://doi.org/10.1101/2023.02.27.530171</p> <p>All images contain a ROI with FM4-64 and BODIPY 493/503 channels. Images are placed in folders corresponding to their respective classes.</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.