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2,481 results for “zebrafish”
Zebrafish Embryos Imaging Data for Virtual Orientation Tools Article
<p>The zebrafish embryos were imaged in a 96-well plate using an Acquifer IM (Bruker, Heidelberg), an automated fluorescence widefield screening microscope, and a Nikon objective</p>
Fig 7 in Recycling and repurposing food waste as feed for small-scale zebrafish (Danio rerio) aquaculture
Fig 7: From manual counts of selected tissue sections of zebrafish fed increasing proportions of food waste-based Converted Fish Flakes (CFF) for 32 days. Average number of goblet cells in intestine sections (A) and average number of hepatocytes with vacuolar lipid accumulation in liver sections (B). Error bars represent ± one standard deviation, n=3. Groups with the same asterisk (* or **) share the same level of statistical significance
Fig 3 in Recycling and repurposing food waste as feed for small-scale zebrafish (Danio rerio) aquaculture
Fig 3: Growth in zebrafish-fed diets with increasing proportions of Converted Fish Flakes (CFF) for 32 days. Average percent change in weight in Trial 1 (A) and Trial 2 (B). Average percent change in length in Trial 1 (C) and Trial 2 (D). Error bars represent ± one standard deviation, n=3. Groups with the same asterisk (* or **) share the same level of statistical significance, groups without an asterisk share both levels.
Fig 6 in Recycling and repurposing food waste as feed for small-scale zebrafish (Danio rerio) aquaculture
Fig 6: Representative images from sample of zebrafish fed with increasing proportions of food waste-based Converted Fish Flakes (CFF) for 32 days sent for histological analysis of intestine (paraffin embedding, 5 µm sections, stained with Hemotoxylin & Eosin and Sudan IV) of intestines of male (A-C); and female (D-F); liver of males (G-I) and liver of females (J-L)
Fig 2 in Recycling and repurposing food waste as feed for small-scale zebrafish (Danio rerio) aquaculture
Fig 2: Survival of zebrafish that were fed with diets of increasing proportions of food waste-based CFF in Trial 1 (A) and Trial 2 (B).
Figure 5 in Recycling and repurposing food waste as feed for small-scale zebrafish (Danio rerio) aquaculture
Figure 5. Average VSI in zebrafish-fed diets containing increasing proportions of Converted Fish Flakes (CFF) for 32 days. n=3. Error bars represent ± one standard deviation. No significant difference was found between groups using a Kruskal-Wallis test
Fig 4 in Recycling and repurposing food waste as feed for small-scale zebrafish (Danio rerio) aquaculture
Fig 4: Average fecundity (A) and embryo survival rates (B) in zebrafish fed with diets containing increasing proportions of Converted Fish Flakes (CFF) for 32 days. n=3. Error bars represent ± one standard deviation. No significant difference was found between groups using a oneway ANOVA
Fig 1 in Recycling and repurposing food waste as feed for small-scale zebrafish (Danio rerio) aquaculture
Fig 1: Collection and production of food waste-based feed for a small-scale aquaculture study using zebrafish. (A & B) Some parts of food, such as peels, rinds, and stems, are separated during food preparation as pre-consumer food waste and are collected in designated bins to reduce contamination with undesirable materials such as paper, plastic, and chemicals. (C) To produce palatable and consistent feed, only a few food items were selected and processed. After collection food was frozen, then cooked, and portioned to contain 38% protein by weight. The cooked portions were then processed with a food processor into a smooth paste, which was dried in a dehydrator (D) to produce Converted Fish Flakes (CFF). (E-F) Commercial egg yolk fish flakes from pentair (E), Mixtures of CFF with commercial egg yolk fish flakes at different ratios of 25% (F), 50% (G) and 100% (H).
Figure 4 in Use of melatonin as an inhibitor of apoptotic process for cryopreservation of zebrafish (Danio rerio) embryos
Figure 4. Representative images of zebrafish (Danio rerio) embryos showing reactive oxygen species (ROS) formation (A-D) and DNA fragmentation (E-H) following vitrification for the control group and vitrified treatments with 0, 1 µM and 1 mM melatonin respectively. Arrows and arrow heads point to tissues affected in the body axis and those in close proximity to the yolk respectively.
Figure 3 in Use of melatonin as an inhibitor of apoptotic process for cryopreservation of zebrafish (Danio rerio) embryos
Figure 3. Percentage area of zebrafish (Danio rerio) embryos affected by reactive oxygen species (ROS) formation and DNA fragmentation after vitrification for the control group and vitrified treatments with 0, 1 µM and 1 mM melatonin respectively. Bars with different letter within the same assay were significantly different from one another (P <0.05).
Figure 2 in Use of melatonin as an inhibitor of apoptotic process for cryopreservation of zebrafish (Danio rerio) embryos
Figure 2. Bax, bcl-2 and caspase-3 mRNA expression levels in zebrafish (Danio rerio) embryos for the control group and vitrified treatments with 0, 1 µM and 1 mM melatonin respectively obtained by the 2-∆∆CT method. Boxes with same letter are not significantly different from one another (P> 0.05).
Figure 1 in Use of melatonin as an inhibitor of apoptotic process for cryopreservation of zebrafish (Danio rerio) embryos
Figure 1. Representative scanning electron micrographs of vitrified and non-vitrified zebrafish (Danio rerio) embryos. (A) Control group; (B-D) Vitrified with 0, 1 µM and 1 mM melatonin respectively. Arrows, arrow head and asterisk point to invaginations and perforations, rupture of the vitelline membrane and wrinkling of the epidermis respectively.
ImageInLife20180126IP07Levraud_zebrafish SINVGFP daily lowmag
<p>Zebrafish larva infected at 3dpf with virus SINV18(GFP)</p> <p>imaged every day; laterally and dorsally, with EVOS widefield microscope, 4X obj, Z-stack on GFP channel</p> <p>1 of 4 replicates (#4)</p> <p>processed data (flattened, merged and stitched image)</p>
Time-lapse (4D) volumetric fluorescence microscopy image sequence of a living zebrafish embryo
<p>The dataset contains a time-lapse (4D) volumetric fluorescence microscopy image sequence of a living zebrafish embryo (cxcr4aMO). The sequence has been captured with a confocal laser-scanning microscope during zebrafish gastrulation and shows endodermal cells that have been fluorescently labelled.</p> <p>The sequence is best viewed with Fiji (https://fiji.sc/) and can be loaded into Matlab with tiffread.m (http://www.cytosim.org/misc/index.html).</p> <p>For the treatment of the specimen see:</p> <p>S. Nair and T. F. Schilling. Chemokine signaling controls endodermal migration during zebrafish gastrulation. Science, 322(5898):89–92, October 2008.</p>
HRAS_GFP zebrafish Embryo z-stack and 3D reconstruction visualized through LSFM
<p>A 2dpf zebrafish larvae is imaged through a custom developed LSFM setup developed at ICFO, at the Super-resolution Light microscopy and Nanoscopy (SLN) facility, with a resolution of 1 um, and with a double illumnation scheme.</p> <p>Pixel size is 0.43 um. Voxel depth is 2 um.</p> <p>The transgenic line is expressing HRAS_GFP labeling.</p> <p>The z-stack and corresponding 3D reconstruction are showed.</p> <p> </p> <p> </p>
Enrichment of gene sets altered in dram1 mutant zebrafish larvae
<p>Enrichment of gene sets altered in dram1 mutant zebrafish larvae.</p> <p>A. Gene Ontology categories significantly over and underrepresented in the significant genes differentially regulated between <em>dram1</em><sup>∆19n/∆19n </sup>PBS-injected mutants compared to <em>dram1</em><sup>+/+</sup> larvae.</p> <p>B. Gene sets from the MSigDB C2 database significantly positively correlated to the <em>dram1</em><sup>∆19n/∆19n </sup>mutants transcriptome compared to <em>dram1</em><sup>+/+</sup> larvae.</p> <p>C. Gene sets from the MSigDB C2 database significantly negatively correlated to the <em>dram1</em><sup>∆19n/∆19n </sup>mutants transcriptome compared to <em>dram1</em><sup>+/+</sup> larvae.</p>
3dpf zebrafish larvae, 96 well plate,Tg(wt1b:EGFP), dorsal view, ACQUIFER Imaging Machine
<p>Datasets originate from internal test runs at ACQUIFER on the Imaging Machine (see also application note on "<a href="https://www.acquifer.de/downloads/Clicktoolappnote_ImagingMachine.pdf">The ACQUIFER PlateViewer: A tool for visualizing high content screening data and supervised feedback microscopy</a>")</p> <p>The datasets contain images acquired from 96 <em>Tg(wt1b:EGFP)</em> embryos at 3 dpf aligned in agarose cavities generated with 3d printed orientation tools (<a href="https://rdcu.be/byto9">Wittbrodt, Jonas N., Urban Liebel, and Jochen Gehrig. "Generation of orientation tools for automated zebrafish screening assays using desktop 3D printing." <em>BMC biotechnology</em> 14.1 (2014): 36.</a>):</p> <p>- 2x, 4x, 10x views</p> <p>- for each well (e.g. <em>A001</em>) a multi-color z-stack was acquired, with N z-slices (SL<em>NNN</em>) in two channels: BF (CO<em>6</em>) and GFP (CO<em>3</em>)</p> <p>Example file name containing metadata: -<strong><em>A001-</em></strong>-PO01--LO001--<em><strong>CO3</strong></em>--<em><strong>SL001</strong></em>--PX32500--PW0100--IN0100--TM281--X014580--Y011262--Z210710--T0200256066--WE00001.tif</p> <p>Used also as benchmark dataset for Multi-Template Matching by Thomas, LSV and Gehrig, J</p> <p>See implementation in Fiji <a href="https://github.com/LauLauThom/MultipleTemplateMatching">https://github.com/LauLauThom/MultipleTemplateMatching</a></p> <p>and in KNIME <a href="https://github.com/LauLauThom/MultipleTemplateMatching-KNIME">https://github.com/LauLauThom/MultipleTemplateMatching-KNIME</a></p> <p>Contact:</p> <p>j.gehrig(at)acquifer.de, l.thomas(at)acquifer.de</p> <p> </p> <p><strong>Ethic statement</strong></p> <p>The work presented does not involve work with animals according to German and European<br> legislation. All experiments have been performed at stages prior to the legal onset of animal life.<br> To obtain zebrafish embryos and larvae, fish were maintained in closed stocks at Heidelberg University.<br> Zebrafish husbandry and experiments are under the institutional control of the Universities animal<br> welfare agency. All the zebrafish husbandry and experimental procedures were performed in<br> accordance with the German animal welfare standards (Tierschutzgesetz §11, Abs. 1, Nr. 1, husbandry<br> permit number 35-9185.64/BH Wittbrodt) and in accordance with German and European Union animal<br> welfare guidelines. The fish facility is under the supervision of the local representative of the animal<br> welfare agency.</p>
Figure 1 in Effects of a Spirulina platensis-based diet on zebrafish female reproductive performance and larval survival rate
Figure 1. - Percentage of spawn according to the size of the clutch. Error bars represents standard error mean (SEM). **: p-value ≤ 0.01; FG: Flakes Group; SG: Spirulina platensis Group.
Figure 3 in Effects of a Spirulina platensis-based diet on zebrafish female reproductive performance and larval survival rate
Figure 3. - Larvae survival rate (mean +/- SEM) when larvae are fed with 3 different diets, starting from 7 days post fertilization (0 hour).
Figure 2 in Effects of a Spirulina platensis-based diet on zebrafish female reproductive performance and larval survival rate
Figure 2. - HT50 represents the time required to observe 50% hatched embryos in the two diet groups spawned one (Day 1), five (Day 5) and ten (Day 10) days after diet change. **: p-value ≤ 0.01; ***: p-value ≤ 0.001. Standard errors are represented. FG: Flakes Group; SG: Spirulina platensis Group.
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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.