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4,683 results for “embryonic”
Zellige example dataset: mouse embryonic cochlea stained for F-actin
<p><strong>Mouse embryonic cochlea stained for F-actin at embryonic stage E16.5. </strong></p> <p>The z-stack image encompasses an epithelial surface and a thick mesh of mesenchymal cells. It was acquired with a swept-field confocal microscope (Bruker OpterraII) equipped with a Nikon Plan-Apochromat 60x lens (NA=1.4). Pixel size 0.133 µm, z step <1 µm. This dataset contains both the ground-truth height map and the height map generated with Zellige, along with the parameters used to generate the latter one. The Zellige parameters used are:</p> <p><span class="math-tex">\(T_{A}=1, T_{otsu}=1, S_{min}=5, \sigma_{xy}=4, \sigma_{z}=1, T_{OSE1}=0.1, R_{1}=5, C_{1}=0.7, T_{OSE2}=0.1, R_{2}=10, C_{2}=0.8.\)</span></p> <p>Nota: to compare the ground truth height map with the Zellige height map, one first needs to substrat 1 to all values of the Zellige height map.</p> <p>See the accompanying paper: Extracting multiple surfaces from 3D microscopy images in complex biological tissues with the Zellige software tool. Trébeau <em>et al.</em> 2022: <a href="https://doi.org/10.1101/2022.04.05.485876">https://doi.org/10.1101/2022.04.05.485876</a></p> <p> </p>
Dataset for "Mapping of centriolar proteins onto the post-embryonic lineage of C. elegans"
<p>This is the dataset with all spreadsheets, confocal and wide field microscopy images and related scripts, related to the publication " "Mapping of centriolar proteins onto the post-embryonic lineage of <em>C. elegans</em>". Refer to the Read me file for further information.</p>
Enhancing Thermal Resilience in Delta Smelt: A Comparative Study of Temperature Regimes During Embryonic Development
This dataset contains larval heart rate measurements from hatchery-reared Delta Smelt (Hypomesus transpacificus), a critically endangered species native to the San Francisco Bay-Delta. The data were collected at the UC Davis Fish Conservation Physiology Lab as part of an experiment investigating how early-life exposure to different thermal environments influences cardiac performance and thermal tolerance. Embryos were incubated under three temperature regimes: constant (16°C), controlled diurnal fluctuation (16–20°C), and natural outdoor pond conditions with variable temperatures. Larval heart rate was recorded during an acute thermal ramp using a microscope-mounted camera system to track cardiac activity in real time. These data were collected to assess the physiological plasticity of Delta Smelt and to inform conservation hatchery strategies aimed at enhancing resilience to thermal stress.
Fig. 1 in The Original Published Description Of An Embryonic Apparatus From The Orbitolinidae (Foraminifera) (Lower Cretaceous Of Borneo) With A Brief Commentary On The Age Of Orbitolinid Occurrences In Borneo
Fig. 1 Palorbitolina lenticularis (Blumenbach) from the Lower Cretaceous of Borneo (a-b) and south-eastern France (c-e). a-b transverse section of megalospheric embryo (from Martin, 1890, pl. XXV, fig. 18; b modified: light red = protoconch; light orange = periembryonic ring or zone). c transverse section of the megalospheric embryo (from Schroeder, 1963, pl. 24, fig. 4). d view of cone base, e view of cone surface, f Side view (from Blumenbach, 1805, pl. 80, figs. 5-6, 2, without scale).
Differential effects of early or late exposure to prenatal maternal immune activation on mouse embryonic neurodevelopment
<p>Exposure to maternal immune activation (MIA) in utero is a risk factor for neurodevelopmental and psychiatric disorders. MIA-induced deficits in adolescent and adult offspring have been well characterized, however, less is known about the effects of MIA-exposure on embryo development. To address this gap, we collected high-resolution ex vivo magnetic resonance imaging (MRI) of C57BL/6 mouse embryos (gestational day [GD]18) who were prenatally exposed to MIA either early (GD9) or late (GD17) in gestation. We further examined hippocampal neuroanatomy using electron microscopy and identified differential effects due to MIA-timing. </p> <p>The data published here was collected and analyzed for the following publication available as a preprint on BioRxiv (https://www.biorxiv.org/content/10.1101/2021.07.14.452084v2). Briefly, We identify striking neuroanatomical changes in the embryo brain, particularly in the late exposed offspring. An increase in apoptotic cell density was observed in the GD9 exposed offspring, while an increase in the density of dark neurons and glia, putative markers for increased neuroinflammation and oxidative stress, was observed in GD17 exposed offspring, particularly in females. Overall, our findings integrate imaging techniques across different scales to identify differential impact of MIA-timing on the earliest stages of neurodevelopment.</p> <p>In this dataset, you will find a total of <strong>187 preprocessed structural MRIs </strong>(in MINC format) of whole embryos at gestational day 18. These embryos were exposed to poly I:C or vehicle control (0.9% sterile saline) at GD9 or 17. A multi-channel 7.0-T MRI scanner with a 40 cm diameter bore (Varian Inc., Palo Alto, CA), with a custom-built 16-coil solenoid array was used to acquire T2-weighted, gadolinium enhanced structural images at 40 μm3 resolution images from 16 samples concurrently (3D fast spin echo sequence using a cylindrical k-space acquisition; TR/TE=350/12 ms, echo train length=6, two averages, field-of-view 20 mm x 20 mm x 25 mm, matrix size=504 x 504 x 630).</p> <p>An N4 correction for B1 bias field inhomogeneities and denoising using non-local means (minc_anlm) was applied to the T2-weighted images, and the background was set to zero using minc tools. The demographics information for each animal is included in the <strong>demographics.csv</strong> file. </p> <p>The dorsal hippocampus was selected as a region of interest in which the total number and density of total cells, dark neurons, dark glia, apoptotic cells were assessed (as presented in our manuscript). This is available in the <strong>EM_raw_data_per_slice.csv</strong> and <strong>EM_average_per_mouse.csv </strong>files. </p> <p>Included in this data set are the <strong>structural MRIs in MINC format</strong>, corresponding demographics information (<strong>demographics.csv</strong>), electron microscopy data from the dorsal hippocampus (<strong>EM_raw_data_per_slice.csv</strong> and <strong>EM_average_per_mouse.csv)</strong> data, and a <strong>readme.txt</strong> file providing further detail on the data structure and content, and on how to interpret the data column titles.The raw (not-preprocessed) MINC files, as well as MINC files cropped to the head of the embryos available upon request to the authors. </p> <p>Finally, the authors would like to acknowledge the funding bodies that supported the completion of this work including the Canadian Institute for Health Research, the Fonds de Recherche du Québec en Santé, and the Healthy Brains for Healthy Lives at McGill University.</p>
Fig. 3 in Observations On The Embryonic Development Of Trichuris Sylvilagi (Nematoda, Trichuridae) Under Laboratory Conditions
Fig. 3. Changes in the size of Trichuris sylvilagi eggs during embryogenesis at the temperature of 30 ° C: а — egg length; b — egg width; с — egg plug length; d — egg plug width; е — eggshell thickness (μm). А — zygote stage; В — larval stage; the small squares in the centre corresponds to the median, the lower and upper borders of the large rectangular correspond to the first and the third quartiles, respectively, vertical line segments, directed up and down from the rectangular, correspond to minimum and maximum values; * P <0.05, ** P <0.01, *** P <0.001 — relative to the parameters of eggs at the zygote stage (n = 15).
Fig. 1 in Observations On The Embryonic Development Of Trichuris Sylvilagi (Nematoda, Trichuridae) Under Laboratory Conditions
Fig. 1. Stages of embryonic development Trichuris sylvilagi: а — zygote; b — formation of two blastomeres; с — blastomere cleavage; d — bean-shaped embryo; e — tadpole-shaped embryo; f — larva.
(10)-Strobl2022A-DS0008 – Ceratitis capitata TREhs43-hid^Ala5_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy
<p>(10)-Strobl2022A-DS0008 – <em>Ceratitis capitata</em> TREhs43-hid<sup>Ala5</sup>_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy</p>
(10)-Strobl2022A-DS0004 – Ceratitis capitata TREhs43-hid^Ala5_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy
<p>(10)-Strobl2022A-DS0004 – <em>Ceratitis capitata</em> TREhs43-hid<sup>Ala5</sup>_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy</p>
(10)-Strobl2022A-DS0001 – Ceratitis capitata TREhs43-hid^Ala5_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy
<p>(10)-Strobl2022A-DS0001 – <em>Ceratitis capitata</em> TREhs43-hid<sup>Ala5</sup>_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy</p>
(10)-Strobl2022A-DS0003 – Ceratitis capitata TREhs43-hid^Ala5_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy
<p>(10)-Strobl2022A-DS0003 – <em>Ceratitis capitata</em> TREhs43-hid<sup>Ala5</sup>_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy</p>
(10)-Strobl2022A-DS0002 – Ceratitis capitata TREhs43-hid^Ala5_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy
<p>(10)-Strobl2022A-DS0002 – <em>Ceratitis capitata</em> TREhs43-hid<sup>Ala5</sup>_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy</p>
(10)-Strobl2022A-DS0007 – Ceratitis capitata TREhs43-hid^Ala5_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy
<p>(10)-Strobl2022A-DS0007 – <em>Ceratitis capitata</em> TREhs43-hid<sup>Ala5</sup>_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy</p>
(10)-Strobl2022A-DS0009 – Ceratitis capitata TREhs43-hid^Ala5_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy
<p>(10)-Strobl2022A-DS0009 – <em>Ceratitis capitata</em> TREhs43-hid<sup>Ala5</sup>_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy</p>
(10)-Strobl2022A-DS0006 – Ceratitis capitata TREhs43-hid^Ala5_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy
<p>(10)-Strobl2022A-DS0006 – <em>Ceratitis capitata</em> TREhs43-hid<sup>Ala5</sup>_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy</p>
(10)-Strobl2022A-DS0005 – Ceratitis capitata TREhs43-hid^Ala5_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy
<p>(10)-Strobl2022A-DS0004 – <em>Ceratitis capitata</em> TREhs43-hid<sup>Ala5</sup>_F1m2 long-term live imaging dataset of embryonic development acquired with light sheet fluorescence microscopy</p>
Gastruloids as in vitro models of embryonic blood development with spatial and temporal resolution
<p>Rawdata (images and flow cytometry) for the manuscript "Gastruloids as in vitro models of embryonic blood development with spatial and temporal resolution". <br> </p>
Transcriptional regulation underlying the temperature response of embryonic development rate in the winter moth
<p>Climate change will strongly affect the developmental timing of insects, as their development rate largely depends on ambient temperature. However, we know little about the genetic mechanisms underlying the temperature sensitivity of embryonic development in insects. We investigated embryonic development rate in the winter moth (<em>Operophtera brumata</em>), a species with egg dormancy that has been under selection due to climate change. We used RNAseq to investigate which genes are involved in the regulation of winter moth embryonic development rate in response to temperature. Over the course of development, we sampled eggs before and after an experimental change in ambient temperature, including two early development weeks when the temperature sensitivity of eggs is low and two late development weeks when temperature sensitivity is high. We found temperature-responsive genes that responded in a similar way across development, as well as genes with a temperature response specific to a particular development week. Moreover, we identified genes whose temperature effect size changed around the switch in temperature sensitivity of development rate. Interesting candidate genes for regulating the temperature sensitivity of egg development rate included genes involved in histone modification, hormonal signalling, nervous system development, and circadian clock genes. In conclusion, the diverse sets of temperature-responsive genes we found here indicate that there are many potential targets of selection to change the temperature sensitivity of embryonic development rate. Identifying for which of these genes there is genetic variation in wild insect populations will give insight into their adaptive potential in the face of climate change.</p>
Fig. 1 in Embryonic development of the ornamental shrimp, Urocaridella arabianensis Akash et al., 2020
Fig. 1 — Embryonic development of U. arabianensis: (a) Brooder animals; (b) Stage I - Fertilized eggs; (c) Stage II - Cleavage (Cv); (d) Stage III - Blastula; (e) Stage IV - Gastrula, Tp - Translucid area; (f) Stage V - Nauplius; (g) Stage VI - Post-Nauplius I; (h) Stage VII - Post-Nauplius II; (i) Stage VIII - Pre-hatching; and (j) Stage IX - Newly hatched larva (Zoea I). Scale bar: 0.5 mm
FIGURE 9 in Morphological variation during post-embryonic development in the centipede Lithobius melanops: traditional and geometric morphometrics approaches
FIGURE 9 Centroid size differences of (A) The forcipular apparatus; (B) The cephalic capsule; and (C) The ultimate leg among epimorphic groups. The median with the first and third quartiles is shown (in boxes), together with the range of variation and outliers.
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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.