Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
41
datasets available to search
ShareScore release 0.9.0
Dataset results
41 results for “Ciona intestinalis”
Data from: Genome-wide gene-associated microsatellite markers for the model invasive ascidian, Ciona intestinalis species complex
The vase tunicate, Ciona intestinalis species complex, has become a good model for ecological and evolutionary studies, especially those focusing on microevolution associated with rapidly changing environments. However, genome-wide genetic markers are still lacking. Here we characterized a large set of genome-wide gene-associated microsatellite markers for C. intestinalis spA (= C. robusta). Bioinformatic analysis identified 4654 microsatellites from expressed sequence tags (ESTs), 2126 of which successfully assigned to chromosomes were selected for further analysis. Based on the distribution evenness on chromosomes, function annotation and suitability for primer design, we chose 545 candidate microsatellites for further characterization. After amplification validation and variation assessment, 218 loci were polymorphic in at least one of the two populations collected from the coast of Arenys de Mar, Spain (N = 24 - 48) and Cape Town, South Africa (N = 24 - 33). The number of alleles, observed heterozygosity and expected heterozygosity ranged from two to 11, 0 to 0.833 and 0.021 to 0.818, and from two to 10, 0 to 0.879 and 0.031 to 0.845 for the Spanish and African populations, respectively. When all microsatellites were tested for cross-species utility, only 60 loci (25.8%) could be successfully amplified and all loci were polymorphic in C. intestinalis spB. A high level of genome-wide polymorphism is likely responsible for the low transferability. The large set of microsatellite markers characterized here is expected to provide a useful genome-wide resource for ecological and evolutionary studies using C. intestinalis as a model.
Ciona intestinalis Tierpsy tracked skeletons as of 2022-06-23
<p>This dataset contains the data that currently (2022-06-23) corresponds to swimming <em>Ciona intestinalis</em> larvae (controls and drug treated animals) that were recorded in our behavioural setups and were subsequently segmented, tracked and analyzed using the Tierpsy Tracker (developed by Andre Brown's lab, MRC LMS).</p> <p> </p>
Comprehensive analysis of locomotion dynamics in the protochordate Ciona intestinalis reveals how neuromodulators flexibly shape its behavioral repertoire.
<p>This record contains (as of 2022-06-27) datasets corresponding to the study of behavior in swimming <em>Ciona intestinalis</em> larvae (controls and drug treated animals) that were recorded in our behavioural setups. In particular, it contains:</p> <ol> <li>multi-point tracking data of the larvae obtained using the Tierpsy Tracker (developed by Andre Brown's lab, MRC LMS).</li> <li>features like curvature, speed etc calculated from the tracking data</li> <li>results of time-series analyses (matrix-profiling, hidden markov modelling, spatio-temporal clustering) performed on the feature dataset</li> <li>Hidden Markov Models trained for inferences</li> </ol>
Dataset associated with "Quantitative analysis reveals the basic behavioural repertoire of the urochordate Ciona intestinalis."
<p>This dataset contains the data used in the publication “Quantitative analysis reveals the basic behavioural repertoire of the early branching chordate Ciona intestinalis.”. It is available in .hdf format which can be opened with the pandas library in python.</p> <p>The dataframe is structured as one row of descriptive parameters per tracked trace, but one entry in the row is an entire dataframe containing all data for observations per tracked point for the respective trace. </p> <p>Parameter descriptions:</p> <p>chor: Wether an animal is with chorion ("C") or dechorionated ("D")<br> age: Age of animal expressed in hours post hatching<br> video: Name of video file associated with trace<br> light: Which light stimulus was used.<br> fps: framerate of video<br> temp: temperature the experiment was performed at<br> crowdsize: number of animals in well<br> modafinil: concentration of modafinil used<br> lazy: boolean. True if an animal did not move more than a threshold value. Lazy/Dead/Immobile/Stuck animals were discarded from analysis.<br> tto: Thigmotaxis defined in percentage of time spent in thigmotactic area.<br> tdo: Thigmotaxis defined in percentage of distance covered in thigmotactic area.<br> ac: activity coeffiecient. Fraction of video where the animal had a speed of a threshold or higher.<br> complexity: Path complexity expressed in bits of entropy<br> dfs: Dataframes decribing the trace coordinate by coordinate.</p>
Data from: Genome-wide gene-associated microsatellite markers for the model invasive ascidian, Ciona intestinalis species complex
Open the record for dataset details and reuse information.
Two-Round Ca2+ transient in papillae by mechanical stimulation induces metamorphosis in the ascidian, Ciona intestinalis type A
Open the record for dataset details and reuse information.
Data from: The alternative oxidase (AOX) increases sulphide tolerance in the highly invasive marine invertebrate Ciona intestinalis
Open the record for dataset details and reuse information.
Identification of differentially expressed genes in the mutant tail regression failed (trf) in Ciona intestinalis.
GEO Series GSE124672. Ciona intestinalis. 8 samples. Type: Expression profiling by array.
ChIP-chip analysis of the Ciona intestinalis embryo
GEO Series GSE17976. Ciona intestinalis. 39 samples. Type: Genome binding/occupancy profiling by genome tiling array.
Single-cell RNA-seq data for control and POU IV-misexpressed Ciona intestinalis embryos at late tailbud (LTB) stage
GEO Series GSE192645. Ciona intestinalis. 2 samples. Type: Expression profiling by high throughput sequencing.
Tbx6b ChIP-chip on Ciona intestinalis embryo (early gastrula)
GEO Series GSE17694. Ciona intestinalis. 3 samples. Type: Genome binding/occupancy profiling by genome tiling array.
Neurogenin ChIP-chip on Ciona intestinalis embryo (64-cell stage)
GEO Series GSE17689. Ciona intestinalis. 3 samples. Type: Genome binding/occupancy profiling by genome tiling array.
ZicL ChIP-chip on Ciona intestinalis embryo (early gastrula)
GEO Series GSE10803. Ciona intestinalis. 4 samples. Type: Genome binding/occupancy profiling by genome tiling array.
Transcriptome Analysis of Ciona intestinalis to Identify Genes Preferentially Expressed in the Larval Brain
GEO Series GSE18364. Ciona intestinalis. 4 samples. Type: Expression profiling by array.
MyoD ChIP-chip on Ciona intestinalis embryo (early-mid gastrula)
GEO Series GSE13012. Ciona intestinalis. 4 samples. Type: Genome binding/occupancy profiling by genome tiling array.
Gene expression of ovary and neural complex in adult Ciona intestinalis
GEO Series GSE33498. Ciona intestinalis. 8 samples. Type: Expression profiling by array.
Gata.a, Tcf7 and Zic-r.a ChIP-chip analysis in Ciona intestinalis embryo (16-cell stage)
GEO Series GSE70902. Ciona intestinalis. 3 samples. Type: Genome binding/occupancy profiling by genome tiling array.
Visium spatial transcriptomics of the neural complex of Ciona intestinalis type A
GEO Series GSE229175. Ciona intestinalis. 4 samples. Type: Expression profiling by high throughput sequencing; Other.
SoxC ChIP-chip on Ciona intestinalis embryo (early gastrula)
GEO Series GSE17692. Ciona intestinalis. 3 samples. Type: Genome binding/occupancy profiling by genome tiling array.
Snail ChIP-chip on Ciona intestinalis embryo (early gastrula)
GEO Series GSE17691. Ciona intestinalis. 3 samples. Type: Genome binding/occupancy profiling by genome tiling array.
ScienceDex guides
Understand access before you commit
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.