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6
datasets available to search
ShareScore release 0.9.0
Dataset results
6 results for “ChipExo”
ChIPexo data for Hyena
<p>ChIP-exo used in the Hyena Toolbox (https://github.com/SysBioChalmers/Hyena)</p> <p>Data obtained from:</p> <p>Liu G, Bergenholm D, Nielsen J. Genome-wide mapping of binding sites reveals multiple biological functions of the transcription factor Cst6p in <em>Saccharomyces cerevisiae</em>. <em>MBio</em> 2016;<strong>7</strong>:1–10</p> <p>Bergenholm D, Liu G, Holland P <em>et al.</em> Reconstruction of a Global Transcriptional Regulatory Network for Control of Lipid Metabolism in Yeast by Using Chromatin Immunoprecipitation with Lambda Exonuclease Digestion. Wilmes P (ed.). <em>mSystems</em> 2018;<strong>3</strong>:e00215-17</p> <p>Ouyang L, Holland P, Lu H <em>et al.</em> Integrated analysis of the yeast NADPH-regulator Stb5 reveals distinct differences in NADPH requirements and regulation in different states of yeast metabolism. <em>FEMS Yeast Res</em> 2018;<strong>18</strong>, DOI: 10.1093/femsyr/foy091.</p> <p>Holland P, Bergenholm D, Börlin CS <em>et al.</em> Predictive models of eukaryotic transcriptional regulation reveals changes in transcription factor roles and promoter usage between metabolic conditions. <em>Nucleic Acids Res</em> 2019;<strong>47</strong>:4986–5000.</p> <p> </p> <p>Data processed using</p> <p>Börlin CS, Bergenholm D, Holland P <em>et al.</em> A bioinformatic pipeline to analyze ChIP-exo datasets. <em>Biol Methods Protoc</em> 2019a;<strong>4</strong>:1–9.</p>
Example data set for the ChIPexo Pipeline
<p>Example data set for the ChIP-exo Analytical Pipeline available through GitHub</p> <p>https://github.com/SysBioChalmers/ChIPexo_Pipeline</p>
Elucidating the CodY regulon in Staphylococcus aureus USA300 lineage using ChIPexo
GEO Series GSE163312. Staphylococcus aureus. 4 samples. Type: Expression profiling by high throughput sequencing.
Pre-established chromatin interactions mediate acute transcriptional response to Epo [ChIPexo-seq]
GEO Series GSE142003. Mus musculus. 6 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Elucidation of the CodY target genes in Staphylococcus aureus USA300 using ChIPexo
GEO Series GSE159856. Staphylococcus aureus. 4 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Znf143 binding sites in U937 cells by ChIPexo
GEO Series GSE65130. Homo sapiens. 2 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
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.