Name: bionode-encode
Owner: Bionode Hack
Description: Bionode module to access the Encyclopedia of DNA Elements (ENCODE) data
Created: 2016-07-05 09:38:39.0
Updated: 2016-07-06 15:08:29.0
Pushed: 2016-07-06 15:08:28.0
Homepage: null
Size: 421
Language: HTML
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Homepage: https://genome.ucsc.edu/ENCODE/
1: How do I find the set of (human) datasets that are available?
The query: https://www.encodeproject.org/search/?type=Dataset&replicates.library.biosample.donor.organism.scientific_name=Homo+sapiens&limit=all
results in a page including a table of results. This response had a limit of 50 results: https://github.com/bionode-hack/bionode-encode/blob/master/example_responses/ENCODE_Homo_sapiens.html
2: How do I request information on an individual dataset (or maybe a batch of datasets)?
Extract from each entry just the 'accession' value, e.g. “accession”:“ENCSR385UPQ”. Retrieve the URL constructed from this accession number as follows: https://www.encodeproject.org/experiments/accession/ e.g.: https://www.encodeproject.org/experiments/ENCSR385UPQ/
Result: https://github.com/bionode-hack/bionode-encode/blob/master/example_responses/ENCSR385UPQ.html
3: Where do I find the dataset attributes?
Accession number: Use accession
URL: Use the URL constructed above.
Title: From per-dataset result use Biosample summary
Description: From per-dataset result use Description
Technology: From per-dataset result use Platform
Assay type: From per-dataset result use Assay