Title |
The Stem Cell Commons: an exemplar for data integration in the biomedical domain driven by the ISA framework.
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Published in |
AMIA Summits on Translational Science Proceedings, March 2013
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Pubmed ID | |
Authors |
Shannan Ho Sui, Emily Merrill, Nils Gehlenborg, Psalm Haseley, Ilya Sytchev, Richard Park, Philippe Rocca-Serra, Stephane Corlosquet, Alejandra Gonzalez-Beltran, Eamonn Maguire, Oliver Hofmann, Peter Park, Sudeshna Das, Susanna-Assunta Sansone, Winston Hide |
Abstract |
Comparisons of stem cell experiments at both molecular and semantic levels remain challenging due to inconsistencies in results, data formats, and descriptions among biomedical research discoveries. The Harvard Stem Cell Institute (HSCI) has created the Stem Cell Commons (stemcellcommons.org), an open, community-based approach to data sharing. Experimental information is integrated using the Investigation-Study-Assay tabular format (ISA-Tab) used by over 30 organizations (ISA Commons, isacommons.org). The early adoption of this format permitted the novel integration of three independent systems to facilitate stem cell data storage, exchange and analysis: the Blood Genomics Repository, the Stem Cell Discovery Engine, and the new Refinery platform that links the Galaxy analytical engine to data repositories. |
X Demographics
Geographical breakdown
Country | Count | As % |
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France | 1 | 33% |
United States | 1 | 33% |
Unknown | 1 | 33% |
Demographic breakdown
Type | Count | As % |
---|---|---|
Members of the public | 3 | 100% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
United States | 2 | 14% |
Unknown | 12 | 86% |
Demographic breakdown
Readers by professional status | Count | As % |
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Researcher | 5 | 36% |
Student > Ph. D. Student | 3 | 21% |
Student > Doctoral Student | 1 | 7% |
Professor | 1 | 7% |
Student > Master | 1 | 7% |
Other | 1 | 7% |
Unknown | 2 | 14% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 6 | 43% |
Medicine and Dentistry | 3 | 21% |
Biochemistry, Genetics and Molecular Biology | 1 | 7% |
Social Sciences | 1 | 7% |
Computer Science | 1 | 7% |
Other | 0 | 0% |
Unknown | 2 | 14% |