title: The Stem Cell Commons: an exemplar for data integration in the biomedical domain driven by the ISA framework.
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.
authors.affiliation: Harvard School of Public Health, Biostatistics, Boston, MA, USA ; Harvard Stem Cell Institute, Cambridge, MA, USA.
authors.forename: Shannan
authors.initials: S
authors.lastname: Ho Sui
authors.forename: Emily
authors.initials: E
authors.lastname: Merrill
authors.forename: Nils
authors.initials: N
authors.lastname: Gehlenborg
authors.forename: Psalm
authors.initials: P
authors.lastname: Haseley
authors.forename: Ilya
authors.initials: I
authors.lastname: Sytchev
authors.forename: Richard
authors.initials: R
authors.lastname: Park
authors.forename: Philippe
authors.initials: P
authors.lastname: Rocca-Serra
authors.forename: Stephane
authors.initials: S
authors.lastname: Corlosquet
authors.forename: Alejandra
authors.initials: A
authors.lastname: Gonzalez-Beltran
authors.forename: Eamonn
authors.initials: E
authors.lastname: Maguire
authors.forename: Oliver
authors.initials: O
authors.lastname: Hofmann
authors.forename: Peter
authors.initials: P
authors.lastname: Park
authors.forename: Sudeshna
authors.initials: S
authors.lastname: Das
authors.forename: Susanna-Assunta
authors.initials: SA
authors.lastname: Sansone
authors.forename: Winston
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