title: Integration of extracellular RNA profiling data using metadata, biomedical ontologies and Linked Data technologies.
abstract: The large diversity and volume of extracellular RNA (exRNA) data that will form the basis of the exRNA Atlas generated by the Extracellular RNA Communication Consortium pose a substantial data integration challenge. We here present the strategy that is being implemented by the exRNA Data Management and Resource Repository, which employs metadata, biomedical ontologies and Linked Data technologies, such as Resource Description Framework to integrate a diverse set of exRNA profiles into an exRNA Atlas and enable integrative exRNA analysis. We focus on the following three specific data integration tasks: (a) selection of samples from a virtual biorepository for exRNA profiling and for inclusion in the exRNA Atlas; (b) retrieval of a data slice from the exRNA Atlas for integrative analysis and (c) interpretation of exRNA analysis results in the context of pathways and networks. As exRNA profiling gains wide adoption in the research community, we anticipate that the strategies discussed here will increasingly be required to enable data reuse and to facilitate integrative analysis of exRNA data.
authors: Bioinformatics Research Laboratory, Department of Molecular & Human Genetics, Baylor College of Medicine, Houston, TX, USA.
authors: Sai Lakshmi
authors: SL
authors: Subramanian
authors: Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, USA.|Division of Molecular Psychiatry, Abraham Ribicoff Research Facilities, Connecticut Mental Health Center, Yale University School of Medicine, New Haven, CT, USA.|Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT, USA.
authors: Robert R
authors: RR
authors: Kitchen
authors: Pacific Northwest Diabetes Research Institute, Seattle, WA, USA.
authors: Roger
authors: R
authors: Alexander
authors: Division of Neurosurgery, UC San Diego School of Medicine, UC San Diego Health System, La Jolla, CA, USA.
authors: Bob S
authors: BS
authors: Carter
authors: Department of Emergency Medicine, Yale Center for Medical Informatics, Yale University School of Medicine, New Haven, CT, USA.
authors: Kei-Hoi
authors: KH
authors: Cheung
authors: Department of Reproductive Medicine, University of California, San Diego, La Jolla, CA, USA.
authors: Louise C
authors: LC
authors: Laurent
authors: Gladstone Institutes, San Francisco, CA, USA.
authors: Alexander
authors: A
authors: Pico
authors: Division of Gastroenterology and Hepatology, Mayo Clinic College of Medicine, Rochester, MN, USA.
authors: Lewis R
authors: LR
authors: Roberts
authors: Bioinformatics Research Laboratory, Department of Molecular & Human Genetics, Baylor College of Medicine, Houston, TX, USA.
authors: Matthew E
authors: ME
authors: Roth
authors: Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, USA.|Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT, USA.
authors: Joel S
authors: JS
authors: Rozowsky
authors: Department of Molecular and Experimental Medicine, The Scripps Research Institute, La Jolla, CA, USA.
authors: Andrew I
authors: AI
authors: Su
authors: Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, USA.|Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT, USA.|Department of Computer Science, Yale University, New Haven, CT, USA.
authors: Mark B
authors: MB
authors: Gerstein
authors: Bioinformatics Research Laboratory, Department of Molecular & Human Genetics, Baylor College of Medicine, Houston, TX, USA; amilosav@bcm.edu.
authors: Aleksandar
authors: A
authors: Milosavljevic
keywords: DMRR; ERC Consortium; exRNA; exRNA Atlas; exRNA Portal