iRODS metadata management for a cancer genome analysis workflow
Nieroda, L.; Maas, L.; Thiebes, S.
1; Lang, U.; Sunyaev, A. 1; Achter, V.; Peifer, M.
1 Fakultät für Wirtschaftswissenschaften (WIWI), Karlsruher Institut für Technologie (KIT)
1; Lang, U.; Sunyaev, A. 1; Achter, V.; Peifer, M.1 Fakultät für Wirtschaftswissenschaften (WIWI), Karlsruher Institut für Technologie (KIT)
Abstract:
Background: The massive amounts of data from next generation sequencing (NGS) methods pose various challenges with respect to data security, storage and metadata management. While there is a broad range of data analysis pipelines, these challenges remain largely unaddressed to date.
Results: We describe the integration of the open-source metadata management system iRODS (Integrated Rule-Oriented Data System) with a cancer genome analysis pipeline in a high performance computing environment. The system allows for customized metadata attributes as well as fine-grained protection rules and is augmented by a user-friendly front-end for metadata input. This results in a robust, efficient end-to-end workflow under consideration of data security, central storage and unified metadata information.
Conclusions: Integrating iRODS with an NGS data analysis pipeline is a suitable method for addressing the challenges of data security, storage and metadata management in NGS environments.
Results: We describe the integration of the open-source metadata management system iRODS (Integrated Rule-Oriented Data System) with a cancer genome analysis pipeline in a high performance computing environment. The system allows for customized metadata attributes as well as fine-grained protection rules and is augmented by a user-friendly front-end for metadata input. This results in a robust, efficient end-to-end workflow under consideration of data security, central storage and unified metadata information.
Conclusions: Integrating iRODS with an NGS data analysis pipeline is a suitable method for addressing the challenges of data security, storage and metadata management in NGS environments.
| Zugehörige Institution(en) am KIT | Institut für Angewandte Informatik und Formale Beschreibungsverfahren (AIFB) |
| Publikationstyp | Zeitschriftenaufsatz |
| Publikationsjahr | 2019 |
| Sprache | Englisch |
| Identifikator | ISSN: 1471-2105 urn:nbn:de:swb:90-906400 KITopen-ID: 1000090640 |
| Erschienen in | BMC bioinformatics |
| Verlag | Springer Fachmedien Wiesbaden |
| Band | 20 |
| Heft | 1 |
| Seiten | Art. Nr.: 29 |
| Schlagwörter | Next generation sequencing (NGS), Genome analysis, iRODS, Workflow integration, High performance computing (HPC), Data security, Data consistency, Metadata management |
| Nachgewiesen in | Web of Science Dimensions Scopus |
| Globale Ziele für nachhaltige Entwicklung |