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ISA-TAB-Nano: a specification for sharing nanomaterial research data in spreadsheet-based format.

TitleISA-TAB-Nano: a specification for sharing nanomaterial research data in spreadsheet-based format.
Publication TypeJournal Article
Year of Publication2013
AuthorsThomas DG, Gaheen S, Harper S, Fritts M, Klaessig F, Hahn-Dantona E, Paik D, Pan S, Stafford GA, Freund ET, Klemm JD, Baker N
JournalBMC Biotechnol
Date Published2013
KeywordsInformation Dissemination, Information Storage and Retrieval, Nanostructures, Research

BACKGROUND AND MOTIVATION: The high-throughput genomics communities have been successfully using standardized spreadsheet-based formats to capture and share data within labs and among public repositories. The nanomedicine community has yet to adopt similar standards to share the diverse and multi-dimensional types of data (including metadata) pertaining to the description and characterization of nanomaterials. Owing to the lack of standardization in representing and sharing nanomaterial data, most of the data currently shared via publications and data resources are incomplete, poorly-integrated, and not suitable for meaningful interpretation and re-use of the data. Specifically, in its current state, data cannot be effectively utilized for the development of predictive models that will inform the rational design of nanomaterials.
RESULTS: We have developed a specification called ISA-TAB-Nano, which comprises four spreadsheet-based file formats for representing and integrating various types of nanomaterial data. Three file formats (Investigation, Study, and Assay files) have been adapted from the established ISA-TAB specification; while the Material file format was developed de novo to more readily describe the complexity of nanomaterials and associated small molecules. In this paper, we have discussed the main features of each file format and how to use them for sharing nanomaterial descriptions and assay metadata.
CONCLUSION: The ISA-TAB-Nano file formats provide a general and flexible framework to record and integrate nanomaterial descriptions, assay data (metadata and endpoint measurements) and protocol information. Like ISA-TAB, ISA-TAB-Nano supports the use of ontology terms to promote standardized descriptions and to facilitate search and integration of the data. The ISA-TAB-Nano specification has been submitted as an ASTM work item to obtain community feedback and to provide a nanotechnology data-sharing standard for public development and adoption.

Alternate JournalBMC Biotechnol.
PubMed ID23311978
PubMed Central IDPMC3598649
Grant ListES016896-01 / ES / NIEHS NIH HHS / United States
P30 ES03850 / ES / NIEHS NIH HHS / United States
R01 GM069702 / GM / NIGMS NIH HHS / United States
U01 NS073457 / NS / NINDS NIH HHS / United States
U54 CA119367 / CA / NCI NIH HHS / United States
U54 CA151459 / CA / NCI NIH HHS / United States
U54 HG004028 / HG / NHGRI NIH HHS / United States
U54 HG004028 / HG / NHGRI NIH HHS / United States

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