UMass Chan Medical School Faculty Publications

UMMS Affiliation

Program in Molecular Medicine; RNA Therapeutics Institute

Publication Date

2021-12-03

Document Type

Article

Disciplines

Bioimaging and Biomedical Optics | Bioinformatics | Data Science

Abstract

For quality, interpretation, reproducibility and sharing value, microscopy images should be accompanied by detailed descriptions of the conditions that were used to produce them. Micro-Meta App is an intuitive, highly interoperable, open-source software tool that was developed in the context of the 4D Nucleome (4DN) consortium and is designed to facilitate the extraction and collection of relevant microscopy metadata as specified by the recent 4DN-BINA-OME tiered-system of Microscopy Metadata specifications. In addition to substantially lowering the burden of quality assurance, the visual nature of Micro-Meta App makes it particularly suited for training purposes.

Keywords

Confocal microscopy, Data publication and archiving, Software, Standards, Wide-field fluorescence microscopy

Rights and Permissions

Copyright © The Author(s) 2021, corrected publication 2021. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

DOI of Published Version

10.1038/s41592-021-01315-z

Source

Rigano A, Ehmsen S, Öztürk SU, Ryan J, Balashov A, Hammer M, Kirli K, Boehm U, Brown CM, Bellve K, Chambers JJ, Cosolo A, Coleman RA, Faklaris O, Fogarty KE, Guilbert T, Hamacher AB, Itano MS, Keeley DP, Kunis S, Lacoste J, Laude A, Ma WY, Marcello M, Montero-Llopis P, Nelson G, Nitschke R, Pimentel JA, Weidtkamp-Peters S, Park PJ, Alver BH, Grunwald D, Strambio-De-Castillia C. Micro-Meta App: an interactive tool for collecting microscopy metadata based on community specifications. Nat Methods. 2021 Dec;18(12):1489-1495. doi: 10.1038/s41592-021-01315-z. Epub 2021 Dec 3. Erratum in: Nat Methods. 2021 Dec 24;: PMID: 34862503; PMCID: PMC8648560. Link to article on publisher's site

Comments

Full author list omitted for brevity. For the full list of authors, see article.

This article is based on a previously available preprint in bioRxiv.

Related Resources

Link to Article in PubMed

Journal/Book/Conference Title

Nature methods

PubMed ID

34862503

Creative Commons License

Creative Commons Attribution 4.0 License
This work is licensed under a Creative Commons Attribution 4.0 License.

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