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Micro-Meta App: an interactive tool for collecting microscopy metadata based on community specifications

Rigano, Alessandro
; 
Hammer, Mathias
; 
Bellve, Karl D.
; 
Fogarty, Kevin E.
; 
Grunwald, David
; 
Strambio-De-Castillia, Caterina
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Authors
Rigano, Alessandro
Hammer, Mathias
Bellve, Karl D.
Fogarty, Kevin E.
Grunwald, David
Strambio-De-Castillia, Caterina
Student Authors
Faculty Advisor
Academic Program
UMass Chan Affiliations
RNA Therapeutics Institute
 Program in Molecular Medicine
Document Type
Journal Article
Publication Date
2021-12-03
Keywords
Confocal microscopy
 Data publication and archiving
 Software
 Standards
 Wide-field fluorescence microscopy
 Bioimaging and Biomedical Optics
 Bioinformatics
 Data Science
Subject Area
Collections
UMass Chan Faculty and Researcher Publications
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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.

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

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DOI
10.1038/s41592-021-01315-z
Permanent Link to this Item
https://hdl.handle.net/20.500.14038/29947
PubMed ID
34862503
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Notes

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.

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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/.
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