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

dc.contributor.author	Rigano, Alessandro
dc.contributor.author	Hammer, Mathias
dc.contributor.author	Bellve, Karl D.
dc.contributor.author	Fogarty, Kevin E.
dc.contributor.author	Grunwald, David
dc.contributor.author	Strambio-De-Castillia, Caterina
dc.date	2022-08-11T08:08:28.000
dc.date.accessioned	2022-08-23T15:56:20Z
dc.date.available	2022-08-23T15:56:20Z
dc.date.issued	2021-12-03
dc.date.submitted	2022-01-24
dc.identifier.citation	<p>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. <a href="https://doi.org/10.1038/s41592-021-01315-z">Link to article on publisher's site</a></p>
dc.identifier.issn	1548-7091 (Linking)
dc.identifier.doi	10.1038/s41592-021-01315-z
dc.identifier.pmid	34862503
dc.identifier.uri	http://hdl.handle.net/20.500.14038/29947
dc.description	<p>Full author list omitted for brevity. For the full list of authors, see article.</p> <p>This article is based on a previously available preprint in <a href="https://doi.org/10.1101/2021.05.31.446382" target="_blank" title="view preprint in bioRxiv">bioRxiv</a>.</p>
dc.description.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.
dc.language.iso	en_US
dc.relation	<p><a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&list_uids=34862503&dopt=Abstract">Link to Article in PubMed</a></p>
dc.rights	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/.
dc.rights.uri	http://creativecommons.org/licenses/by/4.0/
dc.subject	Confocal microscopy
dc.subject	Data publication and archiving
dc.subject	Software
dc.subject	Standards
dc.subject	Wide-field fluorescence microscopy
dc.subject	Bioimaging and Biomedical Optics
dc.subject	Bioinformatics
dc.subject	Data Science
dc.title	Micro-Meta App: an interactive tool for collecting microscopy metadata based on community specifications
dc.type	Journal Article
dc.source.journaltitle	Nature methods
dc.source.volume	18
dc.source.issue	12
dc.identifier.legacyfulltext	https://escholarship.umassmed.edu/cgi/viewcontent.cgi?article=3183&context=faculty_pubs&unstamped=1
dc.identifier.legacycoverpage	https://escholarship.umassmed.edu/faculty_pubs/2150
dc.identifier.contextkey	27725958
refterms.dateFOA	2022-08-23T15:56:20Z
html.description.abstract	<p>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.</p>
dc.identifier.submissionpath	faculty_pubs/2150
dc.contributor.department	RNA Therapeutics Institute
dc.contributor.department	Program in Molecular Medicine
dc.source.pages	1489-1495

Files in this item

Name:

s41592_021_01315_z.pdf

Size:

8.080Mb

Format:

PDF

Download

This item appears in the following Collection(s)

UMass Chan Faculty and Researcher Publications [14473]

Show simple item record

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/.

Except where otherwise noted, this item's license is described as 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/.