Since its introduction, NCBI's NLM Archiving and Interchange DTD suite has become the de facto standard for journal article markup in scholarly publishing.2 With the introduction of NISO JATS, it has been elevated to a true standard.3 Even without public data interchange, the advantages of NISO JATS adoption affords publishers in terms of streamlining production workflows and optimizing system interoperability.45
By design, this is a model for journal articles, such as the typical research article found in an STM journal, and not a model for complete journals.30
There are three tag sets:
Document type definitions (also released in the form of RELAX NG and XML schema) define each set and incorporate other standards such as MathML and XHTML Tables (although not in the XHTML namespace).
JATS Publishing set defines a document that is a top-level component of a journal such as an article, a book or product review, or a letter to the editor. Each such document is composed of front matter (required) and up to three optional parts.34 These must appear in the following order:
Following the front, body, back, and floating material, there may be either one or more responses to the article or one or more subordinate articles.36
This is the minimal article's structure,
The DOCTYPE header is optional, a legacy from SGML and DTD-oriented validators. The dtd-version attribute can be used even without a DTD header.
The root element article is common for any version of JATS or "JATS family", as NLM DTDs. The rules for front, body and back tags validation, depends on the JATS version, but all versions have similar structure, with good compatibility in a range of years. The evolution of the schema preserves an overall stability.
Less common, "only front", "only front and back" variations are also used for other finalities than full-content representation. The general article composition (as an DTD-content expression) is
There are a variety of tools for create, edit, convert and transform JATS. They range from simple forms37 to complete conversion automation:
Take as input a scientific document, and, with some human support, produce a JATS output.
Take JATS as input, produce another kind of document as output.
Tools that render JATS as HTML, usually on fly.
As NISO JATS began the de facto and de jure standard for open access journals, the scientific community has adopted the JATS repositories as a kind of legal deposit, sometimes deemed more valuable than the traditional digital libraries where only a PDF version is stored. Open knowledge need richer and structured formats as JATS: PDF and JATS must be certified as "same content", and the set "PDF+JATS" forming the unit of legal deposit. List of JATS repositories and its contained:
These repositories do overlap and the same article can be held by more than one repository.
There are some effort and experiments using RDF conversion in the 2012,68 with no impact in the JATS community.
Later, in ~2016, for Semantic Web context, with SchemaOrg initiative, the class ScholarlyArticle was defined, receiving better reception. It is an initial "JATS-like standardization" for RDF contexts of use.
Related to
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ANSI/NISO Z39.96-2012 ISSN 1041-5653. See z39.96-2012.pdf at www.niso.org/standards/z39-96-2012 /wiki/ISSN_(identifier) ↩
Beck, J (2011). "NISO Z39.96 The Journal Article Tag Suite (JATS): What Happened to the NLM DTDs?". The Journal of Electronic Publishing. 14 (1). doi:10.3998/3336451.0014.106. PMC 3227009. PMID 22140303. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3227009 ↩
Zimmerman, Sara (2012). "The new NISO journal Article Tag Suite standard". Zeeba.tv. http://river-valley.zeeba.tv/the-new-niso-journal-article-tag-suite-standard/ ↩
Donohoe, Paul; Sherman, Jenny; Mistry, Ashwin (2015). "The Long Road to JATS". Journal Article Tag Suite Conference (JATS-Con) Proceedings 2015. JATS-Con 2015. Bethesda, MD: National Center for Biotechnology Information. https://www.ncbi.nlm.nih.gov/books/NBK279831/ ↩
Usdin, Tommie; Lapeyre, Deborah Aleyne; Glass, Carter M. (2015). "Superimposing Business Rules on JATS". Journal Article Tag Suite Conference (JATS-Con) Proceedings 2015. JATS-Con 2015. Bethesda, MD: National Center for Biotechnology Information. https://www.ncbi.nlm.nih.gov/books/NBK279902/ ↩
"NLM Journal Archiving and Interchange Tag Suite". National Center for Biotechnology Information. 13 September 2012. Archived from the original on 27 August 2016. http://dtd.nlm.nih.gov/index.html ↩
"JATS and the NLM DTDs". Journal Article Tag Suite. National Center for Biotechnology Information. 8 January 2016. Archived from the original on 7 March 2016. http://jats.nlm.nih.gov/about.html ↩
"NISO JATS v0.4: Draft Standard for Trial Use". Journal Article Tag Suite. National Center for Biotechnology Information. http://jats.nlm.nih.gov/0.4/ ↩
"ANSI/NISO Z39.96-2012 JATS: Journal Article Tag Suite". National Information Standards Organization. 26 July 2013. http://www.niso.org/apps/group_public/project/details.php?project_id=93 ↩
"JATS v1.1d1 (DRAFT)". Journal Article Tag Suite. National Center for Biotechnology Information. 14 April 2015. http://jats.nlm.nih.gov/1.1d1/ ↩
"JATS v1.1d2 (DRAFT)". Journal Article Tag Suite. National Center for Biotechnology Information. 14 April 2015. http://jats.nlm.nih.gov/1.1d2/ ↩
"JATS v1.1d3 (DRAFT)". Journal Article Tag Suite. National Center for Biotechnology Information. 14 April 2015. http://jats.nlm.nih.gov/1.1d3/ ↩
"ANSI/NISO Z39.96-2015 JATS: Journal Article Tag Suite". National Information Standards Organization. 8 January 2016. Archived from the original on 29 August 2016. Retrieved 29 August 2016. https://web.archive.org/web/20160829182917/http://www.niso.org/apps/group_public/project/details.php?project_id=133 ↩
"JATS v1.2d1". Journal Article Tag Suite. National Center for Biotechnology Information. https://jats.nlm.nih.gov/1.2d1/ ↩
"JATS v1.2d2". Journal Article Tag Suite. National Center for Biotechnology Information. https://jats.nlm.nih.gov/1.2d2/ ↩
"ANSI/NISO Z39.96-2019, JATS: Journal Article Tag Suite, version 1.2". National Information Standards Organization. 8 February 2019. https://www.niso.org/publications/z3996-2019-jats ↩
"ANSI/NISO Z39.96-2021, JATS: Journal Article Tag Suite, version 1.3". National Information Standards Organization. 7 July 2021. http://www.niso.org/publications/z3996-2021-jats ↩
"General Introduction". Journal Publishing Tag Library NISO JATS Version 1.0. National Center for Biotechnology Information. August 2012. http://jats.nlm.nih.gov/publishing/tag-library/1.0/n-7w00.html ↩
"JATS: Journal Article Tag Suite". National Center for Biotechnology Information. http://jats.nlm.nih.gov/ ↩
A 2012's semanticpublishing.wordpress.com JATS Metadata Input Form. http://semanticpublishing.wordpress.com/2012/12/20/jats-metadata-entry-form/ ↩
http://www.oucs.ox.ac.uk/oxgarage/ Archived 26 May 2014 at the Wayback Machine (documentation) http://www.oucs.ox.ac.uk/oxgarage/ ↩
"MartinPaulEve/meTypeset". GitHub. 20 June 2019. https://github.com/MartinPaulEve/meTypeset ↩
"eXtyles". Inera. Retrieved 13 December 2022. https://www.inera.com/extyles/ ↩
"Pandoc - Pandoc User's Guide". https://pandoc.org/MANUAL.html#general-options ↩
"Merops: Powerful AI for publishers and copy editors". https://shabash.net/merops/ ↩
"Public Knowledge Project". Retrieved 13 December 2022. https://pkp.sfu.ca/ ↩
Constantin, S.Pettifer (2013). "PDFX: Fully-automated PDF-to-XML conversion of scientific literature". Proceedings of the 2013 ACM symposium on Document engineering. pp. 177–180. doi:10.1145/2494266.2494271. ISBN 9781450317894. 9781450317894 ↩
"Content ExtRactor and MINEr - User Console". cermine.ceon.pl. Retrieved 13 December 2022. http://cermine.ceon.pl/index.html ↩
"JATS Preview Style sheets of 2013". GitHub. https://github.com/ncbi/JATSPreviewStylesheets ↩
"eLife Lens". lens.elifesciences.org. Retrieved 13 December 2022. https://lens.elifesciences.org ↩
biglist.com/mulberrytech msg and ncbi.nlm.nih.gov/books article description http://www.biglist.com/lists/lists.mulberrytech.com/jats-list/archives/201204/msg00002.html ↩
"ncbi/DtdAnalyzer". GitHub. 19 April 2019. https://github.com/ncbi/DtdAnalyzer ↩
"Journal archiving schema and tag libraries". Typeset. https://scispace.com/formats/journal-archiving-schema-and-tag-libraries ↩
"wendell piez. oXygen JATS framework". GitHub. 24 June 2019. https://github.com/wendellpiez/oXygenJATSframework ↩
FontoXML for JATS [dead link] https://fontoxml.com/jats/ ↩
PubRef https://pubref.org ↩
"Annotum". Annotum. Retrieved 13 December 2022. https://annotum.wordpress.com/ ↩
Carl Leubsdorf, Jr (2011). Annotum: An open-source authoring and publishing platform based on WordPress. Journal Article Tag Suite Conference (JATS-Con) Proceedings 2011 - NCBI Bookshelf. /wiki/Carl_Leubsdorf ↩
"GitHub - substance/Texture: A visual editor for research". GitHub. 25 June 2019. https://github.com/substance/texture ↩
"Substance Consortium". http://substance.io/consortium/ ↩
"Texture - an open science manuscript editor". 24 July 2017. https://elifesciences.org/labs/8de87c33 ↩
"ncbi/JATSPreviewStylesheets". GitHub. 11 February 2019. https://github.com/NCBITools/JATSPreviewStylesheets ↩
Wendell Piez (2010). Fitting the Journal Publishing 3.0 Preview Stylesheets to Your Needs: Capabilities and Customizations. Journal Article Tag Suite Conference (JATS-Con) Proceedings 2010 - NCBI Bookshelf. https://www.ncbi.nlm.nih.gov/books/NBK47104/ ↩
"Typeset for Journals and Publishers". Typeset For Publishers. 4 January 2020. https://www.scispace.com/for-publishers/ ↩
NCBI/PubReader github.com/ncbi/PubReader source-code https://www.ncbi.nlm.nih.gov/pmc/about/pubreader/ ↩
Maloney, Chris (8 September 2017). "Jatsdoc Documentation Browser". GitHub. https://github.com/Klortho/jatsdoc ↩
"DtdAnalyzer: A tool for analyzing and manipulating DTDs". Journal Archiving and Interchange Tag Suite. National Center for Biotechnology Information. http://dtd.nlm.nih.gov/ncbi/dtdanalyzer/ ↩
PMC home, https://www.ncbi.nlm.nih.gov/pmc/ https://www.ncbi.nlm.nih.gov/pmc/ ↩
PMC Europe, "about" page, http://europepmc.org/About http://europepmc.org/About ↩
SciELO home, http://www.scielo.org/php/index.php?lang=en http://www.scielo.org/php/index.php?lang=en ↩
From Markup to Linked Data: Mapping NISO JATS v1.0 to RDF using the SPAR (Semantic Publishing and Referencing) Ontologies. National Center for Biotechnology Information (US). 2012. https://www.ncbi.nlm.nih.gov/books/NBK100491/ ↩