JATS and the Standards Ecosystem Presented by Bruce

No Man Is An Island No man island, Entire of itself, Every man is a piece of the continent, A part of the main. If a clod be washed away by the sea, Europe is the less. As well as if a promontory were. As well as if a manor of thy friend's Or of thine own were: Any man's death diminishes me, Because I am involved in mankind, And therefore never send to know for whom the bell tolls; It tolls for thee. John Donne © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

Metadata Ecosystem • • JATS started as a markup solution JATS is now a workflow solution Integrates full text content & rich metadata Facilitates • Metadata transmittal of submission • End-to-end production activities • Distribution of metadata to customers © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

JATS-Related Standards and Projects • • • Supplemental Journal Article Materials ORCID PIE-J JAV Cross. Ref • • Cross. Mark Cross. Ref Metadata Services Fund. Ref License. Ref • Open Access Metadata and Indicators • CHORUS © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

Supplemental Journal Article Materials • Joint NISO/NFAIS project (NISO RP-15 -2013) • Developed a Recommended Practice for publisher inclusion, handling, display, and preservation of supplemental journal article materials • http: //www. niso. org/workrooms/supplemental • Extending JATS to include the NISO/NFAIS Recommended Practices for Online Supplemental Journal Article Materials • Karen Gutzman and Kimberly A. Tryka. • http: //www. ncbi. nlm. nih. gov/books/NBK 159734/ © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

ORCID • ORCID provides a persistent digital identifier that distinguishes you from every other researcher and, through integration in key research workflows such as manuscript and grant submission, supports automated linkages between you and your professional activities ensuring that your work is recognized • http: //orcid. org/ • JATS support started with v 1. 0, <contrib-id> © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

ORCID Workflow: Reviewer Author Manuscript submission AUTHOR RECORD DOI Published Paper + REVIEWER RECORD Review process Accepted Paper Reviewer Database Author Database + Review request Notice to Reviewer XML to Cross. Ref Production Process © Inera Inc. , 2014. All Rights Reserved Option to update ORCID record Notice to Author JATS-Con 2014

PIE-J • Presentation and Identification of E-Journals (PIE-J) • NISO project • Develop a Recommended Practice to provide guidance on the presentation of e-journals, particularly in the areas of title presentation, accurate use of the ISSN, and citation practices • http: //www. niso. org/workrooms/piej © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

PIE-J Example © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

JAV • Journal Article Version (JAV) • NISO Project • Developed a set of recommended terms to be applied to iterations of an article's lifecycle to allow for actionable, unambiguous and reliable tools for publishers, librarians, aggregators, and indexers • Current: Addendum for "proof" category • http: //www. niso. org/workrooms/jav_addendum/ © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

Cross. Ref and JATS • • Cross. Mark Cross. Ref Metadata Services Fund. Ref

Cross. Mark • Corrections and retractions are growing • Cross. Mark is a standard method to indicate when scholarly materials are changed post-publication, including corrections, updates, errata, retractions and withdrawals • Latest news: standard vocabulary coming from Cross. Ref for correction type • http: //www. crossref. org/crossmark/index. html © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

Cross. Ref Metadata Services • Cross. Ref Metadata Services is a suite of tools for authorized partners to collect metadata on a cross-publisher basis to streamline their own crawling, indexing, and linking services. • JATS implications • Cross. Ref deposit schema now supports Math. ML • Cross. Ref deposit schema now supports JATS abstract model • http: //www. crossref. org/cms/index. html © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

Fund. Ref • More organizations (funders, publishers) want to track funding • Fund. Ref provides a standard way to report funding sources for published scholarly research. • http: //www. crossref. org/fundref/index. html • http: //www. crossref. org/fundref_registry. html • See also tools at http: //labs. crossref. org/ • JATS implications • <institution-wrap> is a container element to hold both the name of an institution (<institution>) and any identifiers for that institution (<institution-id>), for example, an INSI or Ringgold ID • Can be used in aff or funding-source © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

Fund. Ref Workflow © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

Cross. Ref Registry • This work was funded by an NIH cooperative agreement from the National Heart, Lung, and Blood Institute (grants U 01 HL 077821, U 01 HL 077826, U 01 HL 077823). National Center for Research Resources (grant UL 1 RR 025752), now at the National Center for Advancing Translational Sciences, provided laboratory testing • This material was based on work supported by the Department of Veterans Affairs, Veterans Health Administration, Rehabilitation Research and Development Service, grant F 4096 R to Milton V. Icenogle, MD, Cardiology Section, Veterans Integrated Service Network 18, Albuquerque, New Mexico. • This study was funded by Australian National Health and Medical Research Council (NHMRC) project grant 455209 • This work was supported by the German Israel Foundation under Grant No. 1– 2038. 1114. 07, the Israel Science Foundation under Grant No. 1380021, the Deborah Foundation, the Poznanski Foundation, and MAFAT © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

License Metadata Issues • Key issue: Machine-readable License metadata for automated content re-use • JATS-Con 2013/2014 paper • Inconsistent XML as a Barrier to Reuse of Open Access Content • http: //www. ncbi. nlm. nih. gov/books/NBK 159964/ © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

License. Ref © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

Open Access Metadata and Indicators • Project to develop standardized bibliographic metadata and visual indicators to describe the accessibility of journal articles as well as potentially describe how "open" the item is. • http: //www. niso. org/workrooms/oami/ • Key issue: Harmonize license and OA information • JATS Implications • <license> and <open-access> elements • Likely outcome: new best practices, but watch the NISO site for more information © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

CHORUS • The Clearinghouse for the Open Research of the United States (CHORUS) is a not-for-profit public-private partnership to increase public access to peer-reviewed publications that report on federally funded research. • Provides a solution for agencies to comply with the OSTP memo on public access using public-private partnerships where possible and avoid extra-budgetary costs • Builds on publishers’ existing infrastructure; utilizes current and developing tools, resources and protocols for identification, discovery, access, preservation and compliance (such as Cross. Ref, Fund. Ref and ORCID) • http: //chorusaccess. org/ © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

CHORUS Metadata Integration © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014

Next Steps • Review: • Standards and metadata requirements • Workflow for best metadata integration path • Consider upgrade to JATS 1. 1 d 1 • Implement revised metadata workflow • Include vital QA steps • Provide rich metadata to customers • • Cross. Ref Pub. Med or PMC OA Funders Other © Inera Inc. , 2014. All Rights Reserved JATS-Con 2014