© inera inc., 2014. all rights reservedjats-con 2014 jats and the standards ecosystem presented by...

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

JATS and the Standards Ecosystem

Presented by Bruce D. Rosenblum

CEOInera Incorporated

JATS-Con, 1 April 2014


No Man Is An IslandNo man is an 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'sOr 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


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


JATS-Related Standards and Projects• Supplemental Journal Article Materials• ORCID• PIE-J• JAV• CrossRef• CrossMark• CrossRef Metadata Services• FundRef• LicenseRef

• Open Access Metadata and Indicators• CHORUS


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/NBK159734/


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>


XML to CrossRef

ORCID Workflow:

ReviewerReviewerAuthorAuthor

DOI

Notice to Reviewer

Notice to Author

Auth

or

Dat

abas

e

Manuscript submission

+

Revi

ewer

D

atab

ase

AUTHOR RECORDAUTHOR RECORD

Review process

Accepted Paper

Production Process

Published Paper

Review request

REVIEWER RECORD

REVIEWER RECORD

+

Option to update ORCID record


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


PIE-J Example


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/


CrossRef and JATS

• CrossMark• CrossRef Metadata Services• FundRef• LicenseRef


CrossMark

• Corrections and retractions are growing• CrossMark 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

CrossRef for correction type• http://www.crossref.org/crossmark/index.html


CrossRef Metadata Services

• CrossRef 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• CrossRef deposit schema now supports MathML• CrossRef deposit schema now supports JATS abstract

model• http://www.crossref.org/cms/index.html


FundRef• More organizations (funders, publishers) want to track

funding• FundRef provides a standard way to report funding sources

for published scholarly research.• http://www.crossref.org/fundref/index.html• http://www.crossref.org/fundref/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


FundRef Workflow


CrossRef Registry• This work was funded by an NIH cooperative agreement from the

National Heart, Lung, and Blood Institute (grants U01HL077821, U01HL077826, U01HL077823). National Center for Research Resources (grant UL1RR025752), 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 F4096R 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


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/NBK159964/


LicenseRef


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 license and OA

information• JATS Implications• <license> and <open-access> elements• Likely outcome: new best practices, but watch the

NISO site for more information


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 CrossRef, FundRef and ORCID)

• http://chorusaccess.org/


CHORUS Metadata Integration


Next Steps• Review:• Standards and metadata requirements• Workflow for best metadata integration path• Consider upgrade to JATS 1.1d1

• Implement revised metadata workflow• Include vital QA steps

• Provide rich metadata to customers• CrossRef• PubMed or PMC• OA Funders• Other


Questions?

Bruce RosenblumCEO

Inera [email protected]

617-932-1932

© inera inc., 2014. all rights reservedjats-con 2014 jats and the standards ecosystem presented by...

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