niso-nfais supplemental journal article materials working group

Supplemental Information: Who’s Doing What and Why

NISO-NFAIS Supplemental Journal Article Materials Working Group

Alexander (‘Sasha’) SchwarzmanCo-chair, NISO-NFAIS Working Group on

Journal Article Supplemental Materials

CSE 2012 Annual Meeting

Seattle, WA20 May 2012

Deluge: sup. mat. ratio

Seattle, WA 20 May 2012 CSE 2012 Annual Meeting 2

Chart courtesy of Ken Beauchamp, American Society for Clinical Investigation

Examples


Supplemental Material for

Male-Male and Male-Female Aggression May Influence Mating Associations in Wild Octopuses (Abdopus aculeatus)

Christine L. Huffard, Roy L. Caldwell, and Farnis BonekaJournal of Comparative Psychology, Vol. 124, No. 1, pp. 38–46. View articleFiles: Huffard_Supplementary_Table_1.docHuffard_Abdopus_fight.mpg

This content was submitted by the author as supplemental material for an article published in APA’s PsycARTICLES. The content is presented as the author submitted it. APA assumes no liability for errors or omissions and makes no warranties of any kind. APA assumes no responsibility for any reader’s use of the materials. All questions regarding the supplemental data should be directed to the corresponding author of the published article. The reader is expected to respect the intellectual property of the author and the copyright of the American Psychological Association (APA). The content should not be reused without permission from the author and APA.

http://dx.doi.org/10.1037/a0017230

http://supp.apa.org/psycarticles/supplemental/com_124_1_38/Huffard_Supplementary_Table_1.doc

http://supp.apa.org/psycarticles/supplemental/com_124_1_38/Huffard_Abdopus_fight.mpg

Examples (cont’d)


Supporting Info for: Yu J., et al. (2005), The Genomes of Oryza sativa: A History of Duplications, PLoS Biol. 3(2), e38.…Figure S7. Duplicated Segments in the Beijing indica Assembly.

Plotted in the Manner of Figure 6, and with a Total of 12 Panels(507 KB ZIP).Table S1. Raw Data for Beijing indica and Syngenta japonica

AssembliesRead length is the number of Q20 bases. Clone sizes are specified in

terms of 10th and 90th percentiles.(16 KB XLS).

…

http://www.plosbiology.org/article/fetchSingleRepresentation.action?uri=info:doi/10.1371/journal.pbio.0030038.sg007

http://www.plosbiology.org/article/info:doi/10.1371/journal.pbio.0030038

http://www.plosbiology.org/article/fetchSingleRepresentation.action?uri=info:doi/10.1371/journal.pbio.0030038.st001

Examples (cont’d)


Cell, Volume 144, Issue 4, 480-497 18 February 2011doi:http://dx.doi.org/10.1016/j.cell.2011.01.033Revisiting the Central Dogma One Molecule at a Time

Supplemental Data for Bustamante et al.Document S1. Extended Discussion, Two Figures, and Supplemental References (PDF 534 kb)

doi:10.1016/j.cell.2011.01.033

http://download.cell.com/mmcs/journals/0092-8674/PIIS0092867411001073.mmc1.pdf

http://download.cell.com/mmcs/journals/0092-8674/PIIS0092867411001073.mmc1.pdf

What is in the Pandora’s box?

• Multimedia• Chemical structures, crystallographic structures, 3-

D images, gene sequences, protein structures • Computer programs (algorithms, code, libraries, and

executables)• Tables, Figures, Text (Experimental procedures, Extended

methodology, Survey results, Derivations, Extended bibliographies, …)

• Datasets (datasets are not the focus of this group)


Supplemental materials: good idea

Enabling technology makes it possible for:• authors to present supporting evidence, e.g.,

multimedia, data sets, computer programs;• researchers to reveal in-depth studies that

would not be available in print;• readers to replicate experiments and verify

results.


Questions to ponder


• Degree of importance. Are all supplemental materials equally important? As a busy editor, reviewer, or reader; which ones must I focus on?

• Discoverability. How do I (librarian, indexer) know the article has supplemental materials? (Deadbeat parent)

• Identification. How do I know which article is the parent of orphaned / abandoned supplemental materials?

• Citing and linking. How do I provide a persistent link to the supplemental materials, and how do I cite them?

Questions to ponder (cont’d)


• Viability and preservation. Will it be possible to render (read, play, execute, etc.) sup. mat. in 20 years? 200 years? It is likely that sup. mat. will have to undergo periodic migration. Then, do I look at the original or the converted object? Are they equivalent?

• Transmission and packaging. When fulfilling an interlibrary loan request or transmitting sup. mat. to an archive, how do I package them with the article? How do I ensure that nothing was lost or corrupted?

Questions to ponder (cont’d)


• Intellectual property rights. Who has rights over sup. mat., and where are they recorded?

• Curatorial responsibility. Who has custody over sup. mat.: author, publisher, library, data center, institutional repository, archive, any other actor?

• Business models. If someone is going to provide peer review, identification, description, linking, preservation, and maintenance of sup. mat’s, what sustainable business models could support the expense?

Who cares? You should – if you …

… play a role in the scholarly communication process as an:

• Editor / Reviewer / Author / Reader• Publisher• Hosting platform / Institutional Repository /

Data center / Individual• A&I service• Reference linking and Citation indexing service• Librarian / Archivist / Historian of scholarship


Researcher community response

One camp:• More supplemental materials should be made

available! • Technology will solve most problems!

The other camp:• Scholarly journal is not a data dump!• An article is not an FTP site!Seattle, WA 20 May 2012 CSE 2012 Annual Meeting 12

Publisher community response

• 2009: Cell imposes limits on the number and kind of supplemental materials accepted

• 2010: The Journal of Neuroscience bans supplemental materials altogether; intends to embed dynamic content in its articles’ PDF

• 2011: The Journal of Experimental Medicine limits supplemental materials only to "essential supporting information"


Chronology• February 2009: NFAIS Best Practices for

publishing journal articles• November 2009: Schwarzman’s White Paper

on supplemental materials survey results• January 2010: NISO-NFAIS supplemental

materials Thought Leader Roundtable• August 2010: NISO-NFAIS Working Group on

journal article supplemental materials


http://www.nfais.org/files/file/Best_Practices_Final_Public.pdf

http://www.agu.org/dtd/Presentations/sup-mat/

http://www.niso.org/topics/tl/supplementary

http://www.niso.org/workrooms/supplemental

NISO / NFAIS Working Group


Supplemental materials: Pseudo vs. truly

• Print model: article layout implicitly reflected functional distinction between essential and nonessential objects (body vs. appendix)

• Mixed electronic-print model: both essential and nonessential objects are often treated as “supplemental materials” – yet, some are NOT

• Is the material essential or not? This must be stated explicitly for machine and human reader


Dimension 1: Importance • Integral (“pseudo-supplemental”)

Essential for full understanding of work but treated as if it were supplemental.Rationale: technical, business, or logistical limitations

• Additional (“truly supplemental”)Not critical for understanding the work.Relevant and useful – but still optional

The distinction is conceptual and has NOTHING TO DO with formats


Dimension 2: Custody

• PublisherRecommended practices offered

• Institutional repository or Data centerThe publisher has no responsibility or authority over content and does not host it. No recommended practices offered

• IndividualNot appropriate for hosting supplemental materials


Supplemental materials classification

Importance

Curated by

Integral Additional

Publisher Recommended practices offered

Institutional repository or Data center

No recommended practices offered[large data sets]

Individual Not appropriate


• Recommended Practices: scope and general principles• Definitions: sup. mat., article, data, metadata, etc.• Curation and life cycle: selection, peer review, editing,

presentation, providing context, referencing, citing, managing/hosting, discovery, preservation

• Intellectual property rights management• Roles and responsibilities of authors, editors, reviewers,

publishers, libraries, A&I services, repositories

Business Working Group – policiesCo-chairs: Linda Beebe (APA), Marie McVeigh (Thomson-Reuters ISI)


• Metadata, incl. persistent identifiers• Preservation, incl. archiving and migration• Packaging for exchange and delivery

Technical Working Group – “how”Co-chairs: Dave Martinsen (ACS), Sasha Schwarzman


Recommended business practicesIntegral sup. mat’s Additional sup. mat’s

Selecting / Peer reviewing

At the same level as the article May not be reviewed at the same level

Copyediting At the same level as article. Should be noted if not

May not be edited at the same level. If so, should be noted

Referencing within article

Cite / link at the same level as table or fig. No ref. list entry: this content is part of the article

Provide in-text citation and link at the appropriate point in text, rather than at the end

Identifying DOI must be assigned DOI may be assigned

References within sup. mat.

Integrate references into the ref. list of the article(Biophysical Journal)

Keep references separate from the article ref. list


Recommended business practices (cont’d)Integral sup. mat’s Additional sup. mat’s

Preserving Preserve at the same level as the article

Provide the same level of metadata markup

Include in migration plans

Take preservation into consideration when accepting

If uncertain about preservation, have author submit to a trusted repository and link to it

Intellectual property rights

Treat rights in the same manner as the rights for the article

Anyone who has access to the article should also have access to Integral sup. mat’s

Determination of rights for Additional content may differ and should be transparent to users


Recommended business practices (cont’d)

• Identifying / linking and managing sup. mat. Sup. mat’s should be linked, bi-directionally, to and

from the article Integral and Additional content should not be mixed If journal content is hosted by a host / aggregator it

should also deliver supplemental materials An author’s website is not an appropriate place for the

sole posting of supplemental materials



• Discovering supplemental materials Consistent placement, naming, and navigation

- on the ToC- on the landing page- in the article- in the supplemental materials

Consistency across the articles and across journals Aid A&I services by including metadata that indicate

the function and format of the sup. mat’s



• Providing context for sup. materialsInclude on a landing page or within the content: Article citation and DOI Title and/or succinct statement about sup. mat’s For multimedia: player, file extension, and size List multiple files Browser information, if supplemental mat.’ rendition

is browser-dependent Sup. mat. DOI or another persistent identifier


Recommended technical practices

• Minimal metadata Article DOI Supplemental materials DOIs Supplemental materials function: Integral,

Additional, or both Supplemental material content description File formats of supplemental physical objects


Recommended technical practices (cont’d)

Non-DOI IDs Contributors Titles Languages Creation date Original or converted Subject descriptors Alt. descriptions

(accessibility)

Summary for download Content descriptor Copyright and licensing Preservation level Application and platform

- created with- to be used for rendering

Additional file information- file names, file sizes- mimetype, fixity, validity


• Extended metadata for supplemental materials


• Preservation Publisher must choose its preservation strategy.

WG recommends migration over emulation Retention

- Integral objects: original + two latest converted- Additional objects: original + the latest converted

File formats- Publishers uses formal registries, e.g., PRONOM, UDFR- Publisher defines the formats it will support



• Packaging Article and all its components should be

transferable in a single package, e.g., to fulfill interlibrary loan request, to perform a deposit to an archive or a repository, etc.

There are a number of different packaging specifications available, and this Working Group does not intend to design a new one nor require the use of any particular specifications or tools.



• Manifest- Journal ID (ISSN)- Article ID (DOI, citation)- Supplemental materials DOIs- List of all files contained in the package. For each:

Function: Integral, Additional, or both File name, File size, File description Rendering application information Detailed copyright information Instructions


SourcesBeebe, L. (2010), Supplemental materials for Journal articles: NISO/NFAIS Joint Working Group,

Information Standards Quarterly 22(3), p.33, doi:http://dx.doi.org/10.3789/isqv22n3.2010.07 Carpenter, T. (2009), Journal article supplementary materials: A Pandora’s box of issues needing

best practices, Against the Grain 21(6), p.84Marcus, E. (2009), Taming supplemental material, Cell 139(1), p.11, doi:doi:http://dx.doi.org/

10.1016/j.cell.2009.09.021Maunsell, J. (2010), Announcement regarding supplemental material, The Journal of Neuroscience

30(32): p.10599NFAIS (2009), Best practices for publishing journal articles, 30 pp.,

http://www.nfais.org/files/file/Best_Practices_Final_Public.pdf Schwarzman, S. (2010), Supplemental materials survey, Information Standards Quarterly 22(3),

p.23, doi:doi:http://dx.doi.org/10.3789/isqv22n3.2010.05 http://www.agu.org/dtd/Presentations/sup-mat/10.3789_isqv22n3.2010.05.pdf

NISO/NFAIS Supplemental journal article materials projecthttp://www.niso.org/workrooms/supplemental

[email protected]


http://dx.doi.org/10.3789/isqv22n3.2010.07




http://dx.doi.org/10.1016/j.cell.2009.09.021



http://www.nfais.org/files/file/Best_Practices_Final_Public.pdf




http://www.agu.org/dtd/Presentations/sup-mat/10.3789_isqv22n3.2010.05.pdf

http://www.niso.org/workrooms/supplemental

niso-nfais supplemental journal article materials working group

Technology

supplemental information

annual meetingseattle

annual meeting6

group seattle

published article

timesupplemental data

data sets

raw data