Innovation & Supplementary Material Eleonora Presani – Elsevier

Overview  Data & the Scientific Article  Supplementary Material  Connecting with Data Repositories  Online Linking Schemes  Article-level & Entity-level Linking  Examples  Applications  SciVerse Applications  Applications and Data  The Article of the Future 2

Supplementary Material  Authors can upload Supplementary Material with their paper Pro’s Coupling of data and article Peer review Citation mechanism Preservation (byte-wise) Con’s Limited data type support Compatibility (format support) Limited capacity Data not centrally stored

Connecting with Data Repositories  Supplementary material is not a perfect solution  Many poor solutions in use: data on PCs, university websites, personal homepages,...  Data repositories: the community’s answer?  Scientists prefer independent data repositories above publishers  Domain-specific coordination  Centralized information “hubs”  “Raw data should be freely accessible to researchers” “... believe that, as a general principle, data sets, raw data outputs of research, and sets or subsets of that data should wherever possible be made freely accessible to other scholars...” (Statement from STM & ALPSP, June 2006)

DB Linking Option 1: Entity Linking  For entities (concepts) mentioned in an article – proteins, genes, standards planets, cities, etc. etc.  Author-tagged in manuscript

Option 2: Image-based (article) linking  For links between article as a whole and related data sets  No author involvement required on Elsevier side  Links managed by data repository dx.doi.org/ /j.gca

HEPData Linking 7 (Mike Whalley)

SciVerse Applications  Scientific literature: a node that could more efficiently connect resources  Mass of data available to researchers outside the formal literature is huge and growing  Many disconnected nodes - minimal interoperability, even when connections exist  This is inefficient - task switching between multiple interfaces, hard to find resources...  An open platform for publishing can “un-silo” data and literature  Smart apps can facilitate interoperability, bring relevant data into context with papers  Integrated user experience, save researchers from searching in multiple data sources while reading the literature  Introduces researchers to new tools and resources they may never have found otherwise

SciVerse Applications 9  Use information from SciVerse and the web  Support for rich user interfaces  Integrated directly into the online article  Simple to build using Content and Framework APIs  Open standards (Apache Shindig, Open Social) Features & Benefits

SciVerse Applications & Data  SciVerse Applications enable the community to create the publishing platform they need by building their own applications.  Benefits for data repositories  Increase visibility, discoverability, and usage (ScienceDirect: ~600M page views/year)  Provide context: connect data with the formal literature, avoid misinterpretations and incorrect usage  Enable researchers to interactive explore data

Applications example: NCBI Genome Viewer 11  Scans the article and builds list of sequences based on NCBI accession numbers tagged in the article  View/analyze sequence data from genes in the article using NCBI Sequence Viewer  See specific information about each strand; zoom in/out; export data Screenshots of journal article on ScienceDirect (

Applications example: PANGAEA 12  Document identifier sent to PANGAEA data repository for earth sciences  PANGAEA returns map plotted with locations where cited data was collected  Push-pins open with details of dataset and direct link to data on PANGAEA.de Screenshots of journal article on ScienceDirect (

NED/SIMBAD Linking

Example: PDGLive linking 14 MOCK-UP

Putting all together: Article of the Future Three components of the Article of the Future concept:  Presentation: Offering an optimal online browsing and reading experience  Content: Support authors to share a wider range of research output – data, computer code, multimedia files, etc.  Context: Connecting the online article to trustworthy scientific resources to present valuable additional information in the context of the article 

Examples of features of interest for HEP  Supplementary Material  ROOT Files support  Inline SourceCode  DataBase linking  HEPData  PDG  Applications  MatLab viewer  Interactive Plots  ROOT Viewer