iOpener Workbench: Tools for Rapid Understanding of Scientific Literature Cody Dunne, Ben Shneiderman, Bonnie Dorr & Judith Klavans {cdunne, ben, 27 th Annual Human-Computer Interaction Lab Symposium May 27-28, 2010College Park, MD

iOpener Workbench

Contribution Infrastructure for rapidly summarizing scientific endeavor – Integrate statistics, visualization, reference management, and automatic summarization – Multiple coordinated views

Use Cases Learn about new fields Understand how communities form Analyze citation patterns within communities Easily explore & export all papers in a community

What we integrate Potent network analysis tool – SocialAction – Citation network statistics & visualization – Automatic community detection & visualization Reference & document management – JabRef – Powerful reference manager with extensive features for search, grouping, review, annotation, and export Document view with citation linking & highlight Automatically generated summaries – Citation text, keywords, abstracts

What can you do with a graph? Statistics, lists, and text is helpful, but Visualizations show unexpected trends, clusters, gaps, outliers Data cleaning & verification “Information visualization answers questions you didn't know you had” – Ben S.

Importance of Survey Articles Rapidly expanding disciplines Large volume of scientific publications Increasing cross-disciplinary research Need for accurate surveys of previous work – Short summaries – In-depth historical notes Multiple users – Scientists – Students & Educators – Government decision makers

iOPENER NSF Info Integration & Informatics program Information Organization for PENning Expositions on Research

Components Bibliometric lexical link mining Automatic summarization techniques Visualization tools for structure and content

Ongoing Work Increase preprocessing of citation texts to vastly improve trimmer summary comprehension Preliminary case studies with UMD student domain experts – Dependency parsing subset of the ACL Anthology Network (AAN)

Coming Soon Multi-dimensional in-depth long-term case studies – longitudinal case studies with domain experts using their data – close participant observation Software & generated surveys publicly available and presented to academia and wider audiences

iOpener Workbench Infrastructure to aid rapid summarization of scientific literature Integrates – Statistics – Visualization – Reference management – Automatic summarization

iOpener Workbench: Tools for Rapid Understanding of Scientific Literature Cody Dunne, Ben Shneiderman, Bonnie Dorr & Judith Klavans {cdunne, ben, tangra.si.umich.edu/clair/iopener This work has been partially supported by NSF grant "iOPENER: A Flexible Framework to Support Rapid Learning in Unfamiliar Research Domains", jointly awarded to UMD and UMich as IIS

Network Analysis

Reference Manager

Document & Citation View

Summarization

Features – Network analysis SocialAction (Perer, Shneiderman) Citation network visualization – Force-directed placement (by linkages) Scatterplots of paper attributes & statistics Statistics rank tables Categorial and numerical range coloring Automatic community detection – Newman '04 fast heuristic

Features – Reference Manager Search by field with simple regex – abstract|keywords=nonprojective and year = 2008 Grouping -- automatic, search results, manual DOI/URL, fulltext (annotated PDF, plain text) Metadata, abstracts User generated reviews BibTeX, Word, OpenOffice integration HTML, EndNote export

Document view - features Citation links Highlighting

Summarization - Features Automatically generated summaries Citation text, keywords, abstracts Working to substantially improve coherence & relevance