The Modern Palimpsest

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The Modern Palimpsest

• Leigh Dodds, Engineering Manager, IngentaConnect
• Ingenta Publisher Forum
• 28th November 2005

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Introduction

• The Scientific Paper as Palimpsest
• What could we do with better data?
• How can we achieve this?

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Palimpsests

• A little history lesson

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The Palimpsest

• Scriptio inferior (underwriting)
• Useful information just under the surface
• Reaction to high cost of publishing
• A form of re-use?
• Certainly not was intended or hoped for!

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The Modern Palimpsest

• Lets take a look

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The Scientific Paper as Palimpsest

• Loss of data during authoring and publishing
• But useful information beneath the surface
• Limited Re-use
• Non-web native format
• Limited Life time
• Once its been read, then what?

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the times they are a-changin'

• Web 2.0

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Example 1 Mapping

• New Ways to Explore Data
• Improved Browser Technologies

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Example 2 - iSpecies

• New Ways to Find Data
• Composing Services (Mashups)

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Aside Author Identifiers

• Industry needs a unique identifier for Authors
• Why not use the DOI?
• More navigation axes
• By this author (accurately!), or co-authors
• By research group/institution
• By research interest
• Social Networking, Trust

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Example 3 - HubMed

• Alternate User Interfaces
• Harvesting Collective Intelligence

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Return of the Amateur?

• an amateur may be as competent as a paid
  professional, yet is motivated by a love or
  passion for the activity
• http//en.wikipedia.org/wiki/Amateur

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Publishing Richer Metadata
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Publishing Richer Metadata

• Document Formats are Metadata Aware
• Office tools are XML based
• Open Office Bibliographic project
• Adobe XMP
• Post production enrichment
• Term extraction, e.g protein names, place names
• Backfiles
• Supplementary Data
• Publish data separately from documents

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XML is Not Enough

• The Semantic Web

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XML is Not Enough

• With the ongoing rapid increase in both volume
  and diversity of 'omic' data (genomics,
  transcriptomics, proteomics, and others), the
  development and adoption of data standards is of
  paramount importance to realize the promise of
  systems biology. A recent trend in data standard
  development has been to use extensible markup
  language (XML) as the preferred mechanism to
  define data representations. But as illustrated
  here with a few examples from proteomics data,
  the syntactic and document-centric XML cannot
  achieve the level of interoperability required by
  the highly dynamic and integrated bioinformatics
  applications
• -- From XML to RDF how semantic web
  technologies will change the design of 'omic'
  standards
• Nature Biotechnology  23, 1099 - 1103 (2005)

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Summary

• Enable new markets by enabling new uses
• Deconstruct the Scientific Paper
• Not just on the web, Part of the web