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Markup in the mobilization of biodiversity literature

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A contribution to the pro-iBiosphere Final Conference on June 12, 2014 in Meise, Belgium. More info via http://wiki.pro-ibiosphere.eu/wiki/Final_Conference .

A contribution to the pro-iBiosphere Final Conference on June 12, 2014 in Meise, Belgium. More info via http://wiki.pro-ibiosphere.eu/wiki/Final_Conference .

Published in: Science, Technology

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  • 1. Daniel Mietchen Markup in the mobilization of biodiversity literature Museum für Naturkunde Berlin
  • 2. ● hundreds of millions of pages ○ ca. 20k treatments of new taxa per year ○ 50-100k re-descriptions annually ○ scattered across thousands of journals and books Biodiversity literature
  • 3. ● geared towards the human reader ● not machine-readable (scans/ PDF) ● accumulated over three centuries ● includes much of what is published today Legacy literature
  • 4. ● digital > paper-only ● open access > hidden ● with > without open data ● soon: machine readable > PDF ● these biases may skew analyses Use & citation
  • 5. ● identifying concepts ● linking them using controlled vocabularies ● integrating with other sources of information Markup
  • 6. Reis et al. (2008), marked up by Shotton et al. (2009). CC BY 2.5
  • 7. ● automated markup of prospective literature ● crowdsourced markup of legacy literature ● semi-automated markup with expert assistance Scaling up
  • 8. ● mark up taxonomic publications henceforth ● focus on revisionary works (biotas) ● adjust granularity to concrete use cases ● follow standards ● automate workflows Recommendations
  • 9. Image credit: Playingwithbrushes, CC BY 2.0