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Reflect: Augmented Browsing for the Life Scientist
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  • Published: 04 May 2009

Reflect: Augmented Browsing for the Life Scientist

  • Evangelos Pafilis1,
  • Seán O'Donoghue1,
  • Lars Jensen2,
  • Heiko Horn1,
  • Michael Kuhn1,
  • Nigel Brown1 &
  • …
  • Reinhard Schneider1 

Nature Precedings (2009)Cite this article

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Abstract

Anyone who regularly reads life science literature often comes across names of genes, proteins, or small molecules that they would like to know more about. To make this process easier, we have developed a new, free service called Reflect ("http://reflect.ws":http://reflect.ws) that can be installed as a plug-in to Firefox or Internet Explorer. Reflect tags gene, protein, and small molecule names in any web page, typically within a few seconds, and without affecting document layout. Clicking on a tagged gene or protein name opens a popup showing a concise summary that includes synonyms, database identifiers, sequence, domains, 3D structure, interaction partners, subcellular location, and related literature. Clicking on a tagged small molecule name opens a popup showing 2D structure and interaction partners. The popups also allow navigation to commonly used databases. In the future we plan to add further entity types to Reflect, including outside the life sciences.

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Authors and Affiliations

  1. European Molecular Biology Laboratory, Germany

    Evangelos Pafilis, Seán O'Donoghue, Heiko Horn, Michael Kuhn, Nigel Brown & Reinhard Schneider

  2. NNF Center for Protein Research, University of Copenhagen, Denmark

    Lars Jensen

Authors
  1. Evangelos Pafilis
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  2. Seán O'Donoghue
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  3. Lars Jensen
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  4. Heiko Horn
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  5. Michael Kuhn
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  6. Nigel Brown
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  7. Reinhard Schneider
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Corresponding author

Correspondence to Seán O'Donoghue.

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Cite this article

Pafilis, E., O'Donoghue, S., Jensen, L. et al. Reflect: Augmented Browsing for the Life Scientist. Nat Prec (2009). https://doi.org/10.1038/npre.2009.3212.1

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  • Received: 02 May 2009

  • Accepted: 04 May 2009

  • Published: 04 May 2009

  • DOI: https://doi.org/10.1038/npre.2009.3212.1

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Keywords

  • text mining
  • entity recognition
  • small molecules
  • curation
  • plug-in
  • bioinformatics
  • browser
  • proteins
  • chemicals
  • drugs
  • semantic markup
  • PubChem
  • STITCH
  • SMART
  • PDB
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