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Find co-occurring documents

Created: 2012-07-13 07:45:39      Last updated: 2014-07-14 10:29:26

Purpose: This workflow search an indexed literature database for documents mentioning both of the input concepts.

Author comments:

Currently, PubMed is the underlying data source.

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Inputs (3)
Processors (6)
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Outputs (2)
Datalinks (10)
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Information Workflow Type

Taverna 2

Information Uploader

3772?size=60x60 Nl Kristina Hettne

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Information Version 6 (latest) (of 6)

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Information Statistics

3731 viewings

4609 downloads

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Version History

In chronological order:

  1. Find co-occurring documents

    Created by Kristina Hettne on Friday 13 July 2012 07:45:39 (UTC)

  2. Find co-occurring documents

    Created by Kristina Hettne on Wednesday 18 July 2012 13:52:39 (UTC)

    Revision comment:

    Added annotations.

  3. Find co-occurring documents

    Created by Kristina Hettne on Friday 14 September 2012 09:44:06 (UTC)

  4. Find co-occurring documents

    Created by Kristina Hettne on Friday 14 September 2012 09:51:47 (UTC)

  5. Find co-occurring documents

    Created by Kristina Hettne on Tuesday 05 February 2013 20:35:52 (UTC)

  6. Find co-occurring documents

    Created by Kristina Hettne on Monday 14 July 2014 10:29:26 (UTC)

    Revision comment:

    Edited examples to reflect latest concept database update.



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Comments Comments (1)

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  • 3400?size=60x60 Gb Khalid Belhajjame
    		Friday 07 September 2012 14:12:25 (UTC)

     This workflow is simple, well document and can ran as of the 7th of September using the Taverna workbench. Well done Kristina.

    khalid



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30?size=60x60 Nl Marco Roos

Workflow DatabaseID to ConceptID (7)

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Purpose: This workflow maps input Identifiers, common database identifiers, to the Concept Identifiers from the EMC ontology. Result: Concept Identifiers from the EMC ontology. Comments: Database: one of CAS, DRUG, etc. The supported databases are listed below (database, description, example). CAS, Chemical Abstracts Service registry number, 64-17-5. DRUG, Drug Bank, DB00316. AF, Affymetrix, 200007_at. CHEB, ChEBI, 16236. CHID, ChemIDplus, 0000050000. EG, Entrez-Gene, 3064. GO, Gene Ontol...

Created: 2012-06-25 | Last updated: 2014-07-14

Credits: User Marco Roos User Martijn Schuemie User Reinout van Schouwen Network-member BioSemantics

Taverna 2
Uploader
2286?size=60x60 Nl Reinout van Schouwen

Workflow Explain concept scores (7)

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Purpose of workflow: This workflow takes two concept ids as input and returns the top ranking "B" concepts according to Swanson's ABC model of discovery, where the relationships AB and BC are known and reported in the literature, and the implicit relationship AC is a putative new discovery. It might also be the case that AC is already known. In that case AC does not represent a new discovery but will still be returned (see workflow example values). The B concepts are returned sorted on the pe...

Created: 2012-02-07 | Last updated: 2014-07-14

Credits: User Reinout van Schouwen

Funded by: BioVeL, EPSRC, JISC, Microsoft

Affiliates: myGrid, Taverna, BioCatalogue
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