Get concept information

Created: 2012-07-06 14:20:40 Last updated: 2014-07-14 11:18:46

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The workflow takes a concept ID as input and returns the ID, definition and name of the concept.

This workflow can be used together with other workflows in this pack: http://www.myexperiment.org/packs/282 for functional gene and SNP annotation and knowledge discovery.

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Workflow Components

Authors (1)

Titles (1)

Descriptions (1)

Dependencies (0)

Inputs (1)

Name	Description
Concept_ID	Concept ID of the concept to retrieve name and definition for.

Processors (6)

Name	Type	Description
getConceptProfile	wsdl	This Web service returns the concept profile for a given concept ID. Wsdl http://ws.biosemantics.org/ConceptRecognizerService?wsdl Wsdl Operation getConceptProfile
getConceptProfile_input	xmlsplitter
getConceptProfile_output	xmlsplitter
getConceptProfile_return	xmlsplitter
return_ConceptVector	xmlsplitter
ConceptVector_ConceptVector	xmlsplitter

Beanshells (0)

Outputs (5)

Name	Description
Concept_ID	The concept ID.
Concept_definition	The definition of the concept.
Concept_name	The name of the concept.
Concept_ID_for_concept_in_profile	The concept IDs for the concepts in the profiles (currently max 10.000 IDs)
Value_for_concept_in_profile	The values for the concepts in the profiles (currently max 10.000 values)

Datalinks (11)

Source	Sink
getConceptProfile_input:output	getConceptProfile:parameters
Concept_ID	getConceptProfile_input:conceptId
getConceptProfile:parameters	getConceptProfile_output:input
getConceptProfile_output:return	getConceptProfile_return:input
getConceptProfile_return:ConceptVector	return_ConceptVector:input
return_ConceptVector:ConceptVector	ConceptVector_ConceptVector:input
getConceptProfile_return:conceptId	Concept_ID
getConceptProfile_return:definition	Concept_definition
getConceptProfile_return:name	Concept_name
ConceptVector_ConceptVector:queryConceptID	Concept_ID_for_concept_in_profile
ConceptVector_ConceptVector:score	Value_for_concept_in_profile

Coordinations (0)

Information Workflow Type

Taverna 2

Information Uploader

Kristina Hettne

Information License

All versions of this Workflow are licensed under:

Information Version 4 (of 5)

Information Credits (5)

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Information Tags (3)

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Information Attributed By (1)

(Workflows/Files)

Match concept to HPO profiles

Information Favourited By (0)

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Information Statistics

3662 viewings

1463 downloads

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Citations (0)

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Version History

In chronological order:

Get concept information

Created by Kristina Hettne on Friday 06 July 2012 14:20:40 (UTC)
Get concept information

Created by Kristina Hettne on Wednesday 18 July 2012 13:55:32 (UTC)

Revision comment:

Added annotations.
Get concept information

Created by Kristina Hettne on Friday 14 September 2012 09:56:11 (UTC)
Get concept information

Created by Kristina Hettne on Tuesday 05 February 2013 20:44:31 (UTC)
Get concept information

Created by Kristina Hettne on Monday 14 July 2014 11:18:46 (UTC)

Revision comment:

Edited examples to reflect latest concept database update. Workflow now also return the profile in XML in order to avoid memory issues when splitting the list.

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Other workflows that use similar services (18)

Only the first 2 workflows that use similar services are shown. View all workflows that use these services.

Taverna 2

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Marco Roos

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: Marco Roos Martijn Schuemie Reinout van Schouwen BioSemantics

Taverna 2

Uploader

Reinout van Schouwen

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: Reinout van Schouwen

Get concept information

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Other workflows that use similar services (18)