Perfrom a text based search through PubMed

Created: 2010-07-05 13:03:35 Last updated: 2010-07-05 13:03:37

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This workflow takes in a number of search terms in which to perform a search over the PubMed literature database. These search terms may be input as if entered in the web based version of PubMed. The output from this workflow is a list of PubMed identifiers in xml based format

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Workflow Components

Authors (1)

Titles (1)

Descriptions (1)

Dependencies (0)

Inputs (1)

Name	Description
PubMed_identifiers

Processors (2)

Name	Type	Description
run_eFetch	wsdl	Wsdl http://www.ncbi.nlm.nih.gov/entrez/eutils/soap/v2.0/efetch_pubmed.wsdl Wsdl Operation run_eFetch
run_eFetch_inpp	xmlsplitter

Beanshells (0)

Outputs (1)

Name	Description
xml_output

Datalinks (3)

Source	Sink
run_eFetch_inpp:output	run_eFetch:inpp
PubMed_identifiers	run_eFetch_inpp:id
run_eFetch:outp	xml_output

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Information Workflow Type

Taverna 2

Information Uploader

Paul Fisher

Information License

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Information Version 1 (of 1)

Information Credits (1)

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Paul Fisher

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Information Statistics

1820 viewings

1578 downloads

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Perfrom a text based search through PubMed

Created by Paul Fisher on Monday 05 July 2010 13:03:35 (UTC)

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Created: 2010-07-05 | Last updated: 2011-01-26

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Uploader

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A template example workflow using U-Compar... (2)

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An example workflow using the U-Compare text mining system inside embedded. Users can easily make their own workflow with U-Compare reusing this workflow. This workflow retrieves abstract texts from Pubmed with user specified query, inputs the texts to U-Compare, interprets the output of U-Compare. You have to download and store the UIMA CPE XML descriptor file (StdinPPIExtraction-CPE-EventMine.xml) to run the default setting, which runs a event extraction text mining workflow by U-Compare. S...

Created: 2010-07-05 | Last updated: 2010-09-02

Credits: Yoshinobu Kano

Perfrom a text based search through PubMed

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Workflow Components

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Wsdl Operation

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Other workflows that use similar services (6)