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kegg_gene_to_swissprot_identifier

Workflow Entry: kegg_gene_to_swissprot_identifier

Created at: 27/11/07 @ 11:53:11 Last updated: 28/11/07 @ 12:58:38

Version 1 (of 1)

Version created on: 27/11/07 @ 11:53:11 by: Sirisha Gollapudi | Revision comments Expand

Last edited on: 28/11/07 @ 12:58:38 by: Sirisha Gollapudi

Title: kegg_gene_to_swissprot_identifier

Type: Taverna 1

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Description

Takes a KEGG gene identifier, e.g. sce:YAL038W (yeast pyruvate kinase) and converts to the corresponding Swissprot identifier.

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Workflow Components

Inputs (1)

Name	Description
kegg_entry_id

Processors (11)

Name	Type	Description
get_linkdb_by_entry	arbitrarywsdl
returnXML	local
database	stringconstant
returnXML1	local
split	local
colon	stringconstant
extract	local
from	stringconstant
to	stringconstant
merge	local
merge1	local

Outputs (1)

Name	Description
swissprot_id

Links (12)

Sink	Source
get_linkdb_by_entry:entry_id	kegg_entry_id
split:regex	colon:value
get_linkdb_by_entry:db	database:value
merge:stringlist	extract:outputlist
extract:fromindex	from:value
returnXML:input	get_linkdb_by_entry:return
merge1:stringlist	merge:concatenated
split:string	returnXML1:entry_id2
returnXML1:input	returnXML:return
extract:inputlist	split:split
extract:toindex	to:value
swissprot_id	merge1:concatenated

Coordinations (0)

Taverna 1 workflow

Information Original Uploader

Sirisha Gollapudi

Information License

All versions of this Workflow are licensed under the Creative Commons Attribution-Share Alike 3.0 License.

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Sirisha Gollapudi

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Information Statistics

637 viewings

594 downloads

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Version History

Earliest Version:
[1] - kegg_gene_to_swissprot_identifier

Created on: Tuesday 27 November 2007 @ 11:53:11 (GMT)

Created by: Sirisha Gollapudi

Last edited on: Wednesday 28 November 2007 @ 12:58:38 (GMT)

Last edited by: Sirisha Gollapudi

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This Workflow only has one version.

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Comments (1)

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Fong Chun Chan

Good idea on all the immediate steps. There is also a biomoby service called "convertKeggGeneId2ProtId" that can do the same thing without all the grunt work of having to parse the data.