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kegg_gene_to_swissprot_identifier

Created: 2007-11-27 11:53:11 Last updated: 2007-11-28 12:58:38

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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

Beanshells (0)

Outputs (1)

Name	Description
swissprot_id

Links (12)

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

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Information Workflow Type

Taverna 1

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Sirisha Gollapudi

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Sirisha Gollapudi

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2556 viewings

2406 downloads

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kegg_gene_to_swissprot_identifier

Created by Sirisha Gollapudi on Tuesday 27 November 2007 11:53:11 (UTC)

Last edited by Sirisha Gollapudi on Wednesday 28 November 2007 12:58:38 (UTC)

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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.

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