Biomart and Blast

Created: 2010-12-13 14:41:12 Last updated: 2010-12-13 15:15:45

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Perform Rodent BLAST sequence alignments (using DDBJ Blast) on the gene sequences for a (semi-random) selection of genes from Human sapiens chromosome 22. (Using Biomart)

Referenced in the Taverna knowledge blog.

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Workflow Components

Authors (1)

Titles (4)

Descriptions (1)

Dependencies (0)

Inputs (0)

Processors (4)

Name	Type	Description
hsapiens_gene_ensembl	biomart
blast_ddbj	wsdl	Wsdl http://xml.nig.ac.jp/wsdl/Blast.wsdl Wsdl Operation searchSimple
program_value	stringconstant	Value blastn
database_value	stringconstant	Value ddbjrod

Beanshells (0)

Outputs (3)

Name	Description
gene_id
transcript_exon_intron
text_blast_out

Datalinks (6)

Source	Sink
hsapiens_gene_ensembl:hsapiens_gene_ensembl.transcript_exon_intron	blast_ddbj:query
program_value:value	blast_ddbj:program
database_value:value	blast_ddbj:database
hsapiens_gene_ensembl:hsapiens_gene_ensembl.ensembl_gene_id	gene_id
hsapiens_gene_ensembl:hsapiens_gene_ensembl.transcript_exon_intron	transcript_exon_intron
blast_ddbj:Result	text_blast_out

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Information Workflow Type

Taverna 2

Information Uploader

Stian Soiland-Reyes

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BLAST using DDBJ service

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Biomart and Blast with concatinated gene id

Information Favourited By (1)

Vz33

Information Statistics

2476 viewings

1689 downloads

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Version History

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Biomart and Blast

Created by Stian Soiland-Reyes on Monday 13 December 2010 14:41:12 (UTC)

Last edited by Stian Soiland-Reyes on Monday 13 December 2010 15:15:45 (UTC)

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