Workflows

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Showing 39 results. Use the filters on the left and the search box below to refine the results.
Type: Taverna 2 Licence: by-sa Wsdl: http://soap.genome.jp/KEGG.wsdl
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Workflow Kegg pathway diagrams (1)

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Find pathways in which all the genes in the list are involved. For each pathway draw the pathway diagram.for each protein draw a diagram of the Kegg pathway that its protein is involved in and where available visualise the structures

Created: 2010-03-13

Credits: User Jannetta

Workflow Retrieve_Pubmed_Publication_by_kegg_pathwa... (1)

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This workflow shows in your browser pubmed articles related to input pathway

Created: 2012-10-18

Credits: User Massimo La Rosa User Antonino Fiannaca

Workflow Create_SNP_Set (1)

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The purpose of the workflow is to determine SNPs in the vicinity of the genes and create a SNP set for a given set of genes. The user has the freedom to choose the flanking width around the gene for determining the SNPs. The input is in the form of entrez gene ids. Biomart services are used to determine the chromosome and position of the gene as well as determining Affy gene chip 6k ids. The final report is stored as a tab-delimited text file with Affy 6 gene chip ids for the SNP and Kegg inf...

Created: 2012-08-21

Credits: User Harish Dharuri

Workflow Gene_To_Pathways (1)

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 This workflow identifier the pathways that are associated with given Kegg gene identifiers. Example inputs that can be used to run the workflow are eco:b0002, eco:b0078

Created: 2012-08-06 | Last updated: 2012-09-07

Credits: User Khalid Belhajjame User Stian Soiland-Reyes

Attributions: Workflow Hello Anyone

Workflow Gene to Pathways (1)

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This is a Taverna workflow that given a gene ID fetches the corespondondings pathways. To do so, the workflow make use of two KEGG web services.

Created: 2012-07-09 | Last updated: 2012-07-10

Credits: User Khalid Belhajjame

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Workflow FINAL VERSION (1)

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 From genome to genbank file and annotations Manual and documentation at: http://www.students.ncl.ac.uk/g.georgiou/newweb/

Created: 2012-05-04 | Last updated: 2012-05-04

Credits: User Georgeg9 Network-member BioGreen Ltd.

Attributions: Workflow Convert to KEGG ID Workflow NCBI Gi to Kegg Pathways Workflow EBI_NCBI_BLAST Workflow EBI_InterproScan_NewServices

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Workflow Get Pathway-Genes and gene description by ... (2)

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Given a specific entrez gene id, returns the pathways that this gene participates in and for each of those pathways which genes (including their description) are associated with.

Created: 2012-03-27 | Last updated: 2012-04-03

Credits: User Eleni

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Workflow Get Pathway-Genes by Entrez gene id (4)

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Given a specific entrez gene id, returns the pathways that this gene participates in and for each of those pathways which genes are associated with. The workflow outputs also a KEGG pathway map and the objects are colored according to the input color values.

Created: 2012-03-08 | Last updated: 2012-04-14

Credits: User Eleni

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Workflow Pathways and Gene annotations forQTL region (1)

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This workflow searches for genes which reside in a QTL (Quantitative Trait Loci) region in the mouse, Mus musculus. The workflow requires an input of: a chromosome name or number; a QTL start base pair position; QTL end base pair position. Data is then extracted from BioMart to annotate each of the genes found in this region. The Entrez and UniProt identifiers are then sent to KEGG to obtain KEGG gene identifiers. The KEGG gene identifiers are then used to searcg for pathways in the KEGG path...

Created: 2012-01-20 | Last updated: 2012-01-20

Credits: User Bonilla

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Workflow Pathways and Gene annotations forQTL region (1)

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This workflow searches for genes which reside in a QTL (Quantitative Trait Loci) region in the mouse, Mus musculus. The workflow requires an input of: a chromosome name or number; a QTL start base pair position; QTL end base pair position. Data is then extracted from BioMart to annotate each of the genes found in this region. The Entrez and UniProt identifiers are then sent to KEGG to obtain KEGG gene identifiers. The KEGG gene identifiers are then used to searcg for pathways in the KEGG path...

Created: 2011-11-21 | Last updated: 2011-11-21

Credits: User Prashanth

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