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Original Uploader

Paul Fisher

Entrez Gene to KEGG Pathway (v2)

Created: 03/10/07 @ 18:36:00 | Last updated: 13/11/07 @ 16:16:10

License: Creative Commons Attribution 3.0 License

This workflow takes in Entrez gene ids then adds the string "ncbi-geneid:" to the start of each gene id. These gene ids are then cross-referenced to KEGG gene ids. Each KEGG gene id is then sent to the KEGG pathway database and its relevant pathways returned.

Rating: 4.7 / 5 (3 ratings) | Versions: 2 | Reviews: 0 | Comments: 1 | Citations: 0

Viewed: 1591 times | Downloaded: 985 times

Original Uploader

Paul Fisher

Mouse Pathways and Gene annotations for QTL Phenotype (v3)

Created: 03/10/07 @ 18:36:02 | Last updated: 20/02/08 @ 16:05:45

License: Creative Commons Attribution-Share Alike 3.0 License

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...

Rating: 4.5 / 5 (2 ratings) | Versions: 3 | Reviews: 0 | Comments: 2 | Citations: 1

Viewed: 1436 times | Downloaded: 1455 times

Original Uploader

Paul Fisher

Microarray CEL file to candidate pathways (v2)

Created: 08/02/08 @ 14:17:23 | Last updated: 14/05/08 @ 15:43:23

Credits: Paul Fisher Saeedeh

License: Creative Commons Attribution-Share Alike 3.0 License

This workflow takes in a CEL file and a normalisation method then returns a series of images/graphs which represent the same output obtained using the MADAT software package (MicroArray Data Analysis Tool) [http://www.bioinf.manchester.ac.uk/MADAT/index.html]. Also retruned by this workflow are a list of the top differentialy expressed genes (size dependant on the number specified as input - geneNumber), which are then used to find the candidate pathways which may be influencing the observed ...

Rating: 0.0 / 5 (0 ratings) | Versions: 2 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 796 times | Downloaded: 2 times

Original Uploader

Thomask...

Get pathways by external reference (v2)

Created: 16/09/08 @ 11:18:51 | Last updated: 14/11/08 @ 14:21:46

Credits: Thomaskelder

License: Creative Commons Attribution-Share Alike 3.0 License

Finds pathways on WikiPathways by an external gene/protein/metabolite reference. See http://www.pathvisio.org/Help_1.1#Supported_database_systems for a list of supported database systems.

Rating: 0.0 / 5 (0 ratings) | Versions: 2 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 152 times | Downloaded: 160 times

Original Uploader

Thomask...

Download pathways for external references list (v2)

Created: 16/09/08 @ 11:32:47 | Last updated: 14/11/08 @ 14:38:31

Credits: Thomaskelder

Attributions: CloneItemsInList

License: Creative Commons Attribution-Share Alike 3.0 License

Takes a list of external references to genes/proteins/metabolites, finds all pathways on WikiPathways that contain one of the given genes/proteins/metabolites and downloads them in a given file format.

Rating: 0.0 / 5 (0 ratings) | Versions: 2 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 170 times | Downloaded: 124 times