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gene identifier

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Items tagged with "gene identifier" (4)

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Workflows (4)

Taverna 1

Original Uploader

Paul Fisher

Simpliy a BLAST text file (v2)

Created: 03/10/07 @ 18:36:06 | Last updated: 13/11/07 @ 16:28:08

License: Creative Commons Attribution-NoDerivs 3.0 License

This workflow simplifies a BLAST text file into identifiers, descriptions and values (P, E-values). In order to extract the relevant ids etc. you need to pass the relevant string into the corresponding port, e.g. the default port being used is gi. This has been passed "gi". For any other ports simply pass in the string the SAME as the port name, e.g. seq_id, p, per etc.

Rating: 4.0 / 5 (1 rating) | Versions: 2 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 935 times | Downloaded: 713 times

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Taverna 1

Original Uploader

Sirisha Gollapudi

kegg_gene_to_swissprot_identifier (v1)

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

Credits: Sirisha Gollapudi

License: Creative Commons Attribution-Share Alike 3.0 License

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

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 1 | Citations: 0

Viewed: 586 times | Downloaded: 537 times

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Taverna 1

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

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Taverna 1

Original Uploader

Paul Fisher

Human Pathways from Diff Expressed Genes (v1)

Created: 08/02/08 @ 14:30:18 | Last updated: 08/02/08 @ 14:30:19

Credits: Paul Fisher

License: Creative Commons Attribution-Share Alike 3.0 License

This workflow takes in probesets from and AffyMetrix micorarray experiment and returns: the genes in the QTL; gene start and end positions; chromosome where genes reside; ensembl trasncripts; SwissProt ids; affy probeset identifiers for chips Mouse430_2 and Mouse430a_2. The final output of the workflow is a list of candidate pathways which are linked to the genes expressed in the microarray data

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 1 | Citations: 0

Viewed: 578 times | Downloaded: 6 times

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