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User: Rafael C. Jimenez
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Workflow Find Reactome pathways and reactions by GO (1)

Created: 29/05/11 @ 19:09:23 | Last updated: 29/05/11 @ 19:09:25

Credits: User Rafael C. Jimenez

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Find Reactome pathways and reactions (names and accessions) in Human querying by a Gene Ontology term. This is an example of how to use the Reactome Biomart service in Taverna. Many other possibilities are possible by modifying the filters and attributes options of the service.

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

Viewed: 34 times | Downloaded: 8 times

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Workflow PSICQUIC Registry (Molecular Interactions ... (1)

Created: 20/07/11 @ 11:04:26 | Last updated: 20/07/11 @ 14:55:44

Credits: User Rafael C. Jimenez

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Query the PSICQUIC registry to retrieve information about services providing molecular interactions

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

Viewed: 8 times | Downloaded: 4 times

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Workflow Retrieve Molecular Interactions from PSICQ... (1)

Created: 05/10/11 @ 00:40:20 | Last updated: 05/10/11 @ 00:40:22

Credits: User Rafael C. Jimenez

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Retrieve Molecular Interactions from PSICQUIC Services for a list of Protein Accessions in PSI-MITAB format

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

Viewed: 10 times | Downloaded: 4 times

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Workflow Parse QuickGO "proteinList" file format (1)

Created: 20/02/12 @ 23:28:03 | Last updated: 20/02/12 @ 23:28:04

Credits: User Rafael C. Jimenez

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Parse QuickGO "proteinList" file format. http://www.ebi.ac.uk/QuickGO/reference.html

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

Viewed: 14 times | Downloaded: 6 times

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Original Uploader

Workflow Select redundant accessions (1)

Created: 31/01/11 @ 15:32:23 | Last updated: 31/01/11 @ 15:32:24

Credits: User Rafael C. Jimenez

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Simple workflows to select accessions which appear more than once. Chose threshold to specify how many times an accession has to appear to be selected. This workflow uses a list of Comma-separated values as input. The accessions selected is the result which is presented in a String of Comma-separated values.

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

Viewed: 11 times | Downloaded: 8 times

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Original Uploader

Workflow DAS sequence retrieval and parsing with JDAS (1)

Created: 30/05/11 @ 03:12:23 | Last updated: 30/05/11 @ 03:14:03

Credits: User Rafael C. Jimenez

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Retrieve Protein or Genome sequences using the Distributed Annotation System (DAS) and create your own text output by modifying the JDAS component. To be able to use this workflow with JDAS, copy this file … http://www.ebi.ac.uk/~maven/m2repo/uk/ac/ebi/das/jdas/1.0.3/jdas-1.0.3.jar … to the lib folder inside the Taverna application. This jar file is a dependency needed to parse DAS outputs.

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

Viewed: 15 times | Downloaded: 8 times

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Workflow Get a PSICQUIC REST URL from a PSICQUIC SO... (1)

Created: 22/07/11 @ 11:30:30 | Last updated: 22/07/11 @ 11:31:05

Credits: User Rafael C. Jimenez

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Get a PSICQUIC REST URL from a PSICQUIC SOAP URL

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

Viewed: 12 times | Downloaded: 7 times

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Workflow Find orthologs using a list of uniprot acc... (1)

Created: 14/10/11 @ 13:12:36 | Last updated: 14/10/11 @ 13:12:39

Credits: User Rafael C. Jimenez

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Find orthologs based on ensembl information using as input/output uniprot accessions

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

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Workflow Get models from BioModels including the in... (3)

Created: 22/08/12 @ 06:18:53 | Last updated: 24/08/12 @ 02:30:55

Credits: User Rafael C. Jimenez

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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A service to look for models in BioModels using a UniProt accession as input. If the input protein is found in one model the workflow will provide the BioModels Id, the SBML and a link to the BioModels database. Please use taverna 2.4 or above.

Rating: 0.0 / 5 (0 ratings) | Versions: 3 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 8 times | Downloaded: 0 times

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Workflow Molecular Interactions from IntAct PSICQUI... (2)

Created: 29/05/11 @ 01:32:18 | Last updated: 05/10/11 @ 00:20:00

Credits: User Rafael C. Jimenez

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Get molecular interaction data in psi-mitab25 from IntAct through its REST PSICQUIC service. As input you can use an Uniprot Acc like "P99999" or a MIQL query like "alias:KHDRBS1".

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

Viewed: 16 times | Downloaded: 9 times

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