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Items tagged with "gff" (5)

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Workflows (5)
Taverna 1

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Workflow EBI_InterProScan_tmhmm_signalp (v4)

Created: 01/06/08 @ 11:21:46 | Last updated: 26/10/08 @ 20:50:11

Credits: User Hamish McWilliam

Attributions: Workflow EBI_InterProScan

License: Creative Commons Attribution 3.0 Unported License

Ebi_interproscan_tmhmm_signalp
Use the TMHMM and SignalP methods of InterProScan to perform transmembrane and signal peptide prediction. The EBI's InterProScan web service (see http://www.ebi.ac.uk/Tools/webservices/services/interproscan) is used.

Rating: 0.0 / 5 (0 ratings) | Versions: 4 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 112 times | Downloaded: 42 times

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Taverna 1

Original Uploader

Workflow Protein_transmembrane_prediction (v2)

Created: 01/06/08 @ 17:49:32 | Last updated: 26/10/08 @ 21:16:10

Credits: User Hamish McWilliam

Attributions: Workflow EBI_InterProScan_tmhmm_signalp Workflow EBI_Phobius Workflow tmap_single_sequence

License: Creative Commons Attribution 3.0 Unported License

Protein_transmembrane_prediction
Transmembrane and signal peptide prediction using three methods: EMBOSS tmap with a single sequence. Uses Soaplab tmap. Phobius. Uses EBI's WSPhobius web service. TMHMM and SignalP. Uses the TMHMM and SignalP methods of InterProScan via the EBI's WSInterProScan service. The results of the three methods are converted into GFF format and collated.

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

Viewed: 174 times | Downloaded: 51 times

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Taverna 1

Original Uploader

Workflow tmap_single_sequence (v2)

Created: 01/06/08 @ 14:27:13 | Last updated: 02/06/08 @ 21:38:13

Credits: User Hamish McWilliam

Attributions: Workflow Sequence_or_ID

License: Creative Commons Attribution 3.0 Unported License

Tmap_single_sequence_30612_2
Simple workflow using tmap to find transmembrane regions, using a single sequence as input.

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

Viewed: 68 times | Downloaded: 23 times

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Taverna 1

Original Uploader

Workflow EBI_Phobius (v2)

Created: 01/06/08 @ 11:08:46 | Last updated: 02/06/08 @ 21:39:07

Credits: User Hamish McWilliam

License: Creative Commons Attribution 3.0 Unported License

Ebi_phobius_21230_2
The Phobius tool predicts transmembrane domains and signal peptide region from a protein sequence. This workflow uses the EBI's WSPhobius web service (see http://www.ebi.ac.uk/Tools/webservices/services/phobius) to access the tool. The predicted features are returned in a UniProtKB style feature listing.

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

Viewed: 83 times | Downloaded: 37 times

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Taverna 1

Original Uploader

Workflow EBI_InterProScan (v3)

Created: 31/05/08 @ 11:38:58 | Last updated: 26/10/08 @ 20:33:34

Credits: User Hamish McWilliam

License: Creative Commons Attribution 3.0 Unported License

Ebi_interproscan
Perform an InterProScan analysis of a protein sequence using the EBI’s WSInterProScan service (see http://www.ebi.ac.uk/Tools/webservices/services/interproscan). The input sequence to use and the user e-mail address are inputs, the other parameters for the analysis (see Job_params) are allowed to default. InterProScan searches a protein sequence against the protein family and domain signature databases integrated into InterPro (see http://www.ebi.ac.uk/interpro/). A set of matches to the sig...

Rating: 0.0 / 5 (0 ratings) | Versions: 3 | Reviews: 0 | Comments: 1 | Citations: 0

Viewed: 267 times | Downloaded: 166 times

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