Tag Results

Items tagged with "interpro" (13)

Note: some items may not be visible to you, due to viewing permissions.

Workflows (13)

Taverna 1 Original Uploader Hamish McWilliam	EBI_InterProScan (v3) Created: 26/10/08 @ 20:33:34 \| Last updated: 01/04/11 @ 08:52:28 Credits: Hamish McWilliam License: Creative Commons Attribution 3.0 Unported License Note: the WSInterProScan web service used by this workflow is no longer available haveing been replaced by the EMBL-EBI's InterProScan (REST) (http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_rest) and InterProScan (SOAP) (http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_soap) web services. Thus the workflow described here no longer works, see the alternative workflows for the InterProScan (SOAP) service for workflows which use the new services. Perform an InterProScan ... Rating: 0.0 / 5 (0 ratings) \| Versions: 3 \| Reviews: 0 \| Comments: 1 \| Citations: 0 Viewed: 1095 times \| Downloaded: 346 times Tags (10): bioinformatics \| ebi \| gff \| go terms \| interpro \| interproscan \| protein annotation \| protein domain \| protein family \| protein motif	View Download (v3)
Taverna 1 Original Uploader Hamish McWilliam	EBI_InterProScan_with_prompts (v1) Created: 31/05/08 @ 11:40:34 \| Last updated: 01/04/11 @ 08:57:45 Credits: Hamish McWilliam Attributions: EBI_InterProScan License: Creative Commons Attribution 3.0 Unported License Note: the WSInterProScan web service used by this workflow is no longer available haveing been replaced by the EMBL-EBI's InterProScan (REST) (http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_rest) and InterProScan (SOAP) (http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_soap) web services. Thus the workflow described here no longer works, see the alternative workflows for the InterProScan (SOAP) service for workflows which use the new services. Run an InterProScan anal... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 82 times \| Downloaded: 48 times Tags (7): bioinformatics \| ebi \| go terms \| interpro \| interproscan \| protein annotation \| user_interaction	View Download (v1)
Taverna 1 Original Uploader Hamish McWilliam	Nucleotide_InterProScan (v4) Created: 26/10/08 @ 21:10:09 \| Last updated: 01/04/11 @ 08:54:21 Credits: Hamish McWilliam Attributions: EBI_InterProScan EBI_NCBI_BLAST Nucleotide_ORF_translation Fasta_string_to_fasta_list Sequence_or_ID License: Creative Commons Attribution 3.0 Unported License Note: the WSInterProScan web service used by this workflow is no longer available haveing been replaced by the EMBL-EBI's InterProScan (REST) (http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_rest) and InterProScan (SOAP) (http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_soap) web services. Thus the workflow described here no longer works, see the alternative workflows for the InterProScan (SOAP) service for workflows which use the new services. Run InterProScan using a... Rating: 0.0 / 5 (0 ratings) \| Versions: 4 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 334 times \| Downloaded: 113 times Tags (11): bioinformatics \| BLAST \| ebi \| interpro \| interproscan \| ncbi blast \| nucleotide sequence \| nucleotide translation \| open reading frame \| protein \| protein annotation	View Download (v4)
Taverna 1 Original Uploader Hamish McWilliam	EBI_Blast2InterPro (v2) Created: 26/10/08 @ 20:45:45 \| Last updated: 01/04/11 @ 08:55:49 Credits: Hamish McWilliam Attributions: EBI_WU-BLAST EBI_dbfetch_fetchBatch Fasta_string_to_fasta_list EBI_InterProScan License: Creative Commons Attribution 3.0 Unported License Note: the WSInterProScan web service used by this workflow is no longer available haveing been replaced by the EMBL-EBI's InterProScan (REST) (http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_rest) and InterProScan (SOAP) (http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_soap) web services. Thus the workflow described here no longer works, see the alternative workflows for the InterProScan (SOAP) service for workflows which use the new services. Perform a BLAST search a... Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 231 times \| Downloaded: 87 times Tags (11): bioinformatics \| BLAST \| dbfetch \| ebi \| go terms \| interpro \| interproscan \| protein \| protein annotation \| sequence similarity search \| wu-blast	View Download (v2)
Taverna 1 Original Uploader Hamish McWilliam	EBI_PICR_Sequence_to_UniParc_and_InterPro (v2) Created: 08/06/08 @ 13:53:39 \| Last updated: 08/06/08 @ 14:10:02 Credits: Hamish McWilliam Attributions: EBI_dbfetch_UniParc EBI_Fetch_InterPro_Matches_UniParc EBI_PICR_Sequence_to_ID License: Creative Commons Attribution 3.0 Unported License Given a protein sequence get some information about it: Does this protein sequence occur in any of the protein databases (e.g. UniProtKB, PDB, etc.). Using the PICR web service (see http://www.ebi.ac.uk/Tools/picr/) map the sequence to a UniParc identifer. Which entries in the protein databases have this sequence. Using the UniParc database (see http://www.ebi.ac.uk/uniprot/database/DBDescription.html#uniparc) a summary of the databases and the entries in those databases which have this s... Rating: 4.0 / 5 (1 rating) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 151 times \| Downloaded: 54 times Tags (13): bioinformatics \| dbfetch \| ebi \| fasta format \| gi \| interpro \| picr \| protein \| sequence identifier \| sequence retrieval \| uniparc \| uniprot archive \| upi	View Download (v2)
Taverna 1 Original Uploader Hamish McWilliam	EBI_Fetch_InterPro_Matches_UniParc (v1) Created: 08/06/08 @ 14:08:47 Credits: Hamish McWilliam License: Creative Commons Attribution 3.0 Unported License For a UniParc (see http://www.ebi.ac.uk/uniprot/database/DBDescription.html#uniparc) identifier/accession fetch the assocated InterPro Matches from SRS@EBI (see http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-page+LibInfo+-lib+IPRMC_UNIPARC). Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 63 times \| Downloaded: 32 times Tags (9): bioinformatics \| ebi \| interpro \| protein \| protein annotation \| srs \| uniparc \| uniprot archive \| upi	View Download (v1)
Taverna 2 Original Uploader Stian Soiland-Reyes	EBI_InterProScan for Taverna 2 (v2) Created: 26/01/10 @ 14:46:07 \| Last updated: 26/01/10 @ 14:46:08 Credits: Stian Soiland-Reyes Paolo Katy Wolstencroft Hamish McWilliam Attributions: EBI InterproScan T2 EBI_InterProScan License: Creative Commons Attribution-Share Alike 3.0 Unported License 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: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 162 times \| Downloaded: 118 times Tags (5): interpro \| interproscan \| looping \| sequence \| term	View Download (v2)
Taverna 2 Original Uploader Stian Soiland-Reyes	EBI_InterProScan for Taverna 2 (v2) Created: 26/01/10 @ 14:45:46 \| Last updated: 24/11/10 @ 10:04:09 Credits: Stian Soiland-Reyes Katy Wolstencroft Paolo Hamish McWilliam Attributions: EBI_InterProScan for Taverna 2 EBI InterproScan T2 EBI_InterProScan EBI InterProScan License: Creative Commons Attribution-Share Alike 3.0 Unported License 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 t... Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 373 times \| Downloaded: 190 times Tags (6): interpro \| interproscan \| looping \| sequence \| term	View Download (v2)
Taverna 2 Original Uploader Jorgep	workflow1 (v1) Created: 16/11/09 @ 14:12:30 Credits: Jorgep Attributions: EBI_InterProScan for Taverna 2 License: Creative Commons Attribution-Share Alike 3.0 Unported License blast dando o ID de uma proteinablast dando o ID de uma proteina ex: database is ‘SWISS’, for program, ‘blastp’, and for ID ‘1220173blast dando o ID de uma proteina with interpro scan ex: database is SWISS’, for program, blastp, and for ID 1220173blast dando o ID de uma proteina ex: database is SWISS’, for program, blastp, and for ID 1220173 Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 38 times \| Downloaded: 11 times Tags (2): blastp \| interpro	View Download (v1)
Taverna 2 Original Uploader Hamish McWilliam	InterProScan (SOAP) (v1) Created: 03/12/10 @ 07:41:47 \| Last updated: 03/12/10 @ 07:41:48 Attributions: EBI_InterProScan License: Creative Commons Attribution 3.0 Unported License Perform an InterProScan search using the EMBL-EBI’s InterProScan (SOAP) service (see http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_soap). The query sequence to use is the input, the other parameters for the search are allowed to default. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 19 times \| Downloaded: 15 times Tags (11): bioinformatics \| ebi \| interpro \| interproscan \| protein \| protein annotation \| protein domain \| protein family \| protein motif \| transmembrane \| transmembrane prediction	View Download (v1)
Taverna 1 Original Uploader Hamish McWilliam	InterProScan (SOAP) (v1) Created: 03/12/10 @ 08:20:21 \| Last updated: 03/12/10 @ 08:20:24 Credits: Hamish McWilliam Attributions: EBI_InterProScan InterProScan (SOAP) License: Creative Commons Attribution 3.0 Unported License Perform an InterProScan search using the EMBL-EBI’s InterProScan (SOAP) service (see http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_soap). The query sequence to use is the input, the other parameters for the search are allowed to default. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 19 times \| Downloaded: 9 times Tags (11): bioinformatics \| ebi \| interpro \| interproscan \| protein \| protein annotation \| protein domain \| protein family \| protein motif \| transmembrane \| transmembrane prediction	View Download (v1)
Taverna 2 Original Uploader Katy Wolstencroft	EBI_InterproScan_NewServices (v2) Created: 17/01/11 @ 16:08:48 \| Last updated: 17/01/11 @ 16:12:40 Credits: Katy Wolstencroft Hamish McWilliam Stian Soiland-Reyes Attributions: EBI_InterProScan for Taverna 2 EBI_InterProScan for Taverna 2 EBI_InterProScan License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow performs an interproscan on provided sequencesThis workflow performs an interproscan at the EBI on sequences provided as input. The output is provided as text, xml or png. This workflow uses the new EBI services, which are asynchronous and require looping over the nested workflow (Status) until the workflow has finished. Many of the EBI services now work in this way, so you can use this workflow as an example of the invocation pattern and looping configuration. Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 56 times \| Downloaded: 38 times Tags (11): async \| asynchronous services \| ebi \| example \| interpro \| interproscan \| looping \| protein domain \| protein family \| protein motif \| protein sequence	View Download (v2)
Taverna 2 Original Uploader Morgan Taschuk	KEGG Pathways and Additional Information from BLAST (v2) Created: 29/03/11 @ 11:16:17 \| Last updated: 30/03/11 @ 16:09:01 Credits: Morgan Taschuk Attributions: extract_uniprot_embl_gi.xml License: Creative Commons Attribution-Share Alike 3.0 Unported License Takes in a tab-delimited BLAST file and finds additional information about the target proteins from KEGG, Gene Ontology, Interpro and PubMed. Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 33 times \| Downloaded: 16 times Tags (6): BLAST \| GO \| interpro \| medline \| pathway \| uniprot	View Download (v2)