about:news [2013/03/04 13:30]
wli (172.22.69.114) |
about:news [2013/08/29 11:02] (current)
wli (172.22.69.249) |
| | ====== News ====== | | ====== News ====== |
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| - | ==== 4th March 2013 ==== | + | ==== Thursday 29th August 2013 ==== |
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| - | The International Protein Index (IPI) database is retired from the Sequence Similarity Search ([[:services:sss:fasta_soap|FASTA]], [[:services:sss:fastm_soap|FASTM]], [[:services:sss:ncbi_blast_soap|NCBI BLAST]], [[:services:sss:psiblast_soap|PSI-BLAST]], [[:services:sss:psisearch_soap|PSI-Search]] & [[:services:sss:wu_blast_soap|WU-BLAST]]). Equivalent data is available from UniProt (see http://www.uniprot.org/news/2011/06/28/release and http://www.uniprot.org/taxonomy/complete-proteomes). For queries relating to this database retirement please contact us via [[http://www.ebi.ac.uk/support/|EMBL-EBI Support]]. | + | The FASTA services ([[services:sss:fasta_rest|FASTA (REST)]] & [[services:sss:fasta_soap|FASTA (SOAP)]]) have been updated to use FASTA version 36.3.6c. |
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| | + | ==== Wednesday 14th August 2013 ==== |
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| - | ==== 25th February 2013 ==== | + | The FASTA services ([[services:sss:fasta_rest|FASTA (REST)]] & [[services:sss:fasta_soap|FASTA (SOAP)]]) have been updated to use FASTA version 36.3.6b. |
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| - | The FASTA service against proteomes is retired. To continue accessing the complete proteome data, please visit [[http://www.uniprot.org/taxonomy/complete-proteomes|UniProt Complete and Reference Proteomes]], [[http://www.ensembl.org/|Ensembl]], [[http://www.ensemblgenomes.org/|Ensembl Genomes]] or use the [[:services:sss:wu_blast_soap|WU-BLAST]] web service to search the Ensembl Genomes sequence databases. For queries relating to this data retirement please contact us via [[http://www.ebi.ac.uk/support/|EMBL-EBI Support]]. | + | The PROSITE Scan services ([[:services:pfa:ps_scan_rest|PROSITE Scan (REST)]] & [[:services:pfa:ps_scan_soap|PROSITE Scan (SOAP)]]) have been updated to use ps_scan-1.79.1. |
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| | + | The following EMBOSS tools services have been updated to use EMBOSS-6.6.0: |
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| - | ==== 15th February 2012 ==== | + | - [[:services:psa:EMBOSS matcher (REST)]] & [[:services:psa:EMBOSS matcher (SOAP)]] \\ |
| | + | - [[:services:psa:EMBOSS needle (REST)]] & [[:services:psa:EMBOSS needle (SOAP)]] \\ |
| | + | - [[:services:psa:EMBOSS stretcher (REST)]] & [[:services:psa:EMBOSS stretcher (SOAP)]] \\ |
| | + | - [[:services:psa:EMBOSS water (REST)]] & [[:services:psa:EMBOSS water (SOAP)]] \\ |
| | + | - [[:services:sfc:EMBOSS seqret (REST)]] & [[:services:sfc:EMBOSS seqret (SOAP)]] \\ |
| | + | - [[:services:seqstats:EMBOSS cpgplot (REST)]] & [[:services:seqstats:EMBOSS cpgplot (SOAP)]] \\ |
| | + | - [[:services:seqstats:EMBOSS newcpgreport (REST)]] & [[:services:seqstats:EMBOSS newcpgreport (SOAP)]] \\ |
| | + | - [[:services:seqstats:EMBOSS isochore (REST)]] & [[:services:seqstats:EMBOSS isochore (SOAP)]] \\ |
| | + | - [[:services:seqstats:EMBOSS pepinfo (REST)]] & [[:services:seqstats:EMBOSS pepinfo (SOAP)]] \\ |
| | + | - [[:services:seqstats:EMBOSS pepstats (REST)]] & [[:services:seqstats:EMBOSS pepstats (SOAP)]] \\ |
| | + | - [[:services:seqstats:EMBOSS pepwindow (REST)]] & [[:services:seqstats:EMBOSS pepwindow (SOAP)]]\\ |
| | + | - [[:services:st:EMBOSS transeq (REST)]] & [[:services:st:EMBOSS transeq (SOAP)]] \\ |
| | + | - [[:services:st:EMBOSS sixpack (REST)]] & [[:services:st:EMBOSS sixpack (SOAP)]] \\ |
| | + | - [[:services:st:EMBOSS backtranseq (REST)]] & [[:services:st:EMBOSS backtranseq (SOAP)]] \\ |
| | + | - [[:services:st:EMBOSS backtranambig (REST)]] & [[:services:st:EMBOSS backtranambig (SOAP)]] \\ |
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| - | The final releases of the [[http://www.ebi.ac.uk/GenomeReviews/|Genome Reviews]] databases were produced in 2011, and have been replaced by data available from [[http://www.ensembl.org/|Ensembl]] and [[http://www.ensemblgenomes.org/|Ensembl Genomes]]. To allow users to transition from Genome Reviews to the new resources the Genome Reviews data has continued to be available in [[http://www.ebi.ac.uk/Tools/dbfetch/|dbfetch]], [[:services:dbfetch|WSDbfetch]] and [[http://srs.ebi.ac.uk/|SRS@EMBL-EBI]]. On Monday 4th March 2013 the Genome Reviews, Genome Reviews Gene Sets and Genome Reviews Transcript Sets databases will be removed from the dbfetch, WSDbfetch and SRS@EMBL-EBI services. The underlying data has been archived and will remain available from the EMBL-EBI FTP site under [[ftp://ftp.ebi.ac.uk/pub/databases/genome_reviews/]] and [[ftp://ftp.ebi.ac.uk/pub/databases/integr8/]]. | |
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| - | ==== 13th February 2013 ==== | + | ==== Tuesday 9th July 2013 ==== |
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| - | The International Protein Index (IPI) database will be retired from the Sequence Similarity Search ([[:services:sss:fasta_soap|FASTA]], [[:services:sss:fastm_soap|FASTM]], [[:services:sss:ncbi_blast_soap|NCBI BLAST]], [[:services:sss:psiblast_soap|PSI-BLAST]], [[:services:sss:psisearch_soap|PSI-Search]] & [[:services:sss:wu_blast_soap|WU-BLAST]]) services on 27/02/2013. Equivalent data is available from UniProt (see http://www.uniprot.org/news/2011/06/28/release and http://www.uniprot.org/taxonomy/complete-proteomes). For queries relating to this database retirement please contact us via [[http://www.ebi.ac.uk/support/|EMBL-EBI Support]]. | + | The following services have been updated to use FASTA version 36.3.6. |
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| - | ==== 11th February 2013 ==== | + | - The FASTA services ([[services:sss:fasta_rest|FASTA (REST)]] & [[services:sss:fasta_soap|FASTA (SOAP)]]) \\ |
| | + | - The FASTM services ([[services:sss:fastm_rest|FASTM (REST)]] & [[services:sss:fastm_soap|FASTM (SOAP)]]) & \\ |
| | + | - The lalign services ([[services:psa:lalign_rest|lalign (REST)]] & [[services:psa:lalign_soap|lalign (SOAP)]]). \\ |
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| - | The FASTA service against proteomes will be retired on 25/02/2013. To continue accessing the complete proteome data, please visit [[http://www.uniprot.org/taxonomy/complete-proteomes|UniProt Complete and Reference Proteomes]], [[http://www.ensembl.org/|Ensembl]], [[http://www.ensemblgenomes.org/|Ensembl Genomes]] or use the [[:services:sss:wu_blast_soap|WU-BLAST]] web service to search the Ensembl Genomes sequence databases. For queries relating to this data retirement please contact us via [[http://www.ebi.ac.uk/support/|EMBL-EBI Support]]. | |
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| - | ==== 1st February 2013 ==== | + | ==== Wednesday 26th June 2013 ==== |
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| - | The EMBL-EBI Soaplab server has been decommissioned. The [[:soaplab:overview|Soaplab]] documentation has been updated to provide details of alternative services. | + | The Clustal Omega services ([[services:msa:clustalo_rest|Clustal Omega (REST)]] & [[services:msa:clustalo_soap|Clustal Omega (SOAP)]]) have been updated to use Clustal Omega version 1.2.0. |
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| - | ==== 4th December 2012 ==== | + | ==== Monday 10th June 2013 ==== |
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| - | New web services for CENSOR are now available: | + | The Clustal Omega services ([[services:msa:clustalo_rest|Clustal Omega (REST)]] & [[services:msa:clustalo_soap|Clustal Omega (SOAP)]]) have been updated to use Clustal Omega version 1.1.1. |
| - | * [[:services:so:CENSOR (REST)]] | + | |
| - | * [[:services:so:CENSOR (SOAP)]] | + | |
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| - | The old [[:services:censor|WSCensor]] service has been deprecated and should not be used for new development. | + | ==== Wednesday 29th May 2013 ==== |
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| - | ==== 27th November 2012 ==== | + | The HGVbase database has been retired from the Sequence Similarity Search (SSS) services. To continue access to the relevant data, please visit\\ |
| | + | \\ |
| | + | - GWAS Central: https://www.gwascentral.org/ \\ |
| | + | - 1000 Genomes: http://www.1000genomes.org/ \\ |
| | + | - DGVa : http://www.ebi.ac.uk/dgva/ \\ |
| | + | - Ensembl: http://www.ensembl.org/ \\ |
| | + | - EGA: http://www.ebi.ac.uk/ega/ \\ |
| | + | - LRG: http://www.lrg-sequence.org/ \\ |
| | + | - NCBI dbSNP: http://www.ncbi.nlm.nih.gov/SNP/ \\ |
| | + | - Archived data on the FTP site: ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/hgbase/ \\ |
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| - | The WSDaliLite and WSMaxsprout services have been **decommissioned**, and replaced by: | + | ==== Tuesday 21st May 2013 ==== |
| - | * DaliLite: | + | |
| - | * [[:services:structure:DaliLite (REST)]] | + | |
| - | * [[:services:structure:DaliLite (SOAP)]] | + | |
| - | * MaxSprout: | + | |
| - | * [[:services:structure:MaxSprout (REST)]] | + | |
| - | * [[:services:structure:MaxSprout (SOAP)]] | + | |
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| - | The documentation for the WSDaliLite and WSMaxsprout services has been archived and is provided for reference purposes: | + | A neighbour-joining phylogenetic tree and a percentage identity matrix (PIM) are available from the web services of [[:services:msa:clustalo_soap|Clustal Omega]], [[:services:msa:clustalw2_soap|ClustalW2]], [[:services:msa:kalign_soap|Kalign]], [[:services:msa:mafft_soap|MAFFT]], [[:services:msa:muscle_soap|MUSCLE]] and [[:services:msa:tcoffee_soap|T-Coffee]]. |
| - | * DaliLite: | + | |
| - | * [[:services:archive:structure:WSDaliLite]] | + | |
| - | * [[:services:archive:structure:WSDaliLite clients]] | + | |
| - | * MaxSprout: | + | |
| - | * [[:services:archive:structure:WSMaxsprout]] | + | |
| - | * [[:services:archive:structure:WSMaxsprout clients]] | + | |
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| - | ==== 12th November 2012 ==== | + | ==== Tuesday 15th May 2013 ==== |
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| - | The FASTA ([[:services:sss:fasta_rest|REST]] & [[:services:sss:fasta_soap|SOAP]]), FASTM ([[:services:sss:fastm_rest|REST]] & [[:services:sss:fastm_soap|SOAP]]) and lalign ([[:services:psa:lalign_rest|REST]] & [[:services:psa:lalign_soap|SOAP]]) services have been updated to use FASTA version 36.3.5e Sep, 2012(preload8). | + | The HGVbase database will be retired from the Sequence Similarity Search (SSS) services on Wednesday 29/05/2013. |
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| - | ==== 29th October 2012 ==== | + | To continue access to the relevant data, please visit\\ |
| | + | - GWAS Central: https://www.gwascentral.org/ \\ |
| | + | - 1000 Genomes: http://www.1000genomes.org/ \\ |
| | + | - DGVa : http://www.ebi.ac.uk/dgva/ \\ |
| | + | - Ensembl: http://www.ensembl.org/ \\ |
| | + | - EGA: http://www.ebi.ac.uk/ega/ \\ |
| | + | - LRG: http://www.lrg-sequence.org/ \\ |
| | + | - NCBI dbSNP: http://www.ncbi.nlm.nih.gov/SNP/ \\ |
| | + | - Archived data on the FTP site: ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/hgbase/ \\ |
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| - | As previously mentioned the old CiteXplore v1 web service will be retired on the 31st October 2012. Users should migrate all usage to the replacement [[http://www.ebi.ac.uk/citexplore/webservice.jsp|CiteXplore v3.0.1 web service]] as soon as possible. For queries relating to this service retirement please contact us via. [[http://www.ebi.ac.uk/support/index.php?query=WebServices|EMBL-EBI Support]]. | + | ==== Wednesday 17th April 2013 ==== |
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| - | ==== 24th October 2012 ==== | + | As previously announced the [[:services:archive:so:WSEmboss]] service has been decommissioned. For details of alternative EMBOSS services please see the [[:services:archive:soaplab:overview|Soaplab]] page. |
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| - | The new web services for DaliLite and MaxSprout have come out of beta: | + | ==== Monday 15th April 2013 ==== |
| - | * [[:services:structure:DaliLite (REST)]] | + | |
| - | * [[:services:structure:DaliLite (SOAP)]] | + | |
| - | * [[:services:structure:MaxSprout (REST)]] | + | |
| - | * [[:services:structure:MaxSprout (SOAP)]] | + | |
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| - | The old [[:services:dalilite|WSDaliLite]] and [[:services:maxsprout|WSMaxsprout]] services have been deprecated and will be decommissioned on Tuesday 27th November 2012. | + | As previously announced the International Protein Index (IPI) databases (IPI and IPI History) have been removed from [[http://www.ebi.ac.uk/Tools/dbfetch/|dbfetch]], [[:services:dbfetch|WSDbfetch]] and [[http://srs.ebi.ac.uk/|SRS@EMBL-EBI]]. |
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| - | ==== 11th September 2012 ==== | + | Replacement data is available from UniProt (see [[http://www.uniprot.org/news/2011/06/28/release]] and [[http://www.uniprot.org/taxonomy/complete-proteomes]]). The underlying data for IPI has been archived and is available from the [[ftp://ftp.ebi.ac.uk/|EMBL-EBI FTP site]] under [[ftp://ftp.ebi.ac.uk/pub/databases/IPI/]]. |
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| - | A set of services for sequence format conversion and now available for beta testing: | + | Users wishing to convert annotations using IPI identifiers in to their equivalents using UniProt identifiers (UniProtKB or UniParc) may find the following services helpful: |
| - | * [[:services:sfc:EMBOSS seqret (REST)]] | + | * [[http://www.uniprot.org/?tab=mapping|UniProt.org Database identifier mapping]] ([[http://www.uniprot.org/faq/28#id_mapping_examples|REST service]]). |
| - | * [[:services:sfc:EMBOSS seqret (SOAP)]] | + | * [[http://www.ebi.ac.uk/Tools/picr/|Protein Identifier Cross-Reference (PICR)]] ([[http://www.ebi.ac.uk/Tools/picr/WSDLDocumentation.do|SOAP service]] or [[http://www.ebi.ac.uk/Tools/picr/RESTDocumentation.do|REST service]]). |
| - | * [[:services:sfc:Readseq (REST)]] | + | |
| - | * [[:services:sfc:Readseq (SOAP)]] | + | |
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| - | These services focus on the format conversion and manipulation of sequence data, for a tool specialising in the manipulation and format conversion of multiple sequence alignment formats, see MView ([[:services:msa:MView (REST)|REST]] or [[:services:msa:MView (SOAP)|SOAP]]). | + | ==== 18th March 2013 ==== |
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| - | ==== 29th August 2012 ==== | + | The new web services for FingerPRINTScan, Pratt and PROSITE Scan are available to the public: |
| | + | * [[:services:pfa:FingerPRINTScan (REST)]] |
| | + | * [[:services:pfa:FingerPRINTScan (SOAP)]] |
| | + | * [[:services:pfa:Pratt (REST)]] |
| | + | * [[:services:pfa:Pratt (SOAP)]] |
| | + | * [[:services:pfa:ps_scan_rest|PROSITE Scan (REST)]] |
| | + | * [[:services:pfa:ps_scan_soap|PROSITE Scan (SOAP)]] |
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| - | New web services for DaliLite and MaxSprout are now available for beta testing: | + | ==== 8th March 2013 ==== |
| - | * [[:services:structure:DaliLite (REST)]] | + | |
| - | * [[:services:structure:DaliLite (SOAP)]] | + | |
| - | * [[:services:structure:MaxSprout (REST)]] | + | |
| - | * [[:services:structure:MaxSprout (SOAP)]] | + | |
| - | Please report any feedback or issues encountered to us via. [[http://www.ebi.ac.uk/support/index.php?query=WebServices|EMBL-EBI Support]]. | + | |
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| - | ==== 23rd August 2012 ==== | + | The final release of the International Protein Index (IPI) database was produced in 2011, and has been replaced by equivalent data available from UniProt (see http://www.uniprot.org/news/2011/06/28/release and http://www.uniprot.org/taxonomy/complete-proteomes). To allow users to transition from Genome Reviews to the new resources the IPI data has continued to be available in [[http://www.ebi.ac.uk/Tools/dbfetch/|dbfetch]], [[:services:dbfetch|WSDbfetch]] and [[http://srs.ebi.ac.uk/|SRS@EMBL-EBI]]. On Monday 15th April 2013 the IPI databases will be removed from the dbfetch, WSDbfetch and SRS@EMBL-EBI services. The underlying data has been archived and will remain available from the EMBL-EBI FTP site under ftp://ftp.ebi.ac.uk/pub/databases/IPI/. |
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| - | REST and SOAP (document/literal) Web Services of PromoterWise for pair-wise alignments are now available, see the following for details: | + | ==== 4th March 2013 ==== |
| - | * [[:services:psa:PromoterWise (REST)]] | + | |
| - | * [[:services:psa:PromoterWise (SOAP)]] | + | |
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| - | ==== 15th August 2012 ==== | + | The International Protein Index (IPI) database is retired from the Sequence Similarity Search ([[:services:sss:fasta_soap|FASTA]], [[:services:sss:fastm_soap|FASTM]], [[:services:sss:ncbi_blast_soap|NCBI BLAST]], [[:services:sss:psiblast_soap|PSI-BLAST]], [[:services:sss:psisearch_soap|PSI-Search]] & [[:services:sss:wu_blast_soap|WU-BLAST]]). Equivalent data is available from UniProt (see http://www.uniprot.org/news/2011/06/28/release and http://www.uniprot.org/taxonomy/complete-proteomes). For queries relating to this database retirement please contact us via [[http://www.ebi.ac.uk/support/|EMBL-EBI Support]]. |
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| - | REST and SOAP (document/literal) Web Services of GeneWise & Wise2DBA for pair-wise alignments are now available, see the following for details: | + | The Genome Reviews databases which were available in [[http://www.ebi.ac.uk/Tools/dbfetch/|dbfetch]], [[:services:dbfetch|WSDbfetch]] and [[http://srs.ebi.ac.uk/|SRS@EMBL-EBI]], have now been retired. The data for Genome Reviews, which was used by these servcices, has been archived and remains available from the EMBL-EBI FTP site under [[ftp://ftp.ebi.ac.uk/pub/databases/genome_reviews/]] and [[ftp://ftp.ebi.ac.uk/pub/databases/integr8/]]. |
| - | * [[:services:psa:GeneWise (REST)]] | + | |
| - | * [[:services:psa:GeneWise (SOAP)]] | + | |
| - | * [[:services:psa:Wise2DBA (REST)]] | + | |
| - | * [[:services:psa:Wise2DBA (SOAP)]] | + | |
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| - | ==== 13th July 2012 ==== | + | ==== 25th February 2013 ==== |
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| - | Recently a new version of the [[http://www.ebi.ac.uk/citexplore/webservice.jsp|CiteXplore Web Service]] was released by the [[http://www.ebi.ac.uk/literature/|Literature Services Group]]. | + | The FASTA service against proteomes is retired. To continue accessing the complete proteome data, please visit [[http://www.uniprot.org/taxonomy/complete-proteomes|UniProt Complete and Reference Proteomes]], [[http://www.ensembl.org/|Ensembl]], [[http://www.ensemblgenomes.org/|Ensembl Genomes]] or use the [[:services:sss:wu_blast_soap|WU-BLAST]] web service to search the Ensembl Genomes sequence databases. For queries relating to this data retirement please contact us via [[http://www.ebi.ac.uk/support/|EMBL-EBI Support]]. |
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| - | The latest Web Service (version 3.0.1) is SOAP based and gives programmatic access to all of the publications and related information in UK PubMed Central. An example Java client is provided, together with comprehensive documentation on the new methods available. Version 3 of the service has been modularised, and allows users to pick and choose the components required, making information retrieval more efficient. | + | ==== 20th February 2013 ==== |
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| - | The new Web Service is now also being used by the front-end application of [[http://ukpmc.ac.uk/|UK PubMed Central]], improving its performance. Version 1 of the Web Service will be maintained for use until the end of October 2012. | + | The WSCensor service has been retired. The replacement services: [[:services:so:CENSOR (REST)]] and [[:services:so:CENSOR (SOAP)]] should be used instead. |
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| - | ==== 11th July 2012 ==== | + | ==== 15th February 2013 ==== |
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| - | The FASTA ([[:services:sss:fasta_rest| REST]] & [[:services:sss:fasta_soap| SOAP]]), FASTM ([[:services:sss:fastm_rest| REST]] & [[:services:sss:fastm_soap| SOAP]]) and lalign ([[:services:psa:lalign_rest| REST]] & [[:services:psa:lalign_soap| SOAP]]) services have been updated to use FASTA version 36.3.5c Jun, 2012(preload8). | + | The final releases of the [[http://www.ebi.ac.uk/GenomeReviews/|Genome Reviews]] databases were produced in 2011, and have been replaced by data available from [[http://www.ensembl.org/|Ensembl]] and [[http://www.ensemblgenomes.org/|Ensembl Genomes]]. To allow users to transition from Genome Reviews to the new resources the Genome Reviews data has continued to be available in [[http://www.ebi.ac.uk/Tools/dbfetch/|dbfetch]], [[:services:dbfetch|WSDbfetch]] and [[http://srs.ebi.ac.uk/|SRS@EMBL-EBI]]. On Monday 4th March 2013 the Genome Reviews, Genome Reviews Gene Sets and Genome Reviews Transcript Sets databases will be removed from the dbfetch, WSDbfetch and SRS@EMBL-EBI services. The underlying data has been archived and will remain available from the EMBL-EBI FTP site under [[ftp://ftp.ebi.ac.uk/pub/databases/genome_reviews/]] and [[ftp://ftp.ebi.ac.uk/pub/databases/integr8/]]. |
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| - | ==== 20th June 2012 ==== | + | ==== 13th February 2013 ==== |
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| - | REST and SOAP (document/literal) Web Services for SAPS, EMBOSS pepinfo, pepstats and pepwindow are now available, see the following for details: | + | The International Protein Index (IPI) database will be retired from the Sequence Similarity Search ([[:services:sss:fasta_soap|FASTA]], [[:services:sss:fastm_soap|FASTM]], [[:services:sss:ncbi_blast_soap|NCBI BLAST]], [[:services:sss:psiblast_soap|PSI-BLAST]], [[:services:sss:psisearch_soap|PSI-Search]] & [[:services:sss:wu_blast_soap|WU-BLAST]]) services on 27/02/2013. Equivalent data is available from UniProt (see http://www.uniprot.org/news/2011/06/28/release and http://www.uniprot.org/taxonomy/complete-proteomes). For queries relating to this database retirement please contact us via [[http://www.ebi.ac.uk/support/|EMBL-EBI Support]]. |
| - | * [[:services:seqstats:EMBOSS pepinfo (REST)]] | + | |
| - | * [[:services:seqstats:EMBOSS pepinfo (SOAP)]] | + | |
| - | * [[:services:seqstats:EMBOSS pepstats (REST)]] | + | |
| - | * [[:services:seqstats:EMBOSS pepstats (SOAP)]] | + | |
| - | * [[:services:seqstats:EMBOSS pepwindow (REST)]] | + | |
| - | * [[:services:seqstats:EMBOSS pepwindow (SOAP)]] | + | |
| - | * [[:services:seqstats:SAPS (REST)]] | + | |
| - | * [[:services:seqstats:SAPS (SOAP)]] | + | |
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| - | ==== 23rd May 2012 ==== | + | ==== 11th February 2013 ==== |
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| - | The NCBI BLAST services ([[:services:sss:ncbi_blast_rest| REST]] & [[:services:sss:ncbi_blast_soap| SOAP]]) have been updated to use NCBI BLAST 2.2.26. | + | The FASTA service against proteomes will be retired on 25/02/2013. To continue accessing the complete proteome data, please visit [[http://www.uniprot.org/taxonomy/complete-proteomes|UniProt Complete and Reference Proteomes]], [[http://www.ensembl.org/|Ensembl]], [[http://www.ensemblgenomes.org/|Ensembl Genomes]] or use the [[:services:sss:wu_blast_soap|WU-BLAST]] web service to search the Ensembl Genomes sequence databases. For queries relating to this data retirement please contact us via [[http://www.ebi.ac.uk/support/|EMBL-EBI Support]]. |
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| - | ==== 16th May 2012 ==== | + | ==== 1st February 2013 ==== |
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| - | The Clustal Omega services ([[:services:msa:clustalo_rest| REST]] & [[:services:msa:clustalo_soap| SOAP]]) have been updated to use Clustal Omega 1.1.0 and nucleotide alignments are now supported. | + | The EMBL-EBI Soaplab server has been decommissioned. The [[:soaplab:overview|Soaplab]] documentation has been updated to provide details of alternative services. |
| - | | + | |
| - | The EBI Application Result XML contents for sequence similarity search have been updated with alignment strand information in a consistent format (e.g. <strand>minus/plus</strand> means the query is "minus" ("reverse") and the subject is "plus" ("forward")). | + | |
| - | | + | |
| - | ==== 17th January 2012 ==== | + | |
| - | REST and SOAP (document/literal) Web Services for EMBOSS translation tools are now available, see the following for details: | + | |
| - | * [[:services:st:emboss_transeq_rest|EMBOSS Transeq (REST)]] | + | |
| - | * [[:services:st:emboss_transeq_soap|EMBOSS Transeq (SOAP)]] | + | |
| - | * [[:services:st:emboss_sixpack_rest|EMBOSS Sixpack (REST)]] | + | |
| - | * [[:services:st:emboss_sixpack_soap|EMBOSS Sixpack (SOAP)]] | + | |
| - | * [[:services:st:emboss_backtranseq_rest|EMBOSS Backtranseq (REST)]] | + | |
| - | * [[:services:st:emboss_backtranseq_soap|EMBOSS Backtranseq (SOAP)]] | + | |
| - | * [[:services:st:emboss_backtranambig_rest|EMBOSS Backtranambig (REST)]] | + | |
| - | * [[:services:st:emboss_backtranambig_soap|EMBOSS Backtranambig (SOAP)]] | + | |
| - | | + | |
| - | ==== 10th January 2012 ==== | + | |
| - | | + | |
| - | The dbfetch services ([[http://www.ebi.ac.uk/Tools/dbfetch/|dbfetch]], [[:services:dbfetch_rest|WSDbfetch (REST)]] and [[:services:dbfetch|WSDbfetch (SOAP)]]) have been updated to include summary information detailing the data sources used by dbfetch in the database meta-information. | + | |
| | | | |
| - | ==== 2011 ==== | + | ==== 2012 ==== |
| | | | |
| - | Archived news for [[.:News:2011]]. | + | Archived news for [[.:News:2012]]. |
