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--- about:webservices [2013/02/12 08:58]
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+++ about:webservices [2013/08/05 10:18] (current)
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 | [[http://code.google.com/p/psicquic/|PSICQUIC]] |  | Standardised access to molecular interaction databases, including [[http://www.ebi.ac.uk/chembl/|ChEMBL]], [[http://www.reactome.org/|Reactome]] and [[http://www.ebi.ac.uk/intact/|IntAct]]. |
 | [[http://www.ebi.ac.uk/rhea/rest/1.0/|Rhea]] |  | Manually annotated database of chemical reactions |
-| [[http://www.ebi.ac.uk/~srs/wiki/doku.php?id=guides:srsurlapi|SRS]] | | Database search and data retrieval using [[http://srs.ebi.ac.uk/|SRS@EBI]]. |
+| [[http://www.ebi.ac.uk/~srs/wiki/doku.php?id=guides:srsurlapi|SRS]] | | Database search and data retrieval using [[http://srs.ebi.ac.uk/|SRS@EMBL-EBI]]. |
 | [[http://www.uniprot.org/faq/28|UniProt.org]] | | The Universal Protein Resource (UniProt) a comprehensive resource for protein sequence and annotation data. |
 | [[services:dbfetch_rest|WSDbfetch (REST)]] | [[services:dbfetch_rest#clients|WSDbfetch (REST)]] | Identifier based entry retrieval for various up-to-date biological databases. |
@@ Line 47: / Line 47: @@
 ^ REST Service ^ SOAP Service ^ Description ^
-| [[:services:pfa:iprscan_rest|InterProScan (REST)]] | [[:services:pfa:iprscan_soap|InterProScan (SOAP)]] | A tool that combines different protein signature recognition methods. |
+| [[:services:pfa:FingerPRINTScan (REST)]] | [[:services:pfa:FingerPRINTScan(SOAP)]] | Identifying the closest matching PRINTS sequence motif fingerprints in a protein sequence. |
-| [[:services:pfa:Phobius (REST)]] | [[:services:pfa:Phobius (SOAP)]] | Prediction of transmembrane topology and signal peptides from the amino acid sequence of a protein |
+| [[:services:pfa:iprscan_rest|InterProScan 4.x (REST)]] | [[:services:pfa:iprscan_soap|InterProScan 4.x (SOAP)]] | A tool that combines different protein signature recognition methods. |
+| [[:services:pfa:HMMER hmmscan (REST)]] | [[:services:pfa:HMMER hmmscan (SOAP)]] | Search a database of Hidden Markov Models (HMMs) with a sequence to infer membership of a sequence family. |
+| [[:services:pfa:Phobius (REST)]] | [[:services:pfa:Phobius (SOAP)]] | Prediction of transmembrane topology and signal peptides from the amino acid sequence of a protein. |
+| [[:services:pfa:Pratt (REST)]] | [[:services:pfa:Pratt (SOAP)]] | Search for patterns conserved in sets of unaligned protein sequences. |
+| [[:services:pfa:ps_scan_rest|PROSITE Scan (REST)]] | [[:services:pfa:ps_scan_soap|PROSITE Scan (SOAP)]] | Comparing a protein sequence against the signatures in PROSITE (both patterns and profiles). |
 | [[:services:pfa:RADAR (REST)]] | [[:services:pfa:RADAR (SOAP)]] | Detection and alignment of repeats in protein sequences. |
 ==== Sequence Similarity Search (SSS) ====
+Identify potentially homologous sequences based on sequence similarity.
 ^ REST Service ^ SOAP Service ^ Description ^
@@ Line 62: / Line 68: @@
 ==== Multiple Sequence Alignment (MSA) ====
+Alignment of a set of three or more, protein or nucleotide sequences.
 ^ REST Service ^ SOAP Service ^ Description ^
@@ Line 80: / Line 88: @@
 ==== Pairwise Sequence Alignment (PSA) ====
+Alignment of two sequences.
 ^ REST Service ^ SOAP Service ^ Description ^
@@ Line 92: / Line 102: @@
 ==== Sequence Format Conversion ====
+Convert between common sequence formats, or verify the formatting of a sequence.
 ^ REST Service ^ SOAP Service ^ Description ^
@@ Line 99: / Line 111: @@
 ==== Sequence Statistics ====
+Analyse a sequence to determine its properties and use statistics to assign significance.
 ^ REST Service ^ SOAP Service ^ Description ^
+| [[:services:seqstats:EMBOSS cpgplot (REST)]]  | [[:services:seqstats:EMBOSS cpgplot (SOAP)]]  | EMBOSS cpgplot identifies and plots CpG islands in nucleotide sequence. |
+| [[:services:seqstats:EMBOSS isochore (REST)]]  | [[:services:seqstats:EMBOSS isochore (SOAP)]]  | EMBOSS isochore plots isochores in DNA sequences. |
 | [[:services:seqstats:EMBOSS pepinfo (REST)]]  | [[:services:seqstats:EMBOSS pepinfo (SOAP)]]  | EMBOSS pepinfo plots amino acid properties. |
 | [[:services:seqstats:EMBOSS pepstats (REST)]]  | [[:services:seqstats:EMBOSS pepstats (SOAP)]]  | EMBOSS pepstats calculates protein properties such as molecular weight. |
@@ Line 107: / Line 123: @@
 ==== Sequence Translation ====
+Translate a coding nucleotide sequence in to a protein sequence, or back-translate from a protein sequence to a possible coding nucleotide sequence.
 ^ REST Service ^ SOAP Service ^ Description ^
@@ Line 115: / Line 133: @@
 ==== Structural Analysis ====
+Analysis of macromolecular structures.
 ^ REST Service ^ SOAP Service ^ Description ^
@@ Line 121: / Line 141: @@
 ==== Literature and Ontologies ====
+Look-up ontology terms and navigate ontology relationships or access and analyse the literature.
 ^ Service ^ Clients ^ Description ^
 | [[http://www.ebi.ac.uk/biomodels/webservices.html|BioModels]] | [[http://www.ebi.ac.uk/biomodels/webservices.html|BioModels]] | Storing, searching and retrieving published mathematical models of biological interest |
-| [[http://www.ebi.ac.uk/Tools/picr/|PICR]] | [[clients:picr|PICR]] | Protein Identifier Cross-Reference Service |
+| [[http://www.ebi.ac.uk/Tools/picr/|PICR]] |  | Protein Identifier Cross-Reference Service |
 | [[http://www.ebi.ac.uk/QuickGO/WebServices.html|QuickGO]] | [[http://www.ebi.ac.uk/QuickGO/WebServices.html|QuickGO]] | Gene Ontology (GO) and Gene Ontology Annotation (GOA) databases |
 | [[http://europepmc.org/WebServices|Europe PMC Web Service]] |  | Search [[http://europepmc.org/|Europe PubMed Central]] |

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