SRS
From Wiki CEINGE
(Difference between revisions)
| Revision as of 14:13, 20 June 2007 (edit) Mauro (Talk | contribs) (→How to reach SRS and use) ← Previous diff |
Current revision (12:45, 22 June 2007) (edit) (undo) Leandra (Talk | contribs) |
||
| (2 intermediate revisions not shown.) | |||
| Line 1: | Line 1: | ||
| - | SRS (Sequence Retrieval System) is installed locally (version 7.1.3.2) and runs on the | + | SRS (Sequence Retrieval System) is installed locally (version 7.1.3.2) and runs on the cluster server. It is used to manage about 70 of the most popular public biological databases (DBs), such as EMBL, UNIPROT, REFSEQ, ENTREZGENE, UNIGENE, PFAM, INTERPRO, PATHWAY, PDB and many others (see [[SRS databases|Databases]]). Databases produced in house are easily integrated into SRS, allowing researchers to compare and link local data with public ones. Many applications, such as those of the [[EMBOSS]] package, are integrated into SRS. |
| ===How to reach and use SRS=== | ===How to reach and use SRS=== | ||
| :SRS is available directly from the [http://bioinfo.ceinge.unina.it Bioinfo website] (look for [[Image:Srs.jpg]]) or at the address http://bioinfo.ceinge.unina.it/srs7131/ . | :SRS is available directly from the [http://bioinfo.ceinge.unina.it Bioinfo website] (look for [[Image:Srs.jpg]]) or at the address http://bioinfo.ceinge.unina.it/srs7131/ . | ||
| - | :By using the SRS web interface, it is possible to query DBs by ''string'' and/or ''numerical'' words. The system, in fact, | + | :By using the SRS web interface, it is possible to query DBs by ''string'' and/or ''numerical'' words. The system, in fact, reads the text contained in all fields within the databases and creates the relative indices; these indices are scanned when queries are performed, allowing rapid retrieval of data which satisfy the search criteria. SRS also allows to create personal views of the data and to launch many applications directly from the web interface. |
| :More details about SRS and how to use it are available [http://bioinfo.ceinge.unina.it/srs7131/doc/index.html here] | :More details about SRS and how to use it are available [http://bioinfo.ceinge.unina.it/srs7131/doc/index.html here] | ||
| ===The system=== | ===The system=== | ||
| - | :SRS, developed early at the European Bioinformatics Institute (EBI) and now by the Biowisdom company, is used by major research centres because it provides a single simples interface for | + | :SRS, developed early at the European Bioinformatics Institute (EBI) and now by the Biowisdom company, is used by major research centres because it provides a single simples interface for accessing the biological DBs and creates links for multiple searches. Thus, data from various DBs can be compared with each other and with locally produced data. Researcher can also create personal projects and store, retrieve and further access all performed queries and relative results. |
| ===References=== | ===References=== | ||
| Line 15: | Line 15: | ||
| :The official public server of SRS is mantained at [http://srs.ebi.ac.uk SRS@EBI] | :The official public server of SRS is mantained at [http://srs.ebi.ac.uk SRS@EBI] | ||
| + | |||
| + | {{footer|footername=footer bioinfo}} | ||
Current revision
SRS (Sequence Retrieval System) is installed locally (version 7.1.3.2) and runs on the cluster server. It is used to manage about 70 of the most popular public biological databases (DBs), such as EMBL, UNIPROT, REFSEQ, ENTREZGENE, UNIGENE, PFAM, INTERPRO, PATHWAY, PDB and many others (see Databases). Databases produced in house are easily integrated into SRS, allowing researchers to compare and link local data with public ones. Many applications, such as those of the EMBOSS package, are integrated into SRS.
[edit] How to reach and use SRS
- SRS is available directly from the Bioinfo website (look for
) or at the address http://bioinfo.ceinge.unina.it/srs7131/ .
- By using the SRS web interface, it is possible to query DBs by string and/or numerical words. The system, in fact, reads the text contained in all fields within the databases and creates the relative indices; these indices are scanned when queries are performed, allowing rapid retrieval of data which satisfy the search criteria. SRS also allows to create personal views of the data and to launch many applications directly from the web interface.
- More details about SRS and how to use it are available here
[edit] The system
- SRS, developed early at the European Bioinformatics Institute (EBI) and now by the Biowisdom company, is used by major research centres because it provides a single simples interface for accessing the biological DBs and creates links for multiple searches. Thus, data from various DBs can be compared with each other and with locally produced data. Researcher can also create personal projects and store, retrieve and further access all performed queries and relative results.
[edit] References
- Etzold T, Ulyanov A and Argos P SRS: information retrieval system for molecular biology data banks. Methods Enzymol. 266:114-28 (1996)
- The official public server of SRS is mantained at SRS@EBI
