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SRS—an indexing and retrieval tool for flat file data libraries
Abstract
SRS (Sequence Retrieval System) is an information indexing and retrieval system designed for libraries with a flat file format such as the EMBL nucleotide sequence databank, the SwissProt protein sequence databank or the Prosite library of protein subsequence consensus patterns. SRS supports the data structure of these libraries by providing special indices for implementing lists of subentities (e.g. feature tables) or hierarchically structured data-fields (e.g. taxonomic classification). A language (ODD) has been designed for the convenient specification of library format and organization, representation of individual data-fields within the system (design of indices) and structuring other data needed during retrieval. This ensures flexibility required for coping with different library formats, which are subject to continuous change. Queries and inspection of retrieved entries can be performed from a user interface with pull-down menus and windows. SRS supports various input and output formats but is particularly well adapted to the GCG programs.
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Citations
Cited by
EMBOSS: the European molecular biology open software suite.
Rice, P., Longden, I., & Bleasby, A. (2000) · Trends in Genetics · doi:10.1016/s0168-9525(00)02024-2 · Cited by 9,466
The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1998
Bairoch, A. (1998) · Nucleic Acids Research · doi:10.1093/nar/26.1.38 · Cited by 3,280
The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
Bairoch, A. (2000) · Nucleic Acids Research · doi:10.1093/nar/28.1.45 · Cited by 3,093
Galaxy: A platform for interactive large-scale genome analysis
Giardine, B., Riemer, C., Hardison, R. C., Burhans, R., Elnitski, L., Shah, P., Zhang, Y., Blankenberg, D., Albert, I., Taylor, J., et al. (2005) · Genome Research · doi:10.1101/gr.4086505 · Cited by 2,026
Untranslated regions of mRNAs.
(2002) · Genome biology · doi:10.1186/gb-2002-3-3-reviews0004 · Cited by 987
Metadata
- Authors
- Etzold, T., & Argos, P.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 1993
- Volume
- 9
- Issue
- 1
- Pages
- 49-57
- ISSN
- 0266-7061 (ISSN-L)
- 1367-4803
- 1460-2059
- OpenAlex
- W2094010958
- Cited by
- 278
- References
- 0
- FWCI
- 19.26
- Type
- journal article
- Language
- en
- Open access
- closed
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- Etzold, T., & Argos, P. (1993). SRS—an indexing and retrieval tool for flat file data libraries. Bioinformatics. https://doi.org/10.1093/bioinformatics/9.1.49
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
