HyPaLib: a database of RNAs and RNA structural elements defined by hybrid patterns

by: Stefan Graf, Dirk Strothmann, Stefan Kurtz, Gerhard Steger

Nucl. Acids Res., Vol. 29, No. 1. (1 January 2001), pp. 196-198.

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Abstract

The database, called HyPaLib (for Hybrid Pattern Library), contains annotated structural elements characteristic for certain classes of structural and/or functional RNAs. These elements are described in a language specifically designed for this purpose. The language allows convenient specification of hybrid patterns, i.e. motifs consisting of sequence features and structural elements together with sequence similarity and thermodynamic constraints. We are currently developing software tools that allow a user to search sequence databases for any pattern in HyPaLib, thus providing functionality which is similar to PROSITE, but dedicated to the more complex patterns in RNA sequences. HyPaLib is available at http://bibiserv.techfak.uni-bielefeld.de/HyPa/. 10.1093/nar/29.1.196

@article{graf, abstract = {The database, called HyPaLib (for Hybrid Pattern Library), contains annotated structural elements characteristic for certain classes of structural and/or functional RNAs. These elements are described in a language specifically designed for this purpose. The language allows convenient specification of hybrid patterns, i.e. motifs consisting of sequence features and structural elements together with sequence similarity and thermodynamic constraints. We are currently developing software tools that allow a user to search sequence databases for any pattern in HyPaLib, thus providing functionality which is similar to PROSITE, but dedicated to the more complex patterns in RNA sequences. HyPaLib is available at http://bibiserv.techfak.uni-bielefeld.de/HyPa/. 10.1093/nar/29.1.196}, author = {Graf, Stefan and Strothmann, Dirk and Kurtz, Stefan and Steger, Gerhard }, citeulike-article-id = {707094}, journal = {Nucl. Acids Res.}, keywords = {bioinformatics, pattern, rna, search}, month = {January}, number = {1}, pages = {196--198}, posted-at = {2006-06-22 10:11:16}, priority = {2}, title = {HyPaLib: a database of RNAs and RNA structural elements defined by hybrid patterns}, url = {http://nar.oxfordjournals.org/cgi/content/abstract/29/1/196}, volume = {29}, year = {2001} }

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TY - JOUR ID - graf L3 - citeulike-article-id:707094 N2 - The database, called HyPaLib (for Hybrid Pattern Library), contains annotated structural elements characteristic for certain classes of structural and/or functional RNAs. These elements are described in a language specifically designed for this purpose. The language allows convenient specification of hybrid patterns, i.e. motifs consisting of sequence features and structural elements together with sequence similarity and thermodynamic constraints. We are currently developing software tools that allow a user to search sequence databases for any pattern in HyPaLib, thus providing functionality which is similar to PROSITE, but dedicated to the more complex patterns in RNA sequences. HyPaLib is available at http://bibiserv.techfak.uni-bielefeld.de/HyPa/. 10.1093/nar/29.1.196 IS - 1 JF - Nucl. Acids Res. EP - 198 TI - HyPaLib: a database of RNAs and RNA structural elements defined by hybrid patterns VL - 29 SP - 196 KW - bioinformatics KW - pattern KW - rna KW - search AU - Graf, Stefan AU - Strothmann, Dirk AU - Kurtz, Stefan AU - Steger, Gerhard PY - 2001/01/01/ UR - http://nar.oxfordjournals.org/cgi/content/abstract/29/1/196 ER -

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