AUGUSTUS: ab initio prediction of alternative transcripts
2006 | journal article. A publication with affiliation to the University of Göttingen.
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Stanke, Mario, Oliver Keller, Irfan Gunduz, Alec Hayes, Stephan Waack, and Burkhard Morgenstern. "AUGUSTUS: ab initio prediction of alternative transcripts." NUCLEIC ACIDS RESEARCH 34 (2006): W435-W439. https://doi.org/10.1093/nar/gkl200.
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- Authors
- Stanke, Mario; Keller, Oliver; Gunduz, Irfan; Hayes, Alec; Waack, Stephan; Morgenstern, Burkhard
- Abstract
- AUGUSTUS is a software tool for gene prediction in eukaryotes based on a Generalized Hidden Markov Model, a probabilistic model of a sequence and its gene structure. Like most existing gene finders, the first version of AUGUSTUS returned one transcript per predicted gene and ignored the phenomenon of alternative splicing. Herein, we present a WWW server for an extended version of AUGUSTUS that is able to predict multiple splice variants. To our knowledge, this is the first ab initio gene finder that can predict multiple transcripts. In addition, we offer a motif searching facility, where user-defined regular expressions can be searched against putative proteins encoded by the predicted genes. The AUGUSTUS web interface and the downloadable open-source stand-alone program are freely available from http://augustus.gobics.de.
- Issue Date
- 2006
- Journal
- NUCLEIC ACIDS RESEARCH
- ISSN
- 0305-1048; 1362-4962
- Language
- English