- title = "Predicting non-coding {RNA} genes in Escherichia coli with boosted genetic programming",
- author = "Pal Saetrom and Ragnhild Sneve and Knut I. Kristiansen and Ola Snove and Thomas Grunfeld and Torbjorn Rognes and Erling Seeberg",
- year = "2005",
- journal = "Nucleic Acids Research",
- volume = "33",
- number = "10",
- pages = "3263--3270",
- month = jun # "~08",
- bibsource = "OAI-PMH server at www.pubmedcentral.gov",
- language = "en",
- oai = "oai:pubmedcentral.gov:1143698",
- rights = "{\copyright} The Author 2005. Published by Oxford University Press. All rights reserved",
- keywords = "genetic algorithms, genetic programming",
-
URL = "
http://nar.oxfordjournals.org/cgi/reprint/33/10/3263.pdf",
-
URL = "
http://www.pubmedcentral.gov/articlerender.fcgi?artid=1143698",
-
URL = "http://www.pubmedcentral.gov/picrender.fcgi?artid=1143698&blobtype=pdf",
-
DOI = "
doi:10.1093/nar/gki644",
- size = "8 pages",
- abstract = "Several methods exist for predicting non-coding RNA (ncRNA) genes in Escherichia coli (E.coli). In addition to about sixty known ncRNA genes excluding tRNAs and rRNAs, various methods have predicted more than thousand ncRNA genes, but only 95 of these candidates were confirmed by more than one study. Here, we introduce a new method that uses automatic discovery of sequence patterns to predict ncRNA genes. The method predicts 135 novel candidates. In addition, the method predicts 152 genes that overlap with predictions in the literature. We test sixteen predictions experimentally, and show that twelve of these are actual ncRNA transcripts. Six of the twelve verified candidates were novel predictions. The relatively high confirmation rate indicates that many of the untested novel predictions are also ncRNAs, and we therefore speculate that E.coli contains more ncRNA genes than previously estimated.",
-
notes = "Included in \cite{drphil-satrom-05}
Interagon AS, Medisinsk teknisk senter, NO-7489 Trondheim, Norway and 1Centre for Molecular Biology and Neuroscience, Institute of Medical Microbiology, Rikshospitalet University Hospital, NO-0027 Oslo, Norway
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Identification of chromosomal alpha-proteobacterial small RNAs by comparative genome analysis and detection in Sinorhizobium meliloti strain 1021 Vincent M Ulve, Emeric W Sevin, Angelique Cheron, and Frederique Barloy-Hubler BMC Genomics. 2007; 8: 467. Published online 2007 December 19. doi:10.1186/1471-2164-8-467. PMCID: PMC2245857",
