Automated DNA Motif Discovery

Details Automated DNA Motif Discovery Automated DNA Motif Discovery

2010-01-30

arxiv.org/abs/1002.0065v1

Biology

Quantitative Biology

Biomolecules

12 pages, 2 figures

Scientific paper

Ensembl's human non-coding and protein coding genes are used to automatically find DNA pattern motifs. The Backus-Naur form (BNF) grammar for regular expressions (RE) is used by genetic programming to ensure the generated strings are legal. The evolved motif suggests the presence of Thymine followed by one or more Adenines etc. early in transcripts indicate a non-protein coding gene. Keywords: pseudogene, short and microRNAs, non-coding transcripts, systems biology, machine learning, Bioinformatics, motif, regular expression, strongly typed genetic programming, context-free grammar.

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