The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates.
We have developed several new methods to investigate transcriptional motifs in vertebrates. We developed a specific alignment tool appropriate for regions involved in transcription control, and exhaustively enumerated all possible 12-mers for involvement in transcription by virtue of their mammalian conservation. We then used deeper comparative analysis across vertebrates to identify the active instances of these motifs. We have shown experimentally in Medaka fish that a subset of these predictions is involved in transcription.
Ettwiller
Laurence
L
EBI, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK. Laurence.Ettwiller@espci.fr
Paten
Benedict
B
Souren
Marcel
M
Loosli
Felix
F
Wittbrodt
Jochen
J
Birney
Ewan
E
D000818:Animals; D017124:Conserved Sequence; D004625:Embryo, Nonmammalian / Q000166:cytology; D019143:Evolution, Molecular; D006801:Humans; D011401:Promoter Regions, Genetic / Q000235:genetics; D012045:Regulatory Sequences, Nucleic Acid / Q000235:genetics*; D015203:Reproducibility of Results; D052156:SELEX Aptamer Technique; D017384:Sequence Deletion / Q000235:genetics; D023741:Takifugu / Q000235:genetics; D014158:Transcription, Genetic / Q000235:genetics*; D019076:Transgenes; D014714:Vertebrates / Q000235:genetics*