Michael Rehli • Dept. Internal Medicine III • University Hospital • F.-J.-Strauss Allee 11 • 93053 Regensburg
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Sequence Motifs


Many DNA-binding factors recognise specific sequences of nucleotides (sequence motifs), which are frequently displayed as so-called position weight matrices (PWM). We are using computational approaches to find sequence motifs in short genomic intervals that show features of regulatory sequences (like transcription initiation, DNase hypersensitivity, transcription factor binding or the presence of particular epigenetic marks). This can be a powerful way to identify regulators that control cell type-specificity or cellular responses. The links below provide easy access to our published motif analyses.

FANTOM5 data
 
The HOMER ENHANCER MOTIF DATABASE contains collections of sequence motifs enriched in human bidirectional CAGE enhancers as described in Andersen et al. 2014, Nature. The underlying CAGE data was produced at the RIKEN OSC as part of the international FANTOM consortium and is described in Forrest et al. 2014, Nature.
http://www.ag-rehli.de/EnhancerMotifs/CAGEenhancers.html
 
Motifs of CAGE-defined cell type-specific promoters were integrated in the FANTOM SSTAR browser
http://fantom.gsc.riken.jp/5/sstar/