Random ramblings about some random stuff, and things; but more stuff than things -- all in a mesmerizing and kaleidoscopic soapbox-like flow of words.
interesting case where a small skipping exon generates an extra copy for the Znf-C2H2 domain.
REST is an essential vertebrate transcription factor with very diverse roles. It has an important role in regulatory secretory pathway. Independently confirmed by 2 other groups.
RE1 array used to identify misregulated REST target genes in diseases like Huntington's.
RE1 "half" sites. Canonical/Transfac/Discovered motifs.
Different evolutionary pressures over RE1 sites seem to be associating with different function subsets: common sites are less well conserved than unique sites. Unique sites need to be tissue specific, so they are bound to keep a general binding weakness to turn off binding in non-specific tissue (if I correctly understand?).
Solexa sequencing quite good in identifying high affinity motifs, but poor at low affinity motifs.
There is an in vivo hierarchy between RE1 for REST binding and it can be discriminated at the DNA sequence level.
Labels: genomics, scientific talk