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SUMMARY:Physical constraints can encode bacterial promoter regulatory logi
 c - Daphne Ezer (Department of Genetics)
DTSTART:20131106T140000Z
DTEND:20131106T150000Z
UID:TALK48795@talks.cam.ac.uk
CONTACT:Danielle Stretch
DESCRIPTION:It is well known that DNA binding proteins in bacteria find th
 eir binding\nsites by a combination of 3D diffusion around and 1D diffusio
 n on the DNA\nsequence\, and the physical parameters for this diffusion pr
 ocess have been\nrecently measured experimentally.  We developed a simple 
 physics simulation\nof this search process based on the previously measure
 d physical\nparameters.  We found three simple and common arrangements of 
 binding sites\n(which we call "building blocks") can have a profound impac
 t on the\ntemporal dynamics of protein binding to DNA.  We show that combi
 ning these\nbuilding blocks into complex arrangements of binding sites can
  encode\ncomplex regulatory logic and that these complex binding sites arr
 angements\nare common and highly conserved in E. coli
LOCATION:MR4\, Centre for Mathematical Sciences\, Wilberforce Road\, Cambr
 idge
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