Genome-wide modeling of transcription preinitiation complex disassembly mechanisms using ChIP-chip data.

ABSTRACT: Apparent occupancy levels of proteins bound to DNA in vivo can now be routinely measured on a genomic scale. A challenge in relating these occupancy levels to assembly mechanisms that are defined with biochemically isolated components lies in the veracity of assumptions made regarding the in vivo system. Assumptions regarding behavior of molecules in vivo can neither be proven true nor false, and thus is necessarily subjective. Nevertheless, within those confines, connecting in vivo protein-DNA interaction observations with defined biochemical mechanisms is an important step towards fully defining and understanding assembly/disassembly mechanisms in vivo. To this end, we have developed a computational program PathCom that models in vivo protein-DNA occupancy data as biochemical mechanisms

SUBMITTER: Samorodnitsky E 

PROVIDER: S-EPMC2848545 | biostudies-literature | 2010 Apr

REPOSITORIES: biostudies-literature