|
 The holoenzyme containing RNA polymerase II
must be recruited to the upstream region of a gene in order to begin
synthesizing the mRNA for that gene. It is directed to the start site of
transcription by one of its subunits' affinity to a particular DNA
sequence, the promoter, that appears upstream from the beginning of the
gene. Its subunits and the other transcription factors that have been
shown to regulate transcription are observed across the genome as they are
expressed and as they bind to the promoter sites they recognize, are our
key to the interactions between genes. We propose a compuational method
for ascertaining highly likely binding sites in a way that does not
require assumptions about site length, the variability within a site or
the variability between sites. Bioinformatics.
2002 Oct;18(10):1289-96.
|
What
do geographic and genomic profiles have in common? Both use height
to point researchers to the places where important events are likely to
have occurred. Just as mount Fiji marks the place where a volcanic
eruption occured, transcription factor binding sites locations can be
determined from statistical analyses of high density probing along the
chromosomes of the human genome. 
This work purports to accomplish this goal in
the area of transcription regulation in Saccharomyces cerevisiae.
The response of yeast cells to pheromone treatment has been well
characterized with respect to the MAP kinase cascade. However, it is not
until the advent of genome wide location analysis and high-throughput
protein-protein interaction screens that we can begin to form hypotheses
regarding the entire interactome. We augment, represent and test these
theories as baysian inference networks. The ability to test these
hypotheses in silico will reduce the amount of in vivo
experimentation needed to verify
them. Submitted.