Hello again, This would be the expected correlation between the data according to the super track description and methods for the three sub-tracks. To view this in entirety, go into Assembly browser and click on the track name link. A short portion of the relevant comments are quoted below.
Thanks, Jennifer Jackson UCSC Genome Bioinformatics Group A quote from the track details page: > Although each model can predict regions of high and low nucleosome > occupancy, one model (MEC) excels at recognizing regions of low > nucleosome occupancy, whereas the other two (A375 and Dennis) are > better at recognizing regions of high nucleosome occupancy. > > The three models are as follows: > > *A375* - This model was trained using data from the A375 cell line > from Ozsolak et al. (2007). This cell line was prepared with weak > MNase digestion. The A375 model excels at recognizing regions of > strong protection from MNase cleavage; i.e., /positions that are > frequently occupied by a nucleosome./ > *Dennis* - This model was trained using data from MDA-kb2 cell > line data from Dennis et al. (2007). This cell line was prepared with > weak MNase digestion. Hence, like the A375 model, the Dennis model > excels at recognizing /regions that are frequently occupied by a > nucleosome./ > *MEC* - This model was trained using data from the MEC cell line > from Ozsolak et al. (2007). This cell line was prepared with strong > MNase digestion. This model excels at recognizing regions of high > accessibility to MNase cleavage; i.e., /positions that are frequently > nucleosome-free./ Osvaldo Graña wrote: > hi again, just another question about the nucleosome occupancy tracks: > > I have checked that in most of the cases I have seen, predictions from > A375 and Dennis correlate, while MEC predictions show an anticorrelated > behaviour when compared to the others. > Does anyone have an explanation for that? > > an example here: > http://genome.ucsc.edu/cgi-bin/hgTracks?hgsid=133321875&clade=mammal&org=Human&db=hg18&position=chr15%3A42%2C700%2C001-42%2C703%2C000&pix=1850&Submit=submit > > > thanks again!! > > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
