Follow the links below to pdfs showing the results of our chromatin analysis.

Chromatin analysis was performed by assigning Affymetrix probes a 1 if they were equal to or greater than 4.5 and 0 if they were below 4.5. Each probe was then plotted to its chromosomal position and a chromosomal expression map was created for each chromosome for each cell type by an R function we wrote. Briefly, this function uses a sliding and overlapping window, which covers 20 probe sets at one time and overlaps with the previous 19, that takes the sum of 1ss within the window for the y axis and the mean chromosomal position for the x axis and uses these values to plot the expression map. For comparison between cell types, the expression map of one cell type was directly subtracted from all the other cell types in turn. To quantitate openness of chromatin we calculated the area under the curves and divided that by the possible area under the curve (if all y values were 20) to calculate a percentage of more open chromatin as shown by the chromosomal expression maps. Each pdf shows a graphical representation of the chromation expression map for all 20 chromosomes on the first 20 pages, and the last page is a table showing the percentage of more open chromatin for each chromosome. Positive numbers represent areas of more open chromatin in the cell of interest when compared to the other cell type and negative numbers show areas of more closed chromatin.