Resolution:
## Figure 2.
The coefficients of the Poisson linear models in different datasets. The coefficients of the Poisson linear model in the eight sub-datasets when we consider
surrounding sequences as 40 nucleotides before and 40 nucleotides after the first
nucleotide of a read. Position -1, 0, 1 means the nucleotide before the first nucleotide
of a read, the first nucleotide of a read, and the second nucleotide of a read, respectively.
Color coding for nucleotides: red, T; green, A; blue, C; black, G. The coefficients
for nucleotide T (red) are the base levels, so they are always zero. (a) Coefficients in the Wold data. Shape coding for sub-datasets: rectangle, brain;
triangle, liver; circle, skeletal muscle. (b) Coefficients in the Burge data. Shape coding for sub-datasets: rectangle, group
1; triangle, group 2; circle, group 3. (c) Coefficients in the Grimmond data. Shape coding for sub-datasets: rectangle, EB;
triangle, ES. Following are examples of how these coefficients should be read. In
the Wold brain data, the coefficient of C in the first nucleotide of a read (the blue
rectangle at position 0 in (a)) is 0.82. This means that if the nucleotide T is replaced
by C, then the sequencing preference will increase to e^{0.82 }= 2.27 times. Nt: nucleotides.
Li |