ChIP-seq Annotation

0.1 Sample e-2

0.1.1 Pie Plot

0.1.2 Density Plot

0.1.3 Annotation

There was 4.57% of inconsistency.

0.2 Sample h-2

0.2.1 Pie Plot

0.2.2 Density Plot

0.2.3 Annotation

There was 4.99% of inconsistency.

0.3 Sample j-2

0.3.1 Pie Plot

0.3.2 Density Plot

0.3.3 Annotation

There was 5.3% of inconsistency.

0.4 Sample k-2

0.4.1 Pie plot

0.4.2 Density Plot

0.4.3 Annotation

There was 4.78% of inconsistency.

0.5 Inconsistencies

There was about 5% discrepancy between the gene symbols noted by ChIPSeeker and ArrayStar across the samples. However, in most cases, the annotated genes are overlapped, as can be seen in the images from the UCSC Genome Browser below.

\

The images from the UCSC Genome Browser corresponding to the actual annotation discrepancies are listed below with the coordinates. \

1. chr10:58238348-58239809

2. chrX:33880466-33881572

3. chr11:88967140-88971346

4. chr13:119488734-119489962

5. chr11:88969678-88971293

6. chr10:57488179-57489146

0.6 Previous Data

Here I conducted the annotation analysis on the previously generated data with ChIPSeeker.

0.6.1 Pie Plot

0.6.2 Density Plot

0.6.3 Annotation