Methylation Patterns in Homo sapiens. Brian Watson Under the supervision of Dr. Steven Smith at City of Hope. Introduction. Methylation occurs at different stages Usually it is performed by DNMT1,3a,3b Favors CpG sites CpG islands are found upstream from about 40% of the genes.
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Under the supervision of Dr. Steven Smith at City of Hope
M•EcoRII adds a methyl group to C(m)CWGG
M•SssI adds a methyl group to C(m)G
* * CH3 *
5’ CCCAGGCGTCGCTTCCGCG 3’
The color green represents CG the gene
The color black represents the EcoRII sites
The color blue represents CG sites
1 EcoRII(CCAGG) upstream, 1 EcoRII(CCAGG) downstream
1 SssI(CG) upstream, 2 SssI(CG)downstream
The computer counts much faster than I do.
Create my own file.
Adjust the counts to take into account new distances.
*CpG Islands seemed to affect the distribution
Upon dividing the upstream results with the
downstream results we expect the values of
the CG cites to be higher around the CG islands
We expect the number of Non-CG sites to be a lot
higher through the upstream region as well.
Y axis is (frequency of sequence around the gene-frequency of sequence in
the genome) / frequency of the genome
Look for a change in gene expression
at genes with higher levels than
expected of CG and non-CG sites.
City of Hope
Dr. Steven Smith
Dr. Kristofer Munson
Dr. Jarrod Clark
Dr. Taras Schevchuck
National Institute of Health(NIH)
National Science Foundation(NSF)