Abstract
The p53 tumor suppressor protein is involved in multiple central cellular processes and human cancer occurrences. A research effort is proposed to collect the majority of p53 ChIP fragments up to now and reveal the binding pattern of p53 binding sites. It demonstrates that the normal and cancer cell lines have significantly different chromatin organizations around P53 binding sites. Based on the high occurrences, the core binding sites can be collected to analyze gene expression configurations. Depending on the accessibility of p53 sites and epigenetic marks in the chromatin context, p53 binds to its target sites in repetitive regions. Finally, the functional annotation analysis illustrates that the most enriched pathway of p53 ChIP fragments is p53 signaling pathway and highly enriched clusters relating to apoptosis, DNA damage and cellular signaling are modulated by p53.
Library of Congress Subject Headings
p53 protein--Analysis; Chromatin
Publication Date
12-1-2016
Document Type
Thesis
Student Type
Graduate
Degree Name
Bioinformatics (MS)
Department, Program, or Center
Thomas H. Gosnell School of Life Sciences (COS)
Advisor
Feng Cui
Advisor/Committee Member
Gary R. Skuse
Advisor/Committee Member
Gregory Babbitt
Recommended Citation
Bao, Feifei, "Computational analysis in vivo p53 binding sites in the context of chromatin and repeat regions" (2016). Thesis. Rochester Institute of Technology. Accessed from
https://repository.rit.edu/theses/9355
Campus
RIT – Main Campus
Plan Codes
BIOINFO-MS
Comments
Physical copy available from RIT's Wallace Library at QP552.P25 B36 2016