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PDFOpen Access (License Unspecified), Open Access
Thesis
Identification of dTip60 Binding Partners by Bioinformatic Analysis of ChIP-Seq Data
Master of Science (M.S.), Drexel University
May 2014
DOI:
https://doi.org/10.17918/etd-4505
Abstract
Tip60 is a histone acetyltransferase that has recently been shown to play a significant role in various neuronal functions of Drosophila, including synaptic plasticity and axonogenesis, as well as the pathophysiology of Alzheimer's disease (AD) in the fly brain. However, the mechanisms by which Tip60 affects these processes remain poorly understood. Due to a lack of a DNA-binding motif in the Tip60 protein structure, it is hypothesized that Tip60 is recruited to particular neuronal genes by one or more putative DNA-binding proteins, and consequently acetylates nearby histone tails to facilitate transcription of those genes. In order to identify these potential binding partners of Tip60, an in-depth bioinformatic analysis was performed using data from Drosophila Tip60 ChIP-Seq experiment, which provides a genome-wide occupancy profile for Tip60. Tip60-target regions were analyzed for the presence of genes, DNA-binding motifs and other structural features, in order to shed light on the mechanism of Tip60-dependent regulation of neuronal gene expression in the fly. Results show that Tip60-target genes are enriched for neuronal functions, and several candidate transcription factors, identified by various methods, represent possible binding-partners for Tip60 in a neuronal functional context. This project will allow for a better understanding of the cellular mechanisms of epigenetic regulations as a whole, as well as the mechanisms of action of various cognitive and neurodegenerative diseases such as AD.
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Details
- Title
- Identification of dTip60 Binding Partners by Bioinformatic Analysis of ChIP-Seq Data
- Creators
- Rona Wilf - DU
- Contributors
- Ahmet Sacan (Advisor) - Drexel University (1970-)
- Awarding Institution
- Drexel University
- Degree Awarded
- Master of Science (M.S.)
- Publisher
- Drexel University; Philadelphia, Pennsylvania
- Resource Type
- Thesis
- Language
- English
- Academic Unit
- School of Biomedical Engineering, Science, and Health Systems (1997-2026); Drexel University
- Other Identifier
- 4505; 991014632590004721