Degree Type

Dissertation

Date of Award

2010

Degree Name

Doctor of Philosophy

Department

Genetics, Development and Cell Biology

Major

Bioinformatics and Computational Biology

First Advisor

Daniel F. Voytas

Second Advisor

Les Miller

Abstract

This dissertation seeks to improve C2H2 zinc finger protein (ZFP) engineering through computational and experimental studies. Engineered ZFPs that are able to bind any desired DNA sequence in a genome have great potential for basic biological research and biomedical applications. Current methods to engineer ZFPs are either unreliable, due to high failure rates, or inaccessible to some researchers, due to high demands of labor, time and expertise.

We created a web-accessible database that organizes zinc finger modules (ZFMs) and ZFPs from our lab, our collaborators' labs and the literature. This database helps researchers by providing information about the existence of ZFMs or ZFPs and their performance in DNA binding. We then described rules that govern the interaction of ZFPs and DNA by analyzing the finger sequences in the ZFM pools created by Oligomerized Pool ENgineering (OPEN), a recently developed, reliable, rapid and publicly available ZFP engineering method. These rules will be valuable in the improvement of the OPEN method and the understanding of the interaction between engineered ZFPs and DNA

DOI

https://doi.org/10.31274/etd-180810-1215

Copyright Owner

Fengli Fu

Language

en

Date Available

2012-04-30

File Format

application/pdf

File Size

307 pages

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