Identifying the Relationship Between Evolutionary Distance and the Accuracy of Cis-Regulatory Module Predictions
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2014
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Haverford College. Department of Computer Science
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Thesis
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Award
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eng
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Open Access
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Abstract
Cis-Regulatory Modules (CRMs) are the portion of DNA that initiates gene expression. Gene expression is the process through which the body turns DNA into functions and cells within an organism. In this paper I build upon a program, MultiModule, created by Zhou and Wong (2007) that utilizes hidden Markov models and multiple sequence alignments to determine novel Cis- regulatory modules. I use the program to determine if there is a relationship between the evolutionary distance between species, and the ability to identify CRMs based on multiple alignments. The results indicated that there is a higher prediction rate between the closest species, and that the greater the variety in evolutionary distance the more precise the predictions are.