Master of Science (MS)
In this work, we describe our efforts to seek optimal solutions for the DNA Fragment Assembly Problem in terms of assembly accuracy and runtime efficiency. The main obstacles for the DNA Fragment Assembly are analyzed. After reviewing various advanced algorithms adopted by some assemblers in the bioinformatics industry, this work explores the feasibility of assembling fragments for a target sequence containing perfect long repeats, which is deemed theoretically impossible without tedious finishing reaction experiments. Innovative algorithms incorporating statistical analysis proposed in this work make the restoration of DNA sequences containing long perfect repeats an attainable goal.
Li, Ching, "DNA Fragment Assembly Algorithms: Toward a Solution for Long Repeats" (2008). Master's Projects. Paper 98.