CREU 2014-15
Department of Computer Science
Algorithms and Tools for Synthetic Gene Design
The emerging field of synthetic
biology moves beyond conventional genetic manipulation towards the
redesign and construction of novel genes and genomes that do not
originate in nature. With enormous advances in large scale DNA
synthesis and sequencing we are now in a position to design large-scale
experiments with synthetic genes to quantitatively characterize
biological components and bridge the gap of knowledge between sequence
and function. Our project aims to create efficient algorithms and
computational tools for the rational engineering of protein-coding DNA
sequences for acquisition of new attributes. Our ultimate goal is for
these algorithms and tools to be used to rationally construct large
numbers of synthetic designs, with varied but well controlled
optimization objectives, enabling researchers to delineate which
sequence features contribute the most to properties such as expression
and stability of molecules.
Funding is provided by the Computer Research Association’s
Committee on the Status of Women in Computing Research (CRA-W) and the
Coalition to Diversify Computing (CDC), with support from the National
Science Foundation (NSF).