Abstract

Robust Analysis of Structural Variations using Paired-end Sequencing Data

Swaine Chen, Assistant Professor, National University of Singapore

Paired-end sequencing is an outstanding method for elucidation of structural variation in genome sequences. We have generalized the analysis of paired-end data to identify regulated genomic rearrangements in uropathogenic Escherichia coli, the most common bacterial cause of urinary tract infections.  This new method is theoretically optimal, boasts high signal-to-noise ratio, and is much faster than existing algorithms. Advantages of our method are its robustness, lack of parameters, and verifiability.  This enables us to do a type of "power analysis" to guide selection of sequencing depth.  I will present the algorithm and its initial application in the discovery of bacterial structural variations.