2017/06/30 by Andreas Lenz, Lenz, Andreas, Antonia Wachter-Zeh +3
Biochemistry, Genetics and Molecular Biology · Engineering · #Advanced biosensing and bioanalysis techniques #DNA and Biological Computing #E.4 #FOS: Computer and information sciences #G.2.1 #Information Theory (cs.IT) #Modular Robots and Swarm Intelligence
paper · pdf · doi:10.48550/arxiv.1707.00052
openalex publication_date 2017/06/30 · openalex created_date 2025/10/10 · openalex updated_date 2026/07/28
In this work, we derive upper bounds on the cardinality of tandem duplication and palindromic deletion correcting codes by deriving the generalized sphere packing bound for these error types. We first prove that an upper bound for tandem deletions is also an upper bound for inserting the respective type of duplications. Therefore, we derive the bounds based on these special deletions as this results in tighter bounds. We determine the spheres for tandem and palindromic duplications/deletions and the number of words with a specific sphere size. Our upper bounds on the cardinality directly imply lower bounds on the redundancy which we compare with the redundancy of the best known construction correcting arbitrary burst errors. Our results indicate that the correction of palindromic duplications requires more redundancy than the correction of tandem duplications. Further, there is a significant gap between the minimum redundancy of duplication correcting codes and burst insertion correcting codes.