The Essential Component in DNA-Based Information Storage System: Robust Error-Tolerating Module.

ABSTRACT: The size of digital data is ever increasing and is expected to grow to 40,000?EB by 2020, yet the estimated global information storage capacity in 2011 is <300?EB, indicating that most of the data are transient. DNA, as a very stable nano-molecule, is an ideal massive storage device for long-term data archive. The two most notable illustrations are from Church et al. and Goldman et al., whose approaches are well-optimized for most sequencing platforms - short synthesized DNA fragments without homopolymer. Here, we suggested improvements on error handling methodology that could enable the integration of DNA-based computational process, e.g., algorithms based on self-assembly of DNA. As a proof of concept, a picture of size 438?bytes was encoded to DNA with low-density parity-check error-correction code. We salvaged a significant portion of sequencing reads with mutations generated during DNA synthesis and sequencing and successfully reconstructed the entire picture. A modular-based programing framework - DNAcodec with an eXtensible Markup Language-based data format was also introduced. Our experiments demonstrated the practicability of long DNA message recovery with high error tolerance, which opens the field to biocomputing and synthetic biology.

SUBMITTER: Yim AK 

PROVIDER: S-EPMC4222239 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature