A robust and efficient DNA storage architecture based on modulation encoding and decoding

Abstract

Thanks to its high density and long durability, synthetic DNA has been widely considered as a promising solution to the data explosion problem. However, due to the large amount of random base insertion-deletion-substitution (IDSs) errors from sequencing, reliable data recovery remains a critical challenge, which hinders its large-scale application. Here, we propose a modulation-based DNA storage architecture. Experiments on simulation and real datasets demonstrate that it has two distinct advantages. First, modulation encoding provides a simple way to ensure the encoded DNA sequences comply with biological sequence constraints (i.e., GC balanced and no homopolymers); Second, modulation decoding is highly efficient and extremely robust for the detection of insertions and deletions, which can correct up to ~40% errors. These two advantages pave the way for future high-throughput and low-cost techniques, and will kickstart the actualization of a viable, large-scale system for DNA data storage.

An image cryptography method in highly error-prone DNA storage channel

“…5(b) shows the decrypted images which could retain the portrait even with loss rate 50%. To the best of our knowledge, such robustness can only be achieved by modulation-based DNA storage architecture [3, 5, 18, 27–29].…”

“…Xn, and M to execute the reverse operation on the encryption algorithm. First, according to the modulation decoding method [18],…”

“…The decryption scheme uses the keys including λ , P , X r ( n ), X c ( n ), X d ( n ), and M to execute the reverse operation on the encryption algorithm. First, according to the modulation decoding method[18], M is used to correct errors in the sequenced data C ’ and decode them to obtain the two dimensional pixel matrix P 2 . Second, use Eq.…”

“…The second one infers a possible modulation signal ' M by MSA, and then reconstructs the images using the inferred ' M as in Ref. [18]. And the last one recovers images using the true modulation signal M .…”

“…Recently, our group proposed a modulation-based DNA storage architecture which is extremely robust to insertion-deletion-substitution (IDS) errors. The key idea is to transform the binary information to DNA sequences by a modulation signal [18]. Fig.…”