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A compression method for DNA

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  • Shengwang Du
  • Junyi Li
  • Naizheng Bian

Abstract

The development of high-throughput sequencing technology has generated huge amounts DNA data. Many general compression algorithms are not ideal for compressing DNA data, such as the LZ77 algorithm. On the basis of Nour and Sharawi’s method,we propose a new, lossless and reference-free method to increase the compression performance. The original sequences are converted into eight intermediate files and six final files. Then, the LZ77 algorithm is used to compress the six final files. The results show that the compression time is decreased by 83% and the decompression time is decreased by 54% on average.The compression rate is almost the same as Nour and Sharawi’s method which is the fastest method so far. What’s more, our method has a wider range of application than Nour and Sharawi’s method. Compared to some very advanced compression tools at present, such as XM and FCM-Mx, the time for compression in our method is much smaller, on average decreasing the time by more than 90%.

Suggested Citation

  • Shengwang Du & Junyi Li & Naizheng Bian, 2020. "A compression method for DNA," PLOS ONE, Public Library of Science, vol. 15(11), pages 1-8, November.
    • Handle: RePEc:plo:pone00:0238220
    DOI: 10.1371/journal.pone.0238220
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    1. Pollok, Patrick & Amft, André & Diener, Kathleen & Lüttgens, Dirk & Piller, Frank T., 2021. "Knowledge diversity and team creativity: How hobbyists beat professional designers in creating novel board games," Research Policy, Elsevier, vol. 50(8).

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