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    Home > Biochemistry News > Biotechnology News > "10x Genomics Sequencing" assists "three-generation sequencing" hybrid assembly strategy and software technology.

    "10x Genomics Sequencing" assists "three-generation sequencing" hybrid assembly strategy and software technology.

    • Last Update: 2020-08-06
    • Source: Internet
    • Author: User
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    Recently, a team led by Zhang Yaping and Ma Zhanshan, researchers at the Kunming Institute of Zoology of the Chinese Academy of Sciences, released a hybrid assembly strategy and software technology to "10x Genomics sequencing" to aid "three generations of sequencing".
    researchers demonstrated the results of a demonstration of three-generation sequencing data on the human genome published in 2018 by Jain et al. at the University of California, Usain, etc., on Nature Biotechnology (doi: 10.1038/nbt.4060.), and the results showed that the new method can reduce the sequencing depth from 35 times to 7 times used by Jain and others, by 80%;
    patent for the invention of the technology has been officially accepted and the results are published online in Genomics.
    new technology can greatly reduce the cost of three generations of sequencing, thus providing a good opportunity to further promote sequencing technology from the current mainstream second-generation technology to the upgrading of the third generation technology industry.
    gene sequencing technology is one of the core technologies of life science and biotechnology, and is in the transition stage from mainstream second-generation sequencing technology to industrial upgrading of three generations of technology.
    third-generation technology with its ultra-long reading segment (the latest technology can reach 1 trillion), compared with the short reading segment to win the second generation of technology has many technical advantages, is undoubtedly the future of sequencing technology.
    but the three-generation technology in the competition with the second generation of technology, there are also two major disadvantages, one is the three-generation sequencing hardware (sequencer) base-pair error rate is still as high as 15% (second-generation sequencing error rate is less than 1%), and the second is still high sequencing costs.
    in fact, the high error rate of three generations of sequencing also makes the assembly analysis of three generations of sequencing data extremely challenging.
    , for example, in 2014, the mainstream three-generation gene sequencing software spent 400,000 CPU hours in a single step when assembling the human genome, thanks to Google's supercomputer cluster.
    2014, Ma Zhanshan and Dr. Ye Chengxuan of the University of Maryland in the United States released a three-generation sequencing assembly software (DBG2OLC) to reduce this calculation to about six hours, and was completed at a regular workstation.
    DBG2OLC enables the calculation that would have required a supercomputer cluster to be completed on a regular workstation, and dBG2OLC is still the fastest running software and the least memory-required software in three generations of sequencing software.
    2016 they co-released another software SPARC for three-generation sequencing error correction, which reduced the assembly error rate of three-generation sequencing software technology to less than 0.5 percent, saving compute time and memory by 80 percent compared to the best software of its kind at the time.
    DBG2OLC and SPARC software not only effectively compensate for the ultra-high error rate of three-generation sequencing hardware technology, but also for the latest "10x technology-assisted hybrid three-generation sequencing" laid an efficient and reliable algorithm and software foundation.
    the technology released this time is still supported and helped by Ye Chengxuan.
    Ma Zhanshan as the first author of the article, Ma Zhanshan and Zhang Yaping as co-authors of the article.
    related work has been supported by the National Natural Science Foundation of China, Yunling Industry Technology Leader, Yunnan Province International Cooperation Fund, etc.
    Source: Kunming Animal Research Institute.
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