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中国生物工程杂志

China Biotechnology
China Biotechnology  2022, Vol. 42 Issue (6): 116-129    DOI: 10.13523/j.cb.2112003
    
Comparison and Analysis on Scientific Research Programs on DNA Data Storage
ZHANG Da-lu1,GE Qi2,FENG Yi-bo2,CHEN Wei-gang2,3,*()
1. China National Center for Biotechnology Development, Beijing 100039, China
2. School of Microelectronics, Tianjin University, Tianjin 300072, China
3. Frontiers Science Center for Synthetic Biology of Ministry of Education, Tianjin University, Tianjin 300072, China
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Abstract  

The explosive growth of global data has become an important engine for the development of the digital economy. However, traditional data storage media are limited by power consumption, volume and cost, and cannot meet the ever-increasing demand for data storage. The new storage method using deoxyribonucleic acid (DNA) molecule as storage medium has attracted great attention at home and abroad. Major countries in the world have carried out top-level planning for its research and deployed a series of important scientific research plans. However, DNA data storage is a new interdisciplinary research field, and its development “source” and “flow” still need to be deeply analyzed. To solve this problem, this paper explores the development “source” of DNA data storage from the perspective of fusion of information, semiconductor and synthetic biology, and analyzes and summarizes the development plan of DNA data storage in major countries and regions in the world in recent years. We present the layout of scientific research projects at home and abroad, particularly, the basic research program promoted by the Alliance for Semiconductor Synthetic Biology, the application-oriented intensive research program promoted by Defense Advanced Research Projects Agency (DARPA) and Intelligence Advanced Research Projects Activity (IARPA), the Horizon 2020 Program of the European Union, and the major research and development program of China. By comparison, it can be observed that the United States mainly adopts the government-led, application-oriented research mode, while the European Union and China follow up in time during the 13th Five-Year Plan period. During the 14th Five-year Plan period, China has set up the national key research and development program of “Fusion of the Biological Technology and Information Technology (BT and IT Fusion)”, which is committed to promoting the development of DNA data storage and related fields, and realizing the development of DNA data storage to drive the development of biochemical instruments, and even biological economy and digital economy. This paper explores the “source” and “flow” of the development of DNA data storage, and provides a reference for researchers to identify the “real” problems that really limit the development of this field, and also provides a reference for science and technology management departments to identify the international development trend in DNA data storage.



Key wordsData storage      DNA data storage      Synthetic biology      Semiconductor synthetic biology     
Received: 01 December 2021      Published: 07 July 2022
ZTFLH:  Q811  
Corresponding Authors: Wei-gang CHEN     E-mail: chenwg@tju.edu.cn
Cite this article:

ZHANG Da-lu,GE Qi,FENG Yi-bo,CHEN Wei-gang. Comparison and Analysis on Scientific Research Programs on DNA Data Storage. China Biotechnology, 2022, 42(6): 116-129.

URL:

https://manu60.magtech.com.cn/biotech/10.13523/j.cb.2112003     OR     https://manu60.magtech.com.cn/biotech/Y2022/V42/I6/116

资助方向 项目名称 起止时间 承担单位 经费/美元
DNA数据存储 基于DNA的电可读取存储器 2018.07-2022.06 加州大学戴维斯分校 430 919
(包括内存) 华盛顿大学 292 875
埃默里大学 401 206
一种基于嵌合DNA的片上芯片纳米尺度存储系统 2018.10-2023.09 伊利诺伊大学厄本那香槟分校 2 000 000
基于纳米孔读取的高度可扩展的随机存取DNA数据存储 2018.08-2022.07 斯坦福大学 1 125 000
核酸存储器 2018.07-2023.06 博伊西州立大学 1 125 000
生物设计自动化 超大规模基因电路设计自动化 2018.10-2022.09 麻省理工学院 1 000 000
2018.10-2022.09 明尼苏达大学双城分校 1 000 000
2018.10-2022.09 东北大学 354 375
生物计算 用于分子通信和内存的基于氧化还原的生物电子学 2018.07-2022.06 马里兰大学帕克分校 1 125 000
YeastOns:建立在相互通信的酵母细胞中的神经网络 2018.08-2022.07 得克萨斯大学奥斯汀分校 337 683
2018.08-2021.07 华盛顿大学 337 550
2018.08-2022.07 约翰霍普金斯大学 449 818
用于集体计算的基于心肌细胞的耦合振荡网络 2018.07-2022.06 圣母大学 1 125 000
Table 1 The SemiSynBio-I projects (2018)
资助方向 项目名称 起止时间 承担单位 经费/美元
DNA数据存储 DNA 突变重写存储(DMOS) 2020.08-2023.07 北卡罗来纳州立农业与技术大学 1 500 000
面向DNA数据存储系统设计的写入、访问、读取和保护(WARP)驱动器 2020.08-2023.07 北卡罗来纳州立大学 150 000
用于大规模测试和远程部署的混合生物电子微流控存储器阵列 2020.10-2023.09 波士顿大学 1 497 580
基于DNA的高密度信息存储器和快速读出的分子密码技术 2020.10-2023.09 亚利桑那州立大学 1 516 000
生物与电子混合系统 混合可编程纳米生物电子系统 2020.08-2023.07 佐治亚理工学院 1 500 000
具有平面 DNA 纳米孔电极的可编程非生物-生物界面 2020.09-2023.08 麻省理工学院 1 500 000
混合生物膜半导体信息系统 2020.10-2023.09 布朗大学 1 500 000
迈向生物级低能耗的信息处理、存储、传感与生物接口 2020.12-2023.11 马萨诸塞大学 1 474 272
Table 2 The SemiSynBio-II projects (2019)
资助方向 项目名称 起止时间 承担单位 经费/美元
信息理论与编码 DNA存储系统的编码研究 2016.07-2022.06 伊利诺伊大学厄本那香槟分校 500 000
纳米孔测序的信息论研究方法 2017.06-2022.05 华盛顿大学 750 000
加州大学洛杉矶分校 450 000
DNA数据存储的性能极限 2020.07-2023.06 伊利诺伊大学厄本那香槟分校 484 140
面向同步错误的数据处理策略 2020.10-2023.09 密歇根大学安娜堡分校 489 159
分子存储中的编码字符串重建问题 2020.10-2023.09 伊利诺伊大学厄本那香槟分校 250 000
普渡大学 231 463
字符串(trace)重构问题 2021.06-2025.05 哥伦比亚大学 1 200 000
存储系统与方法 活体DNA存储信道的噪声特征分析与消除 2018.10-2022.09 加州理工学院 187 250
弗吉尼亚大学 312 749
闭环的硅-生物分子融合系统的合成与微流体的纳米孔接口 2018.10-2020.09 华盛顿大学 199 906
可扩展的DNA存档存储系统 2019.07-2020.06 Trove Labs 225 000
基于DNA的超大规模存储系统 2016.09-2020.08 北卡罗来纳州立大学 299 606
面向大容量实用DNA数据存储系统的热力学驱动设计方法 2019.10-2023.09 北卡罗来纳州立大学 1 216 000
新型合成方法 基于DNA的数据存储和计算材料 2020.05-2024.04 麻省理工学院 900 000
加密DNA的低成本、高通量、赛博物理融合的合成 2017.10-2022.09 加州大学河滨分校 1 039 063
直接自动从头合成长寡核苷酸 2020.09-2023.08 加州大学尔湾分校 284 936
Table 3 Research projects on the DNA data storage funded by NSF
技术领域 目标 阶段1(24个月)具体要求 阶段2(24个月)具体要求
存储 设计实际应用性能的存储设备 去风险可伸缩的综合方法;开发设备;提供功能和性能的初步演示 进一步开发和改进以优化容量、写吞吐量和资源需求;交付满足实际效用指标的设备
检索 设计具有实用性能的检索装置 去风险可伸缩的排序方法;开发设备;提供功能和性能的初步演示 进一步开发和改进以优化读吞吐量和资源需求;交付满足实际效用指标的设备
信息操作系统 支持随机访问大规模文件的操作系统 开发计算工具和方法;提供基于模拟的功能和性能的初步演示 进一步开发和改进以优化索引、寻址和随机访问;交付满足实际效用指标的设备
Table 4 Technical areas in the “MIST” project
项目名称 起止时间 承担单位 经费/欧元
用于安全和DNA存储的编码(inCREASE) 2019.03-2024.02 慕尼黑工业大学(德国) 1 471 750
寡核苷酸档案-用于归档的智能DNA存储(OLIGOARCHIVE) 2019.10-2023.03 帝国理工大学(英国) 99 071 453
巴黎高等电信学院(法国) 52 571 125
HELIXWORKS公司(爱尔兰) 496 945
国家科学研究中心(法国) 981 600
DNA数据存储(DNA DS) 2019.12-2020.05 生物系统研究开发局(斯洛文尼亚) 71 429
面向可持续数字未来的DNA数据存储技术(DATANA) 2021.05-2023.04 生物系统研究开发局(斯洛文尼亚) 2 667 250
多路光编码和读出的DNA快速光驱动数据技术(DNA-FAIRYLIGHTS) 2021.09-2024.08 意大利研究院(意大利) 62 313 125
剑桥大学(英国) 495 405
生物材料合作研究协会中心(西班牙) 353 750
斯图加特大学(德国) 325 000
苏黎世联邦理工学院(瑞士) 315 000
慕尼黑工业大学(德国) 309 250
AB ANALITICA SRL(意大利) 185 625
DNA合成技术研发商(法国) 253 125
ELEMENTS SRL(意大利) 256 250
Table 5 Projects on DNA data storage funded by EU
项目来源(重点专项) 项目名称 执行周期 年度
合成生物学 使用合成DNA进行数据存储的技术研发 5年 2018年
合成生物学 DNA活字喷墨与阵列存储技术研究及示范系统 5年 2020年
合成生物学(青年项目) 多方协同合成基因信息安全存取方法研究 5年 2020年
变革性技术关键科学问题 DNA存储中的组合方法 5年 2020年
Table 6 Projects related to DNA data storage in the China National Key R&D Program during the 13th Five-Year Plan
任务名称 任务指南 执行周期 年度
基于DNA原理的信息存储系统开发 DNA分子信息存储的高加密性编码与信息安全体系研究 3年 2021年
基于多类型生物分子的新一代超高密度信息存储技术研发 3年 2021年
基于大规模可寻址可控催化原理的DNA合成新技术研发 3年 2021年
基于晶体管场效应的单分子测序关键技术研发 3年 2021年
面向生命-非生命融合的智能生物系统构建与开发 - 3年 2021年
BT与IT融合技术的健康医学场景应用示范 - 3年 2021年
Table 7 Projects of “Biotechnology and Information Technology Fusion (BT &IT Fusion)” in 2021
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