scholarly journals DNA stability: a central design consideration for DNA data storage systems

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Karishma Matange ◽  
James M. Tuck ◽  
Albert J. Keung

AbstractData storage in DNA is a rapidly evolving technology that could be a transformative solution for the rising energy, materials, and space needs of modern information storage. Given that the information medium is DNA itself, its stability under different storage and processing conditions will fundamentally impact and constrain design considerations and data system capabilities. Here we analyze the storage conditions, molecular mechanisms, and stabilization strategies influencing DNA stability and pose specific design configurations and scenarios for future systems that best leverage the considerable advantages of DNA storage.

2013 ◽  
Vol 2013 ◽  
pp. 1-8 ◽  
Author(s):  
Francesca Maria Carozzi ◽  
Cristina Sani

Early detection of CRC and adenomas reduces CRC-related mortality. The optimal screening test for CRC is still a subject of debate, and molecular stool sample analysis could provide a valid alternative to conventional methods in terms of compliance and practicability. Seven fecal DNA storage systems were evaluated in two successive phases. In the first phase of the study was selected the preservative buffer able to ensure the best human DNA recovery. In the second phase was evaluated human DNA stability, amplificability and integrity in DNA extracted from selected buffer. Results showed that the best performance was obtained in samples stored in 100 mM EDTA buffer and Genefec buffer. Likewise buffer addition yielded a significant increase in DNA stability and integrity without PCR inhibition, compared to the matched aliquots with no buffer added. Our study shows that samples collected in stabilization solution stabilize DNA so that intact nucleic acids, are more effectively detectable in the molecular assay. DNA buffer preservation and storage conditions could be useful to guarantee the most consistent yield in human DNA. Stabilization buffer addition to stool samples prior to transport presents an easily implemented solution that appears to be highly effective. Overall DNA extracted from faeces preserved in preservative buffer can feasibility been used for molecular analysis leading to an increase of assay sensitivity.


2019 ◽  
Author(s):  
Kyle J. Tomek ◽  
Kevin Volkel ◽  
Alexander Simpson ◽  
Austin G. Hass ◽  
Elaine W. Indermaur ◽  
...  

ABSTRACTThe extreme density of DNA presents a compelling advantage over current storage media; however, in order to reach practical capacities, new approaches for organizing and accessing information are needed. Here we use chemical handles to selectively extract unique files from a complex database of DNA mimicking 5 TB of data and design and implement a nested file address system that increases the theoretical maximum capacity of DNA storage systems by five orders of magnitude. These advancements enable the development and future scaling of DNA-based data storage systems with reasonable modern capacities and file access capabilities.


PLoS ONE ◽  
2021 ◽  
Vol 16 (7) ◽  
pp. e0255376
Author(s):  
Li Xiaoru ◽  
Guo Ling

The development of information technology has produced massive amounts of data, which has brought severe challenges to information storage. Traditional electronic storage media cannot keep up with the ever-increasing demand for data storage, but in its place DNA has emerged as a feasible storage medium with high density, large storage capacity and strong durability. In DNA data storage, many different approaches can be used to encode data into codewords. DNA coding is a key step in DNA storage and can directly affect storage performance and data integrity. However, since errors are prone to occur in DNA synthesis and sequencing, and non-specific hybridization is prone to occur in the solution, how to effectively encode DNA has become an urgent problem to be solved. In this article, we propose a DNA storage coding method based on the equilibrium optimization random search (EORS) algorithm, which meets the Hamming distance, GC content and no-runlength constraints and can reduce the error rate in storage. Simulation experiments have shown that the size of the DNA storage code set constructed by the EORS algorithm that meets the combination constraints has increased by an average of 11% compared with previous work. The increase in the code set means that shorter DNA chains can be used to store more data.


2019 ◽  
Vol 15 (01) ◽  
pp. 1-8
Author(s):  
Ashish C Patel ◽  
C G Joshi

Current data storage technologies cannot keep pace longer with exponentially growing amounts of data through the extensive use of social networking photos and media, etc. The "digital world” with 4.4 zettabytes in 2013 has predicted it to reach 44 zettabytes by 2020. From the past 30 years, scientists and researchers have been trying to develop a robust way of storing data on a medium which is dense and ever-lasting and found DNA as the most promising storage medium. Unlike existing storage devices, DNA requires no maintenance, except the need to store at a cool and dark place. DNA has a small size with high density; just 1 gram of dry DNA can store about 455 exabytes of data. DNA stores the informations using four bases, viz., A, T, G, and C, while CDs, hard disks and other devices stores the information using 0’s and 1’s on the spiral tracks. In the DNA based storage, after binarization of digital file into the binary codes, encoding and decoding are important steps in DNA based storage system. Once the digital file is encoded, the next step is to synthesize arbitrary single-strand DNA sequences and that can be stored in the deep freeze until use.When there is a need for information to be recovered, it can be done using DNA sequencing. New generation sequencing (NGS) capable of producing sequences with very high throughput at a much lower cost about less than 0.1 USD for one MB of data than the first sequencing technologies. Post-sequencing processing includes alignment of all reads using multiple sequence alignment (MSA) algorithms to obtain different consensus sequences. The consensus sequence is decoded as the reversal of the encoding process. Most prior DNA data storage efforts sequenced and decoded the entire amount of stored digital information with no random access, but nowadays it has become possible to extract selective files (e.g., retrieving only required image from a collection) from a DNA pool using PCR-based random access. Various scientists successfully stored up to 110 zettabytes data in one gram of DNA. In the future, with an efficient encoding, error corrections, cheaper DNA synthesis,and sequencing, DNA based storage will become a practical solution for storage of exponentially growing digital data.


Author(s):  
Hong Guo

Many new media technologies have emerged in modern society. The application of new media technologies has impacted traditional TV news media, which not only faces great challenges, but also brings some lessons for the development of TV news media. New media technology relies on powerful information processing technology and data storage technology to develop and grow continuously. Compared with traditional news, new media technology has more powerful information storage capacity and dissemination capacity. Firstly, this paper briefly introduces the concept of new media technology, summarizes the typical characteristics of new media technology, and analyzes the existing problems in the application of new media technology in the news communication industry based on the necessity of applying new media technology. Finally, some Suggestions are put forward based on this, hoping to provide some reference for the development of news communication industry.


2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Kyle J. Tomek ◽  
Kevin Volkel ◽  
Elaine W. Indermaur ◽  
James M. Tuck ◽  
Albert J. Keung

AbstractDNA holds significant promise as a data storage medium due to its density, longevity, and resource and energy conservation. These advantages arise from the inherent biomolecular structure of DNA which differentiates it from conventional storage media. The unique molecular architecture of DNA storage also prompts important discussions on how data should be organized, accessed, and manipulated and what practical functionalities may be possible. Here we leverage thermodynamic tuning of biomolecular interactions to implement useful data access and organizational features. Specific sets of environmental conditions including distinct DNA concentrations and temperatures were screened for their ability to switchably access either all DNA strands encoding full image files from a GB-sized background database or subsets of those strands encoding low resolution, File Preview, versions. We demonstrate File Preview with four JPEG images and provide an argument for the substantial and practical economic benefit of this generalizable strategy to organize data.


2021 ◽  
Vol 13 (3) ◽  
pp. 1036
Author(s):  
Siri Willskytt

Consumable products have received less attention in the circular economy (CE), particularly in regard to the design of resource-efficient products. This literature review investigates the extent to which existing design guidelines for resource-efficient products are applicable to consumables. This analysis is divided into two parts. The first investigates the extent to which general product-design guidelines (i.e., applicable to both durables and consumables) are applicable to consumables. This analysis also scrutinizes the type of recommendations presented by the ecodesign and circular product design, to investigate the novel aspects of the CE in product design. The second analysis examines the type of design considerations the literature on product-type specific design guidelines recommends for specific consumables and whether such guidelines are transferable. The analysis of general guidelines showed that, although guidelines are intended to be general and applicable to many types of products, their applicability to consumable products is limited. Less than half of their recommendations can be applied to consumables. The analysis also identified several design considerations that are transferable between product-specific design guidelines. This paper shows the importance of the life-cycle perspective in product design, to maximize the opportunities to improve consumables.


2003 ◽  
Vol 788 ◽  
Author(s):  
Andrei A. Eliseev ◽  
Kirill S. Napolskii ◽  
Dmitry F. Gorozhankin ◽  
Alexei V. Lukashin ◽  
Yuri D. Tretyakov ◽  
...  

ABSTRACTHere we report the synthesis and investigation of iron and iron oxide nanowire arrays using mesoporous silica as a host material. In the present work a novel variant of synthesis of ordered magnetic nanowires in the mesoporous silica matrix was suggested. The method is based on the incorporation of a hydrophobic metal compound into the hydrophobic part of silica-surfactant composite. The amount of iron intercalated into the mesoporous matrix was measured by chemical analysis. In all samples it corresponds well to with the molar ratio SiO2: Fe = 9:1. To provide crystallinity of nanowires additional thermal treatment was performed. Thus prepared nanocomposites were characterized by TEM, ED, SAXS, SANS, BET and magnetic measurements. The anisotropy parameters of nanowires were determined using two non-correlated methods: temperature dependence of magnetic susceptibility and small angle polarized neutron scattering. It was found that the particle length increases with the increasing of the decomposition temperature of the metal complex. Obviously it deals with crystallization and growth of metal particles inside the pores at a constant diameter of a single particle. For iron containing sample annealed at 375 °C (form factor of nanowire is about 40), the coercive force at room temperature was found to be 145 Oe at saturation magnetization of 1.2 emu/g, which is not far from modern information storage. It was shown that particles shape and size are in good agreement with that of the pores. Particles are uniform and well ordered in the silica matrix. Thus, the suggested method leads to one-dimensional anisotropic nanostructures which could find an application as high-density data storage magnetic media.


2014 ◽  
Vol 513-517 ◽  
pp. 2107-2110 ◽  
Author(s):  
Zhi Jian Diao ◽  
Song Guo

Cloud computing is a novel network-based computing model, in which the cloud infrastructure is constructed in bottom level and provided as the support environment for the applications in upper cloud level. The combination of clouding computing and GIS can improve the performance of GIS, and it can also provide a new prospect of GIS information storage, processing and utilization. By integrating cloud computing and GIS, this paper presented a cloud computing based GIS model based on two features of cloud computing: data storage and transparent custom service. The model contains two layers: service layer and application layer. With this two-layer model, GIS can provide stable and efficient services to end users by optimized network resource allocation of underlying data and services in cloud computing.


Author(s):  
Reymon M Santiañez ◽  
Benedict M Sollano

The goal of this study was to create the Local Area Network Based Archiving System, a cross-platform development system for electronic information storage, security, preservation, and retention. The system incorporates capabilities such as data storage for long-term preservation and retrieval, file searching and retrieval, security features such as user account information system and account access privilege levels, and an email-like messaging system. The researchers developed the Local Area Network Based Archiving System using the Agile Software Development Methodology to keep up with the stakeholders' ever-changing needs. After each iteration of the work cycle, this methodology employs a process of frequent feedback. Features are added or refined in each iteration to ensure that the study meets its goals and expectations. The developed system received an overall average weighted mean of 4.53 in the evaluation summary, which is considered excellent. The strongest point of the system, according to the respondents' responses, was its content, which received the highest average mean among the five major categories in the system evaluation. The system's mobile responsiveness was a huge plus, as it considerably aided accessibility. The system should also be deployed, according to the respondents, because it will provide a powerful answer to the ongoing challenges with storing, managing, securing, and retrieving electronic files. As a result, the researchers concluded that a Local Area Network Based Archiving System is required for the efficient operation of an electronic  file storage system. Having centralized electronic file storage and retrieval system not only saves time and money in the long run but also allows for disaster recovery and business continuity.


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