24 papers · ranked by Valyu relevance
Shengwang Du, Junyi Li, Naizheng Bian, Ruslan Kalendar
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…
Milton Silva, Diogo Pratas, Armando J Pinho
Genomes are found in the most diverse places, e.g., in extreme environments such as uranium mines , in soft and hard tissues , ancient cadavers , marine environments , or deep subterranean habitats . The environment and species interactions are a key for genome adaptation, providing a wide diversity in characteristics…
Pamela Vinitha Eric, Gopakumar Gopalakrishnan, Muralikrishnan Karunakaran
'Muralikrishnan Karunakaran'] This paper proposes a seed based lossless compression algorithm to compress a DNA sequence which uses a substitution method that is similar to the LempelZiv compression scheme. The proposed method exploits the repetition structures that are inherent in DNA sequences by creating an offline…
J.M. Lázaro-Guevara, K.M. Garrido
Undeveloped countries like Guatemala, where access to high-speed internet connections is limited, downloading and sharing Biological information of thousands of Mega Bits is a huge problem for the beginning and development of Bioinformatics. Based on that information is an urgent necessity to find a better way to share…
S. M. Hossein Tabatabaei Yazdi, Ryan Gabrys, Olgica Milenkovic
DNA-based data storage is an emerging nonvolatile memory technology of potentially unprecedented density, durability, and replication efficiency. The basic system implementation steps include synthesizing DNA strings that contain user information and subsequently retrieving them via high-throughput sequencing…
Fajia Sun, Long Qian
DNA has been pursued as a compelling medium for digital data storage during the past decade. While large-scale data storage and random access have been achieved in artificial DNA, the synthesis cost keeps hindering DNA data storage from popularizing into daily life. In this study, we proposed a more efficient paradigm…
Shakeela Bibi, Javed Iqbal, Adnan Iftekhar, Mir Hassan
Biological data mainly comprises of Deoxyribonucleic acid (DNA) and protein sequences. These are the biomolecules which are present in all cells of human beings. Due to the self-replicating property of DNA, it is a key constitute of genetic material that exist in all breathing creatures. This biomolecule (DNA)…
Anas Al-okaily, Abdelghani Tbakhi
Data compression is a challenging and increasingly important problem. As the amount of data generated daily continues to increase, efficient transmission and storage has never been more critical. In this study, a novel encoding algorithm is proposed, motivated by the compression of DNA data and associated…
Cihan Ruan, Lebin Zhou, Bingqing Zhao, Rongduo Han + 7 more
DNA-based storage has emerged as a promising approach to the global data crisis, offering molecular-scale density and millennial-scale stability at low maintenance cost. Over the past decade, substantial progress has been made in storing text, images, and files in DNA -- yet video remains an open challenge. The…
Zhanbei Cui, Liao Yu, Tongda Xu, Yan Wang
With the development of gene sequencing technology, an explosive growth of gene data has been witnessed. Thus, the storage of gene data has become an important issue. Recently, researchers begin to investigate deep learning-based gene data compression, which outperforms traditional methods based on general software…
Armando J. Pinho, Paulo J. S. G. Ferreira, António J. R. Neves, Carlos A. C. Bastos + 1 more
'Carlos A. C. Bastos' 'Christos A. Ouzounis'] A finite-context (Markov) model of order yields the probability distribution of the next symbol in a sequence of symbols, given the recent past up to depth . Markov modeling has long been applied to DNA sequences, for example to find gene-coding regions. With the first…
Yaniv Erlich, Dina Zielinski
Humanity produces data at exponential rates, creating a growing demand for better storage devices. DNA molecules are an attractive medium to store digital information due to their durability and high information density. Recent studies have made large strides in developing DNA storage schemes by exploiting the advent…
Melpomeni Dimopoulou, Eva Gil San Antonio, Marc Antonini
—The efficient storage of digital data is becoming very challenging over the years due to the exponential increase in the generation of data which can't compete with the existing storage resources. Furthermore, the infrequently accessed data can be safely stored for no longer than 10-20 years due to the short life-span…
Azat Akhmetov, Andrew D. Ellington, Edward M. Marcotte
Encoding arbitrary digital information in DNA has attracted attention as a potential avenue for large scale and long term data storage. However, in order to enable DNA data storage technologies there needs to be improvements in data storage fidelity (tolerance to mutation), the facility of writing and reading the data…
Xavier Pic, Melpomeni Dimopoulou, Eva Gil San Antonio, Marc Antonini
Over the past years, the ever-growing trend on data storage demand, more specifically for "cold" data (i.e. rarely accessed), has motivated research for alternative systems of data storage. Because of its biochemical characteristics, synthetic DNA molecules are now considered as serious candidates for this new kind of…
Ehigbai Oikeh, Jesse Ziebarth, Daniel Kirchhoff, Yongmei Wang + 1 more
In nature, DNA exists primarily in a highly compacted form. The compaction of DNA in vivo is mediated by cationic proteins; histone in somatic nuclei and protamines in sperm chromatin. The extreme, near-crystalline packaging of DNA by protamines in spermatozoa is thought essential for both efficient genetic delivery as…
Inbal Preuss, Michael Rosenberg, Zohar Yakhini, Leon Anavy
With the world generating digital data at an exponential rate, DNA has emerged as a promising archival medium. It offers a more efficient and long-lasting digital storage solution due to its durability, physical density, and high information capacity. Research in the field includes the development of encoding schemes…
Cindy Ng, Anirban Samanta, Ole Aalund Mandrup, Emily Tsang + 3 more
The folding of double-stranded DNA around histones is a central mechanism in eukaryotic cells for compacting the genetic information into chromosomes. Very few artificial methods are available for controlling the shape of dsDNA at any level, whereas several artificial methods have been developed to efficiently organize…
G. Nallappa Bhavithran, R. Selvakumar
The biggest challenge when using DNA as a storage medium is maintaining its stability. The relative occurrence of Guanine (G) and Cytosine (C) is essential for the longevity of DNA. In addition to that, reverse complementary base pairs should not be present in the code. These challenges are overcome by a proper choice…
Pavani Yashodha De Silva, Gamage Upeksha Ganegoda
With the exponential growth in the capacity of information generated and the emerging need for data to be stored for prolonged period of time, there emerges a need for a storage medium with high capacity, high storage density, and possibility to withstand extreme environmental conditions. DNA emerges as the prospective…
Authors not listed
By offering exquisite programmability, sequence-specific DNA self-assembly is the fundament of structural DNA nanotechnology but necessitates custom-designed DNA strands. Finding assembly principles orthogonal to base pairing is thus desirable not only to organize DNA in a sequence-independent manner but also to bring…
Yotam Nahum, Eyar Ben-Tolila, Leon Anavy
As the global need for large-scale data storage is rising exponentially, existing storage technologies are approaching their theoretical and functional limits in terms of density and energy consumption, making DNA based storage a potential solution for the future of data storage. Several studies introduced DNA based…
HANIYEH ABDOLLAHZADEH, Tonya Peeples, Mohammad Shahcheraghi
DNA-based nanomaterials have shown great potential in numerous applications, thanks to their unique properties including DNA's various molecular interactions, programmability, and versatility with biological modules. Meanwhile, the DNA origami platforms have shown promise in the creation of drug carriers. This…
Authors not listed
We developed a method to evaluate the degree of influence of attraction and electrostatic repulsion forces in DNA during its chemical denaturation. Our approach shows that when a solution can split apart a target molecule, the forces inside the molecule can be deduced by analyzing the properties of the surrounding…