A Programmable DNA Double-Write Material: Synergy of Photolithography and Self-Assembly Nanofabrication

Song, Youngjun; Takahashi, T.; Kim, Sejung; Heaney, Yvonne; Warner, John J.; Chen, Shaochen; Heller, Michael

doi:10.1021/acsami.6b11361

Cited by 16 publications

(10 citation statements)

References 28 publications

(43 reference statements)

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“…Latencies of hard-drives and low read-write cycle times will be difficult to achieve. However, advances in DNA-based non-volatile memory combined with logical operations 22 and innovative synthesis methods using e.g., UV patterning and DNA self-assembly 23 help to alleviate this gap. It can be anticipated that improving the number of oligos synthesized in parallel and further optimizations reagent usage will get synthesis costs down to the 1 US$ MB −1 region rapidly.…”

Section: Discussionmentioning

confidence: 99%

Low cost DNA data storage using photolithographic synthesis and advanced information reconstruction and error correction

et al. 2020

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Due to its longevity and enormous information density, DNA is an attractive medium for archival storage. The current hamstring of DNA data storage systems—both in cost and speed—is synthesis. The key idea for breaking this bottleneck pursued in this work is to move beyond the low-error and expensive synthesis employed almost exclusively in today’s systems, towards cheaper, potentially faster, but high-error synthesis technologies. Here, we demonstrate a DNA storage system that relies on massively parallel light-directed synthesis, which is considerably cheaper than conventional solid-phase synthesis. However, this technology has a high sequence error rate when optimized for speed. We demonstrate that even in this high-error regime, reliable storage of information is possible, by developing a pipeline of algorithms for encoding and reconstruction of the information. In our experiments, we store a file containing sheet music of Mozart, and show perfect data recovery from low synthesis fidelity DNA.

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Section: Discussionmentioning

confidence: 99%

Low cost DNA data storage using photolithographic synthesis and advanced information reconstruction and error correction

et al. 2020

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“…The second write step is performed by hybridizing a different complementary DNA sequence, which does not include adenine, on the exposed areas. Redrawn by the authors from ref ( 99 ).…”

Section: Applications Of Large-scale Lithographic Technologiesmentioning

confidence: 99%

Lithographic Processes for the Scalable Fabrication of Micro- and Nanostructures for Biochips and Biosensors

2021

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Since the early 2000s, extensive research has been performed to address numerous challenges in biochip and biosensor fabrication in order to use them for various biomedical applications. These biochips and biosensor devices either integrate biological elements (e.g., DNA, proteins or cells) in the fabrication processes or experience post fabrication of biofunctionalization for different downstream applications, including sensing, diagnostics, drug screening, and therapy. Scalable lithographic techniques that are well established in the semiconductor industry are now being harnessed for large-scale production of such devices, with additional development to meet the demand of precise deposition of various biological elements on device substrates with retained biological activities and precisely specified topography. In this review, the lithographic methods that are capable of large-scale and mass fabrication of biochips and biosensors will be discussed. In particular, those allowing patterning of large areas from 10 cm 2 to m 2 , maintaining cost effectiveness, high throughput (>100 cm 2 h –1 ), high resolution (from micrometer down to nanometer scale), accuracy, and reproducibility. This review will compare various fabrication technologies and comment on their resolution limit and throughput, and how they can be related to the device performance, including sensitivity, detection limit, reproducibility, and robustness.

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“…These include reduced signal intensity due to the decreased number of encoding molecules per data bit, and the requirement for normalizing the amount of different encoding molecules. Another approach is to use different sequence segments on a single DNA molecule to encode the different bits 29 . This approach is advantageous over the first approach since it offers simplicity in operations and a higher signal per bit.…”

Section: Resultsmentioning

confidence: 99%

DNA multi-bit non-volatile memory and bit-shifting operations using addressable electrode arrays and electric field-induced hybridization

et al. 2018

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DNA has been employed to either store digital information or to perform parallel molecular computing. Relatively unexplored is the ability to combine DNA-based memory and logical operations in a single platform. Here, we show a DNA tri-level cell non-volatile memory system capable of parallel random-access writing of memory and bit shifting operations. A microchip with an array of individually addressable electrodes was employed to enable random access of the memory cells using electric fields. Three segments on a DNA template molecule were used to encode three data bits. Rapid writing of data bits was enabled by electric field-induced hybridization of fluorescently labeled complementary probes and the data bits were read by fluorescence imaging. We demonstrated the rapid parallel writing and reading of 8 (23) combinations of 3-bit memory data and bit shifting operations by electric field-induced strand displacement. Our system may find potential applications in DNA-based memory and computations.

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A Programmable DNA Double-Write Material: Synergy of Photolithography and Self-Assembly Nanofabrication

Cited by 16 publications

References 28 publications

Low cost DNA data storage using photolithographic synthesis and advanced information reconstruction and error correction

Low cost DNA data storage using photolithographic synthesis and advanced information reconstruction and error correction

Lithographic Processes for the Scalable Fabrication of Micro- and Nanostructures for Biochips and Biosensors

DNA multi-bit non-volatile memory and bit-shifting operations using addressable electrode arrays and electric field-induced hybridization

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