Evidence map›Paper›PMID 37961855›Full record

ArticleACS synthetic biology2023

Highly Accurate Sequence- and Position-Independent Error Profiling of DNA Synthesis and Sequencing.

Huiran Yeom, Namphil Kim, Amos Chungwon Lee, Jinhyun Kim, Hamin Kim, Hansol Choi, Seo Woo Song, Sunghoon Kwon, Yeongjae Choi

Abstract read
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In one paragraph

Article in ACS synthetic biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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0citing papers in PubMed
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1 · What the graph read from it

What it found

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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

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3 · Its place in the literature

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4 · The record

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5 · Who and what money

Authors and funding

9 authors.

Huiran YeomDivision of Data Science, College of Information and Communication Technology, The University of Suwon, Hwaseong 18323, Republic of Korea.
Namphil KimDepartment of Electrical and Computer Engineering, Seoul National University, Seoul 08826, South Korea.
Amos Chungwon LeeMeteor Biotech, Co. Ltd., Seoul 08813, Republic of Korea.ORCID 0000-0002-0350-7080
Jinhyun KimDepartment of Electrical and Computer Engineering, Seoul National University, Seoul 08826, South Korea.
Hamin KimDepartment of Interdisciplinary Program for Bioengineering, Seoul National University, Seoul 08826, South Korea.
Hansol ChoiBio-MAX Institute, Seoul National University, Seoul 08826, Republic of Korea.
Seo Woo SongBasic Science and Engineering Initiative, Children's Heart Center, Stanford University, Stanford, California 94304, United States.
Sunghoon KwonDepartment of Electrical and Computer Engineering, Seoul National University, Seoul 08826, South Korea.ORCID 0000-0003-3514-1738
Yeongjae ChoiSchool of Materials Science and Engineering, Gwangju Institute of Science and Technology (GIST), Gwangju 61105, Republic of Korea.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

A comprehensive error analysis of DNA-stored data during processing, such as DNA synthesis and sequencing, is crucial for reliable DNA data storage. Both synthesis and sequencing errors depend on the sequence and the transition of bases of nucleotides; ignoring either one of the error sources leads to technical challenges in minimizing the error rate. Here, we present a methodology and toolkit that utilizes an oligonucleotide library generated from a 10-base-shifted sequence array, which is individually labeled with unique molecular identifiers, to delineate and profile DNA synthesis and sequencing errors simultaneously. This methodology enables position- and sequence-independent error profiling of both DNA synthesis and sequencing. Using this toolkit, we report base transitional errors in both synthesis and sequencing in general DNA data storage as well as degenerate-base-augmented DNA data storage. The methodology and data presented will contribute to the development of DNA sequence designs with minimal error.

Indexed as

DNAHigh-Throughput Nucleotide SequencingDNA ReplicationNucleotidesSequence Analysis, DNADNANucleotidesDNA data storagenext-generation sequencingoligonucleotide synthesissynthesis/sequencing error

Identifiers

PMID37961855
PMCPMC10729760

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.