Cargando…

Study of the error correction capability of multiple sequence alignment algorithm (MAFFT) in DNA storage

Synchronization (insertions–deletions) errors are still a major challenge for reliable information retrieval in DNA storage. Unlike traditional error correction codes (ECC) that add redundancy in the stored information, multiple sequence alignment (MSA) solves this problem by searching the conserved...

Descripción completa

Detalles Bibliográficos
Autores principales:	Xie, Ranze, Zan, Xiangzhen, Chu, Ling, Su, Yanqing, Xu, Peng, Liu, Wenbin
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2023
Materias:	Research
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10037887/ https://www.ncbi.nlm.nih.gov/pubmed/36959531 http://dx.doi.org/10.1186/s12859-023-05237-9

Ejemplares similares

An image cryptography method by highly error-prone DNA storage channel
por: Zan, Xiangzhen, et al.
Publicado: (2023)

Parallelization of the MAFFT multiple sequence alignment program
por: Katoh, Kazutaka, et al.
Publicado: (2010)

Parallelization of MAFFT for large-scale multiple sequence alignments
por: Nakamura, Tsukasa, et al.
Publicado: (2018)

MAFFT version 5: improvement in accuracy of multiple sequence alignment
por: Katoh, Kazutaka, et al.
Publicado: (2005)

A simple method to control over-alignment in the MAFFT multiple sequence alignment program
por: Katoh, Kazutaka, et al.
Publicado: (2016)

MAFFT-DASH: integrated protein sequence and structural alignment
por: Rozewicki, John, et al.
Publicado: (2019)

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
por: Katoh, Kazutaka, et al.
Publicado: (2013)

MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization
por: Katoh, Kazutaka, et al.
Publicado: (2017)

Adding unaligned sequences into an existing alignment using MAFFT and LAST
por: Katoh, Kazutaka, et al.
Publicado: (2012)

Improved accuracy of multiple ncRNA alignment by incorporating structural information into a MAFFT-based framework
por: Katoh, Kazutaka, et al.
Publicado: (2008)

Application of the MAFFT sequence alignment program to large data—reexamination of the usefulness of chained guide trees
por: Yamada, Kazunori D., et al.
Publicado: (2016)

aLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity
por: Kuraku, Shigehiro, et al.
Publicado: (2013)

Determination of optimal parameters of MAFFT program based on BAliBASE3.0 database
por: Long, HaiXia, et al.
Publicado: (2016)

Concatenator, a user-friendly program to concatenate DNA sequences, implementing graphical user interfaces for MAFFT and FastTree
por: Vences, Miguel, et al.
Publicado: (2022)

An efficient algorithm to identify the optimal one-bit perturbation based on the basin-of-state size of Boolean networks
por: Hu, Mingxiao, et al.
Publicado: (2016)

Correction to: DeSP: a systematic DNA storage error simulation pipeline
por: Yuan, Lekang, et al.
Publicado: (2022)

Using multiple alignments to improve seeded local alignment algorithms
por: Flannick, Jason, et al.
Publicado: (2005)

SparkEC: speeding up alignment-based DNA error correction tools
por: Expósito, Roberto R., et al.
Publicado: (2022)

Author Correction: Portable and Error-Free DNA-Based Data Storage
por: Yazdi, S. M. Hossein Tabatabaei, et al.
Publicado: (2020)

HEDGES error-correcting code for DNA storage corrects indels and allows sequence constraints
por: Press, William H., et al.
Publicado: (2020)

CSA: An efficient algorithm to improve circular DNA multiple alignment
por: Fernandes, Francisco, et al.
Publicado: (2009)

Recent Evolutions of Multiple Sequence Alignment Algorithms
por: Notredame, Cédric
Publicado: (2007)

Instability in progressive multiple sequence alignment algorithms
por: Boyce, Kieran, et al.
Publicado: (2015)

Improving accuracy of multiple sequence alignment algorithms based on alignment of neighboring residues
por: Lu, Yue, et al.
Publicado: (2009)

Algorithmic Error Correction of Impedance Measuring Sensors
por: Starostenko, Oleg, et al.
Publicado: (2009)

Error correction Coding: mathematical methods and algorithms
por: Moon, Todd K
Publicado: (2005)

Algorithm for correcting optimization convergence errors in Eclipse
por: Zacarias, Albert S., et al.
Publicado: (2009)

Improved CLIC performances using the beam response for correcting alignment errors
por: Fischer, C
Publicado: (1996)

DNA-Aeon provides flexible arithmetic coding for constraint adherence and error correction in DNA storage
por: Welzel, Marius, et al.
Publicado: (2023)

Correction: QuickProbs—A Fast Multiple Sequence Alignment Algorithm Designed for Graphics Processors
Publicado: (2014)

Performance capabilities of proton storage rings
por: Keil, Eberhard, et al.
Publicado: (1967)

Kalign – an accurate and fast multiple sequence alignment algorithm
por: Lassmann, Timo, et al.
Publicado: (2005)

Vertical decomposition with Genetic Algorithm for Multiple Sequence Alignment
por: Naznin, Farhana, et al.
Publicado: (2011)

Performance difference of graph-based and alignment-based hybrid error correction methods for error-prone long reads
por: Wang, Anqi, et al.
Publicado: (2020)

An enhanced algorithm for multiple sequence alignment of protein sequences using genetic algorithm
por: Kumar, Manish
Publicado: (2015)

DeSP: a systematic DNA storage error simulation pipeline
por: Yuan, Lekang, et al.
Publicado: (2022)

Alignement algorithms
por: Blobel, Volker
Publicado: (2007)

EC: an efficient error correction algorithm for short reads
por: Saha, Subrata, et al.
Publicado: (2015)

An efficient error correction algorithm using FM-index
por: Huang, Yao-Ting, et al.
Publicado: (2017)

Formatt: Correcting protein multiple structural alignments by incorporating sequence alignment
por: Daniels, Noah M, et al.
Publicado: (2012)

Cannot write session to /tmp/vufind_sessions/sess_uhl2br07p35jfku8jkjle889mc