Cargando…

Repeat-aware modeling and correction of short read errors

BACKGROUND: High-throughput short read sequencing is revolutionizing genomics and systems biology research by enabling cost-effective deep coverage sequencing of genomes and transcriptomes. Error detection and correction are crucial to many short read sequencing applications including de novo genome...

Descripción completa

Detalles Bibliográficos
Autores principales:	Yang, Xiao, Aluru, Srinivas, Dorman, Karin S
Formato:	Texto
Lenguaje:	English
Publicado:	BioMed Central 2011
Materias:	Research
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3044310/ https://www.ncbi.nlm.nih.gov/pubmed/21342585 http://dx.doi.org/10.1186/1471-2105-12-S1-S52

Ejemplares similares

A comprehensive evaluation of long read error correction methods
por: Zhang, Haowen, et al.
Publicado: (2020)

In search of perfect reads
por: Pal, Soumitra, et al.
Publicado: (2015)

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

Evaluation of haplotype-aware long-read error correction with hifieval
por: Guo, Yujie, et al.
Publicado: (2023)

Evaluation of haplotype-aware long-read error correction with hifieval
por: Guo, Yujie, et al.
Publicado: (2023)

Probably Correct: Rescuing Repeats with Short and Long Reads
por: Cechova, Monika
Publicado: (2020)

Instance-based error correction for short reads of disease-associated genes
por: Zhang, Xuan, et al.
Publicado: (2021)

Estimation of sequencing error rates in short reads
por: Victoria, Xin, et al.
Publicado: (2012)

Hybrid-hybrid correction of errors in long reads with HERO
por: Kang, Xiongbin, et al.
Publicado: (2023)

Parallel short sequence assembly of transcriptomes
por: Jackson, Benjamin G, et al.
Publicado: (2009)

Fast and SNP-aware short read alignment with SALT
por: Quan, Wei, et al.
Publicado: (2021)

StrainXpress: strain aware metagenome assembly from short reads
por: Kang, Xiongbin, et al.
Publicado: (2022)

Lerna: transformer architectures for configuring error correction tools for short- and long-read genome sequencing
por: Sharma, Atul, et al.
Publicado: (2022)

Short-read reading-frame predictors are not created equal: sequence error causes loss of signal
por: Trimble, William L, et al.
Publicado: (2012)

A comparative evaluation of hybrid error correction methods for error-prone long reads
por: Fu, Shuhua, et al.
Publicado: (2019)

A hybrid and scalable error correction algorithm for indel and substitution errors of long reads
por: Das, Arghya Kusum, et al.
Publicado: (2019)

Noise-cancelling repeat finder: uncovering tandem repeats in error-prone long-read sequencing data
por: Harris, Robert S, et al.
Publicado: (2019)

Finding optimal threshold for correction error reads in DNA assembling
por: Chin, Francis YL, et al.
Publicado: (2009)

VeChat: correcting errors in long reads using variation graphs
por: Luo, Xiao, et al.
Publicado: (2022)

Jabba: hybrid error correction for long sequencing reads
por: Miclotte, Giles, et al.
Publicado: (2016)

An improved approach for reconstructing consensus repeats from short sequence reads
por: Chu, Chong, et al.
Publicado: (2018)

RResolver: efficient short-read repeat resolution within ABySS
por: Nikolić, Vladimir, et al.
Publicado: (2022)

Inferring short tandem repeat variation from paired-end short reads
por: Cao, Minh Duc, et al.
Publicado: (2014)

SeqEntropy: Genome-Wide Assessment of Repeats for Short Read Sequencing
por: Chu, Hsueh-Ting, et al.
Publicado: (2013)

Linked-read sequencing for detecting short tandem repeat expansions
por: Chiu, Readman, et al.
Publicado: (2022)

FragGeneScan: predicting genes in short and error-prone reads
por: Rho, Mina, et al.
Publicado: (2010)

Quake: quality-aware detection and correction of sequencing errors
por: Kelley, David R, et al.
Publicado: (2010)

Hybrid de novo tandem repeat detection using short and long reads
por: Fertin, Guillaume, et al.
Publicado: (2015)

Genome-wide detection of short tandem repeat expansions by long-read sequencing
por: Liu, Qian, et al.
Publicado: (2020)

Fiona: a parallel and automatic strategy for read error correction
por: Schulz, Marcel H., et al.
Publicado: (2014)

LoRDEC: accurate and efficient long read error correction
por: Salmela, Leena, et al.
Publicado: (2014)

HALC: High throughput algorithm for long read error correction
por: Bao, Ergude, et al.
Publicado: (2017)

REPdenovo: Inferring De Novo Repeat Motifs from Short Sequence Reads
por: Chu, Chong, et al.
Publicado: (2016)

A sensitive repeat identification framework based on short and long reads
por: Liao, Xingyu, et al.
Publicado: (2021)

Profiling the Genome-Wide Landscape of Short Tandem Repeats by Long-Read Sequencing
por: Liu, Zhenhua, et al.
Publicado: (2022)

HAT: haplotype assembly tool using short and error-prone long reads
por: Shirali Hossein Zade, Ramin, et al.
Publicado: (2022)

Reverse Transcription Errors and RNA–DNA Differences at Short Tandem Repeats
por: Fungtammasan, Arkarachai, et al.
Publicado: (2016)

Minimum error correction-based haplotype assembly: Considerations for long read data
por: Majidian, Sina, et al.
Publicado: (2020)

Efficient assembly of nanopore reads via highly accurate and intact error correction
por: Chen, Ying, et al.
Publicado: (2021)

Rcorrector: efficient and accurate error correction for Illumina RNA-seq reads
por: Song, Li, et al.
Publicado: (2015)

Cannot write session to /tmp/vufind_sessions/sess_0ttq3mghsavjn2iehn5ukp0svn