Cargando…

TSD: A Computational Tool To Study the Complex Structural Variants Using PacBio Targeted Sequencing Data

PacBio sequencing is a powerful approach to study DNA or RNA sequences in a longer scope. It is especially useful in exploring the complex structural variants generated by random integration or multiple rearrangement of endogenous or exogenous sequences. Here, we present a tool, TSD, for complex str...

Descripción completa

Detalles Bibliográficos
Autores principales:	Meng, Guofeng, Tan, Ying, Fan, Yue, Wang, Yan, Yang, Guang, Fanning, Gregory, Qiu, Yang
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Genetics Society of America 2019
Materias:	Software and Data Resources
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6505135/ https://www.ncbi.nlm.nih.gov/pubmed/30850377 http://dx.doi.org/10.1534/g3.118.200900

Ejemplares similares

SequelTools: a suite of tools for working with PacBio Sequel raw sequence data
por: Hufnagel, David E., et al.
Publicado: (2020)

PaSS: a sequencing simulator for PacBio sequencing
por: Zhang, Wenmin, et al.
Publicado: (2019)

LoReTTA, a user-friendly tool for assembling viral genomes from PacBio sequence data
por: Al Qaffas, Ahmed, et al.
Publicado: (2021)

LoRTE: Detecting transposon-induced genomic variants using low coverage PacBio long read sequences
por: Disdero, Eric, et al.
Publicado: (2017)

SVNN: an efficient PacBio-specific pipeline for structural variations calling using neural networks
por: Akbarinejad, Shaya, et al.
Publicado: (2021)

NPBSS: a new PacBio sequencing simulator for generating the continuous long reads with an empirical model
por: Wei, Ze-Gang, et al.
Publicado: (2018)

Organelle_PBA, a pipeline for assembling chloroplast and mitochondrial genomes from PacBio DNA sequencing data
por: Soorni, Aboozar, et al.
Publicado: (2017)

MitoHiFi: a python pipeline for mitochondrial genome assembly from PacBio high fidelity reads
por: Uliano-Silva, Marcela, et al.
Publicado: (2023)

Aethionema arabicum genome annotation using PacBio full‐length transcripts provides a valuable resource for seed dormancy and Brassicaceae evolution research
por: Fernandez‐Pozo, Noe, et al.
Publicado: (2021)

PacBio Sequencing and Its Applications
por: Rhoads, Anthony, et al.
Publicado: (2015)

The sequence and de novo assembly of Takifugu bimaculatus genome using PacBio and Hi-C technologies
por: Zhou, Zhixiong, et al.
Publicado: (2019)

Comprehensive analysis of structural variants in chickens using PacBio sequencing
por: Zhang, Jinxin, et al.
Publicado: (2022)

Chromosome genome assembly and annotation of the yellowbelly pufferfish with PacBio and Hi-C sequencing data
por: Zhou, Yitao, et al.
Publicado: (2019)

Chromosome-level genome assembly of largemouth bass (Micropterus salmoides) using PacBio and Hi-C technologies
por: He, Kuo, et al.
Publicado: (2022)

Exploring the genome and transcriptome of the cave nectar bat Eonycteris spelaea with PacBio long-read sequencing
por: Wen, Ming, et al.
Publicado: (2018)

The sequencing and de novo assembly of the Larimichthys crocea genome using PacBio and Hi-C technologies
por: Chen, Baohua, et al.
Publicado: (2019)

Chromosome-level genome assembly of an endangered plant Prunus mongolica using PacBio and Hi-C technologies
por: Zhu, Qiang, et al.
Publicado: (2023)

Assembly of an early-matured japonica (Geng) rice genome, Suijing18, based on PacBio and Illumina sequencing
por: Nie, Shou-Jun, et al.
Publicado: (2017)

Complete genome sequencing of the luminescent bacterium, Vibrio qinghaiensis sp. Q67 using PacBio technology
por: Gong, Liang, et al.
Publicado: (2018)

Shotgun metagenome data of a defined mock community using Oxford Nanopore, PacBio and Illumina technologies
por: Sevim, Volkan, et al.
Publicado: (2019)

Chromosome-level haplotype-resolved genome assembly for Takifugu ocellatus using PacBio and Hi-C technologies
por: Zeng, Qingmin, et al.
Publicado: (2023)

PacBio Hi-Fi genome assembly of the Iberian dolphin freshwater mussel Unio delphinus Spengler, 1793
por: Gomes-dos-Santos, André, et al.
Publicado: (2023)

HISEA: HIerarchical SEed Aligner for PacBio data
por: Khiste, Nilesh, et al.
Publicado: (2017)

Comparison of structural variants detected by PacBio-CLR and ONT sequencing in pear
por: Liu, Yueyuan, et al.
Publicado: (2022)

HiFiAdapterFilt, a memory efficient read processing pipeline, prevents occurrence of adapter sequence in PacBio HiFi reads and their negative impacts on genome assembly
por: Sim, Sheina B., et al.
Publicado: (2022)

Building two indica rice reference genomes with PacBio long-read and Illumina paired-end sequencing data
por: Zhang, Jianwei, et al.
Publicado: (2016)

Chromosome-level genome assembly of Nibea coibor using PacBio HiFi reads and Hi-C technologies
por: Yekefenhazi, Dinaer, et al.
Publicado: (2022)

A fault-tolerant method for HLA typing with PacBio data
por: Chang, Chia-Jung, et al.
Publicado: (2014)

A haplotype-resolved genome assembly of Rhododendron vialii based on PacBio HiFi reads and Hi-C data
por: Chang, Yuhang, et al.
Publicado: (2023)

The genome of the tegu lizard Salvator merianae: combining Illumina, PacBio, and optical mapping data to generate a highly contiguous assembly
por: Roscito, Juliana G, et al.
Publicado: (2018)

Chromosome-scale assembly comparison of the Korean Reference Genome KOREF from PromethION and PacBio with Hi-C mapping information
por: Kim, Hui-Su, et al.
Publicado: (2019)

PacBio long read-assembled draft genome of Pythium insidiosum strain Pi-S isolated from a Thai patient with pythiosis
por: Krajaejun, Theerapong, et al.
Publicado: (2023)

Improving PacBio Long Read Accuracy by Short Read Alignment
por: Au, Kin Fai, et al.
Publicado: (2012)

Revealing the transcriptomic complexity of switchgrass by PacBio long-read sequencing
por: Zuo, Chunman, et al.
Publicado: (2018)

Assembly of the durian chloroplast genome using long PacBio reads
por: Shearman, Jeremy R., et al.
Publicado: (2020)

First whole genome assembly and annotation of a European common bean cultivar using PacBio HiFi and Iso-Seq data
por: Carrère, Sébastien, et al.
Publicado: (2023)

Two long read-based genome assembly and annotation of polyploidy woody plants, Hibiscus syriacus L. using PacBio and Nanopore platforms
por: Koo, Hyunjin, et al.
Publicado: (2023)

PacBio Long Reads Improve Metagenomic Assemblies, Gene Catalogs, and Genome Binning
por: Xie, Haiying, et al.
Publicado: (2020)

Complete chloroplast genome sequence of Populus euphratica from PacBio Sequel platform
por: Jiang, Zhen-Bo, et al.
Publicado: (2021)

Automation of PacBio SMRTbell NGS library preparation for bacterial genome sequencing
por: Kong, Nguyet, et al.
Publicado: (2017)

Cannot write session to /tmp/vufind_sessions/sess_73l12enp8fcnguk2v8sltb7emp