Polishing the Oxford Nanopore long-read assemblies of bacterial pathogens with Illumina short reads to improve genomic analyses.
Sign Up to like & getrecommendations! Published in 2021 at "Genomics"
DOI: 10.1016/j.ygeno.2021.03.018
Abstract: Oxford Nanopore sequencing has been widely used to achieve complete genomes of bacterial pathogens. However, the error rates of Oxford Nanopore long reads are high. Various polishing algorithms using Illumina short reads to correct the… read more here.
Keywords: illumina short; short reads; real reads; nanopore long ... See more keywords
The first Chromosomal-level genome assembly of Sageretia thea using Nanopore long reads and Pore-C technology
Sign Up to like & getrecommendations! Published in 2024 at "Scientific Data"
DOI: 10.1038/s41597-024-03798-9
Abstract: Sageretia thea, a notable species within the mock buckthorn genus, is recognized for its intriguing biogeographical distribution and diverse medicinal properties. Despite this significance, genomic studies on S. thea are still in the nascent stages.… read more here.
Keywords: genome assembly; sageretia thea; genome; level genome ... See more keywords
Clair3-trio: high-performance Nanopore long-read variant calling in family trios with trio-to-trio deep neural networks
Sign Up to like & getrecommendations! Published in 2022 at "Briefings in Bioinformatics"
DOI: 10.1093/bib/bbac301
Abstract: Accurate identification of genetic variants from family child-mother-father trio sequencing data is important in genomics. However, state-of-the-art approaches treat variant calling from trios as three independent tasks, which limits their calling accuracy for Nanopore long-read… read more here.
Keywords: family; nanopore long; clair3 trio; trio trio ... See more keywords
Abstract 710: Germline whole genome sequencing and nanopore long-read sequencing reveal high incidence of pathogenic variants in childhood cancer survivors with subsequent malignant neoplasms
Sign Up to like & getrecommendations! Published in 2025 at "Cancer Research"
DOI: 10.1158/1538-7445.am2025-710
Abstract: Childhood cancer survivors with cancer-predisposing variants are at increased risk of developing subsequent malignant neoplasms (SMNs). Although panel sequencing is commonly used for diagnostics, its overall yield has been lower than expected. From 1, 435… read more here.
Keywords: cancer; cancer survivors; read sequencing; long read ... See more keywords
Generation of full-length circular RNA libraries for Oxford Nanopore long-read sequencing
Sign Up to like & getrecommendations! Published in 2022 at "PLoS ONE"
DOI: 10.1371/journal.pone.0273253
Abstract: Circular RNA (circRNA) is a noncoding RNA class with important implications for gene expression regulation, mostly by interaction with other RNA species or RNA-binding proteins. While the commonly applied short-read Illumina RNA-sequencing techniques can be… read more here.
Keywords: full length; nanopore long; oxford nanopore; circular rna ... See more keywords
Best Foot Forward: Nanopore Long Reads, Hybrid Meta-Assembly, and Haplotig Purging Optimizes the First Genome Assembly for the Southern Hemisphere Blacklip Abalone (Haliotis rubra)
Sign Up to like & getrecommendations! Published in 2019 at "Frontiers in Genetics"
DOI: 10.3389/fgene.2019.00889
Abstract: Marine molluscs of the family Haliotidae, commonly referred to as abalone, are a group of benthic reef species targeted by commercial fisheries in 11 countries, forming an important global industry worth approximately US $180 million… read more here.
Keywords: haliotis rubra; abalone; forward nanopore; nanopore long ... See more keywords
QitanTech Nanopore Long-Read Sequencing Enables Rapid Resolution of Complete Genomes of Multi-Drug Resistant Pathogens
Sign Up to like & getrecommendations! Published in 2022 at "Frontiers in Microbiology"
DOI: 10.3389/fmicb.2022.778659
Abstract: Advancement of novel sequencing technologies facilitates modern life science and medicine unprecedentedly. Exploring complete genome sequences of bacteria by long-read sequencing technology is significant for microbial genomics research. However, third-generation long-read sequencing technologies are available… read more here.
Keywords: nanopore long; sequencing technology; complete genomes; qitantech nanopore ... See more keywords
Nanopore long-read RNAseq reveals transcriptional variations in citrus species
Sign Up to like & getrecommendations! Published in 2023 at "Frontiers in Plant Science"
DOI: 10.3389/fpls.2022.1077797
Abstract: The number of studies on plant transcriptomes using ONT RNAseq technology is rapidly increasing in recent. It is a powerful method to decipher transcriptomic complexity, particularly alternative splicing (AS) event detection. Citrus plants are the… read more here.
Keywords: nanopore long; rnaseq; rnaseq reveals; read rnaseq ... See more keywords
Genotype Complements the Phenotype: Identification of the Pathogenicity of an LMNA Splice Variant by Nanopore Long-Read Sequencing in a Large DCM Family
Sign Up to like & getrecommendations! Published in 2022 at "International Journal of Molecular Sciences"
DOI: 10.3390/ijms232012230
Abstract: Dilated cardiomyopathy (DCM) is a common cause of heart failure (HF) and is of familial origin in 20–40% of cases. Genetic testing by next-generation sequencing (NGS) has yielded a definite diagnosis in many cases; however,… read more here.
Keywords: family; nanopore long; lmna; ipsc cms ... See more keywords
Nanopore Long-Read Sequencing as a First-Tier Diagnostic Test to Detect Repeat Expansions in Neurological Disorders
Sign Up to like & getrecommendations! Published in 2025 at "International Journal of Molecular Sciences"
DOI: 10.3390/ijms26072850
Abstract: Inherited neurological disorders, such as spinocerebellar ataxia (SCA) and fragile X (FraX), are frequently caused by short tandem repeat (STR) expansions. The detection and assessment of STRs is important for diagnostics and prognosis. We tested… read more here.
Keywords: repeat; read sequencing; long read; neurological disorders ... See more keywords