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GenomicsOxford nanopore sequencing data from the Arabidopsis thaliana accessions Ler-0, Cvi-0 and Tanz-1
Oxford nanopore sequencing data from the Arabidopsis thaliana accessions Ler-0, Cvi-0 and Tanz-1
ORGANISM(S): Arabidopsis thaliana 
2022-08-06 | E-MTAB-12009 | biostudies-arrayexpress
TranscriptomicsComparative evaluation of Oxford Nanopore Technologies’ adaptive sampling and the Twist long-read PGx panel for pharmacogenomic profiling
We used targeted long-read Oxford Nanopore Technologies sequencing enriching for a panel of 1036 pharmacogenes extracted from the PharmGKB database. The enrichment was performed using ONT's adaptive sampling feature, enabling in silico enrichment without physically capturing the fragments of interes...
ORGANISM(S): Homo sapiens 
2025-12-30 | E-MTAB-15248 | biostudies-arrayexpress
TranscriptomicsNanopore sequencing reveals endogenous NMD-targeted isoforms in human cells
Nonsense-mediated mRNA decay (NMD) is a eukaryotic, translation-dependent degradation pathway that targets mRNAs with premature termination codons and also regulates the expression of some mRNAs that encode full-length proteins. Although many genes express NMD-sensitive transcripts, identifying them...
2021-07-20 | E-MTAB-10452 | biostudies-arrayexpress
TranscriptomicsComparative analysis of single-cell and spatial Nanopore long-read methods
Alternative splicing significantly contributes to transcriptome complexity and has critical implications for cellular functions. Recent advancements in single-cell isolation and capture techniques have enabled high-throughput quantification of gene expression at single-cell resolution. Long-read seq...
ORGANISM(S): Mus musculus 
2025-08-26 | E-MTAB-15190 | biostudies-arrayexpress
TranscriptomicsOxford Nanopore MinION sequencing of multiplex PCR amplified, pathogen-spiked blood and plasma samples
To evaluate targeted MinION next generation sequencing as a diagnostic method for detection of pathogens in human blood and plasma, human blood or plasma samples were spiked with measured amounts of viruses, bacteria, protozoan parasites or tested pathogen-free as negative controls. Nucleic acid wa...
ORGANISM(S): Homo sapiens 
2024-06-08 | E-MTAB-14011 | biostudies-arrayexpress
GenomicsNanopore sequencing of B. thetaiotaomicron hankyphages
We identified hankyphage prophages within B. thetaiotaomicron isolates gathered from French hospitals. We extracted genomic DNA from an overnight culture from a single colony of each strain and sequenced them using Nanopore sequencing using the Plasmidsaurus platform. This long-read approach helped ...
ORGANISM(S): Bacteroides thetaiotaomicron 
2025-01-24 | E-MTAB-14724 | biostudies-arrayexpress
GenomicsXdrop - Oxford Nanopore long read seqeuncing of HepG2 genetic modified clones
This dataset contains Xdrop followed by oxford nanopore long read sequencing performed in target tRNA gene deletion (t8) and intergenic region deletion (i50) clones in HepG2 . By applying de novo assembly based approach to Xdrop-LRS data, we identified Cas9-induced on-target genomic alteration.
ORGANISM(S): Homo sapiens 
2022-09-16 | E-MTAB-11327 | biostudies-arrayexpress
TranscriptomicsOxford Nanopore sequencing of poly(A)+ RNA from two Trypanosoma brucei strains
EATRO1125 bloodstream forms grown to about 5 x 10e5 per ml. Lister 427 procyclic forms at no more than 2 million per ml. Direct nanopore sequencing on cells approaching their expiration date.
ORGANISM(S): Trypanosoma brucei brucei 
2020-07-16 | E-MTAB-9319 | biostudies-arrayexpress
GenomicsXdrop - Oxford Nanopore long read seqeuncing of HAP1 and HepG2 tRNA gene deletion clones
This dataset contains Xdrop followed by oxford nanopore long read sequencing performed in target tRNA gene deletion clones in HAP1 (t72) and HepG2 (t15). By applying de novo assembly based approach to Xdrop-LRS data, we identified Cas9-induced on-target genomic alteration.
ORGANISM(S): Homo sapiens 
2022-09-16 | E-MTAB-10652 | biostudies-arrayexpress
GenomicsAPL Oxford Nanopore sequencing - nanome
APL Oxford Nanopore sequencing
EGAS00001005613 | EGA
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