Results 1 to 10 of about 29,460 (117)
MysteryMaster: scraping the bottom of the barrel of barcoded Oxford nanopore reads [PDF]
BMC BioinformaticsBackground The high error rate associated with Oxford Nanopore sequencing technology adversely affects demultiplexing. To improve demultiplexing and reduce unclassified reads from nanopore sequencing data, we developed MysteryMaster, a demultiplexer that
Abdolrahman Khezri +7 more
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Understanding the Impact of Individual Nucleotide on Oxford Nanopore Current Signals With Interpretable Prediction Models [PDF]
Bioinformatics and Biology InsightsOxford nanopore sequencing enabled real-time, long-read analysis of DNA by detecting ionic current signals associated with K-mer sequences. Although many studies analyzed sequence and modification detection, our understanding of how multiple nucleotides ...
Yenan Wang, Zhixing Wu, Jia Meng
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NanoForms: an integrated server for processing, analysis and assembly of raw sequencing data of microbial genomes, from Oxford Nanopore technology [PDF]
PeerJ, 2022 Background Next Generation Sequencing (NGS) techniques dominate today’s landscape of genetics and genomics research. Though Illumina still dominates worldwide sequencing, Oxford Nanopore is one of the leading technologies currently being used by ...
Anna Czmil +9 more
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Error correction enables use of Oxford Nanopore technology for reference-free transcriptome analysis
Nature Communications, 2021 Nanopore sequencing technologies applied to transcriptome analysis suffer from high error rates, limiting them largely to reference-based analyses. Here, the authors develop a computational error correction method for transcriptome analysis that reduces ...
Kristoffer Sahlin +3 more
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Genome Biology, 2021 We develop the Oncogene Concatenated Enriched Amplicon Nanopore Sequencing (OCEANS) method, in which variants with low variant allele frequency (VAFs) are amplified and subsequently concatenated for Nanopore Sequencing.
Deepak Thirunavukarasu +8 more
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Rapid Diagnosis of Mycobacterium marinum Infection by Next-Generation Sequencing: A Case Report
Frontiers in Medicine, 2022 We present the first report of histology- and culture-proven Mycobacterium marinum infection diagnosed by next-generation sequencing (NGS). It took <2 days to make a microbiological diagnosis using the Oxford Nanopore Technologies' MinION device ...
Fanfan Xing +8 more
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Nanopore sequencing-based genome assembly and evolutionary genomics of circum-basmati rice
Genome Biology, 2020 Background The circum-basmati group of cultivated Asian rice (Oryza sativa) contains many iconic varieties and is widespread in the Indian subcontinent.
Jae Young Choi +8 more
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The Plant Genome, 2023 Structural variations (SVs) are larger polymorphisms (> 50 bp in length), which consist of insertions, deletions, inversions, duplications, and translocations.
Gözde Yildiz +5 more
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Frontiers in Medicine, 2023 Nocardia species do not replicate as rapidly as other pyogenic bacteria and nocardial infections can be highly fatal, particularly in immunocompromised patients.
Fanfan Xing +7 more
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pycoMeth: a toolbox for differential methylation testing from Nanopore methylation calls
Genome Biology, 2023 We present pycoMeth, a toolbox to store, manage and analyze DNA methylation calls from long-read sequencing data obtained using the Oxford Nanopore Technologies sequencing platform.
Rene Snajder +3 more
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