INSurVeyor: improving insertion calling from short read sequencing data [PDF]
Nature Communications, 2023 Insertions are one of the major types of structural variations and are defined as the addition of 50 nucleotides or more into a DNA sequence. Several methods exist to detect insertions from next-generation sequencing short read data, but they generally ...
Ramesh Rajaby +6 more
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Comparing genomes recovered from time-series metagenomes using long- and short-read sequencing technologies [PDF]
Microbiome, 2023 Background Over the past years, sequencing technologies have expanded our ability to examine novel microbial metabolisms and diversity previously obscured by isolation approaches.
Luis H. Orellana +3 more
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Oxford nanopore long-read sequencing enables the generation of complete bacterial and plasmid genomes without short-read sequencing [PDF]
Frontiers in Microbiology, 2023 IntroductionGenome-based analysis is crucial in monitoring antibiotic-resistant bacteria (ARB)and antibiotic-resistance genes (ARGs). Short-read sequencing is typically used to obtain incomplete draft genomes, while long-read sequencing can obtain ...
Wenxuan Zhao +11 more
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Will long-read sequencing technologies replace short-read sequencing technologies in the next 10 years? [PDF]
African Journal of Laboratory Medicine, 2020 No abstract available.
Boluwatife A. Adewale
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Using short read sequencing to characterise balanced reciprocal translocations in pigs [PDF]
BMC Genomics, 2020 Background A balanced constitutional reciprocal translocation (RT) is a mutual exchange of terminal segments of two non-homologous chromosomes without any loss or gain of DNA in germline cells.
Aniek C. Bouwman +4 more
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The effect of primer choice and short read sequences on the outcome of 16S rRNA gene based diversity studies [PDF]
, 2013 Different regions of the bacterial 16S rRNA gene evolve at different evolutionary rates. The scientific outcome of short read sequencing studies therefore alters with the gene region sequenced.
De Vos, Paul +4 more
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mSystems, 2022 Long-read sequencing offers the potential to improve metagenome assemblies and provide more robust assessments of microbial community composition and function than short-read sequencing.
N. V. Patin, K. D. Goodwin
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SeqEntropy: genome-wide assessment of repeats for short read sequencing. [PDF]
PLoS ONE, 2013 BACKGROUND: Recent studies on genome assembly from short-read sequencing data reported the limitation of this technology to reconstruct the entire genome even at very high depth coverage. We investigated the limitation from the perspective of information
Hsueh-Ting Chu +6 more
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Long-Read Sequencing Annotation of the Transcriptome in DNA-PK Inactivated Cells
Frontiers in Oncology, 2022 The DNA-dependent protein kinase catalytic subunit (DNA-PKcs) with a Ku70/Ku80 heterodimer constitutes the intact DNA-PK kinase, which is an upstream component of the DNA repair machinery that signals the DNA damage, orchestrates the DNA repair, and ...
Liwei Song +10 more
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Microorganisms, 2022 Brucella melitensis is a key etiological agent of brucellosis and has been increasingly subject to characterization using sequencing methodologies. This study aimed to investigate and compare short-read, long-read, and hybrid assemblies of B. melitensis.
Hillary A. Craddock +5 more
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