Unlocking short read sequencing for metagenomics.
PLoS ONE, 2010 BackgroundDifferent high-throughput nucleic acid sequencing platforms are currently available but a trade-off currently exists between the cost and number of reads that can be generated versus the read length that can be achieved.Methodology/principal ...
Sébastien Rodrigue +6 more
doaj +7 more sources
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
doaj +5 more sources
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
doaj +2 more sources
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
doaj +2 more sources
A large-scale comparative metagenomic analysis of short-read sequencing platforms indicates high taxonomic concordance and functional analysis challenge [PDF]
mSystemsDriven by the increasing scale of microbiome studies and the rise of large, continuously expanding population cohorts, the volume of sequencing data is growing rapidly.
Kinga Zielińska +4 more
doaj +2 more sources
Impact of short-read sequencing on the misassembly of a plant genome. [PDF]
BMC Genomics, 2021 Abstract Background: Availability of plant genome sequences has led to significant advances. However, with few exceptions, the great majority of existing genome assemblies are derived from short read sequencing technologies with highly uneven read coverages indicative of sequencing and assembly issues that could significantly impact any ...
Wang P, Meng F, Moore BM, Shiu SH.
europepmc +5 more sources
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
doaj +2 more sources
TP53 mutation analysis in myelodysplastic syndromes – long or short read sequencing? [PDF]
HaematologicaNot available.
Moshe Mittelman, Liran Shlush
doaj +2 more sources
Haplotype-Phased Synthetic Long Reads from Short-Read Sequencing. [PDF]
PLoS ONE, 2016 Next-generation DNA sequencing has revolutionized the study of biology. However, the short read lengths of the dominant instruments complicate assembly of complex genomes and haplotype phasing of mixtures of similar sequences.
James A Stapleton +12 more
doaj +6 more sources
Detection of trait-associated structural variations using short-read sequencing [PDF]
Cell Genomics, 2023 Yukihide Momozawa +2 more
exaly +2 more sources