[HTML][HTML] Nanopore sequencing technology, bioinformatics and applications

Y Wang, Y Zhao, A Bollas, Y Wang, KF Au - Nature biotechnology, 2021 - nature.com
Rapid advances in nanopore technologies for sequencing single long DNA and RNA
molecules have led to substantial improvements in accuracy, read length and throughput …

Single molecule real-time (SMRT) sequencing comes of age: applications and utilities for medical diagnostics

S Ardui, A Ameur, JR Vermeesch… - Nucleic acids …, 2018 - academic.oup.com
Short read massive parallel sequencing has emerged as a standard diagnostic tool in the
medical setting. However, short read technologies have inherent limitations such as GC …

Large-scale genome sequencing of mycorrhizal fungi provides insights into the early evolution of symbiotic traits

S Miyauchi, E Kiss, A Kuo, E Drula, A Kohler… - Nature …, 2020 - nature.com
Mycorrhizal fungi are mutualists that play crucial roles in nutrient acquisition in terrestrial
ecosystems. Mycorrhizal symbioses arose repeatedly across multiple lineages of …

Assembly of long, error-prone reads using repeat graphs

M Kolmogorov, J Yuan, Y Lin, PA Pevzner - Nature biotechnology, 2019 - nature.com
Accurate genome assembly is hampered by repetitive regions. Although long single
molecule sequencing reads are better able to resolve genomic repeats than short-read data …

Unicycler: resolving bacterial genome assemblies from short and long sequencing reads

RR Wick, LM Judd, CL Gorrie… - PLoS computational …, 2017 - journals.plos.org
The Illumina DNA sequencing platform generates accurate but short reads, which can be
used to produce accurate but fragmented genome assemblies. Pacific Biosciences and …

Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation

S Koren, BP Walenz, K Berlin, JR Miller… - Genome …, 2017 - genome.cshlp.org
Long-read single-molecule sequencing has revolutionized de novo genome assembly and
enabled the automated reconstruction of reference-quality genomes. However, given the …

[HTML][HTML] Long walk to genomics: History and current approaches to genome sequencing and assembly

AM Giani, GR Gallo, L Gianfranceschi… - Computational and …, 2020 - Elsevier
Genomes represent the starting point of genetic studies. Since the discovery of DNA
structure, scientists have devoted great efforts to determine their sequence in an exact way …

Coming of age: ten years of next-generation sequencing technologies

S Goodwin, JD McPherson, WR McCombie - Nature reviews genetics, 2016 - nature.com
Since the completion of the human genome project in 2003, extraordinary progress has
been made in genome sequencing technologies, which has led to a decreased cost per …

Piercing the dark matter: bioinformatics of long-range sequencing and map**

FJ Sedlazeck, H Lee, CA Darby, MC Schatz - Nature Reviews Genetics, 2018 - nature.com
Several new genomics technologies have become available that offer long-read sequencing
or long-range map** with higher throughput and higher resolution analysis than ever …

Single-nuclei isoform RNA sequencing unlocks barcoded exon connectivity in frozen brain tissue

SA Hardwick, W Hu, A Joglekar, L Fan, PG Collier… - Nature …, 2022 - nature.com
Single-nuclei RNA sequencing characterizes cell types at the gene level. However,
compared to single-cell approaches, many single-nuclei cDNAs are purely intronic, lack …