[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 …

[HTML][HTML] Next-generation sequencing technology: current trends and advancements

H Satam, K Joshi, U Mangrolia, S Waghoo, G Zaidi… - Biology, 2023 - mdpi.com
Simple Summary Next-generation sequencing (NGS) is a powerful tool used in genomics
research. NGS can sequence millions of DNA fragments at once, providing detailed …

YaHS: yet another Hi-C scaffolding tool

C Zhou, SA McCarthy, R Durbin - Bioinformatics, 2023 - academic.oup.com
We present YaHS, a user-friendly command-line tool for the construction of chromosome-
scale scaffolds from Hi-C data. It can be run with a single-line command, requires minimal …

[HTML][HTML] hdWGCNA identifies co-expression networks in high-dimensional transcriptomics data

S Morabito, F Reese, N Rahimzadeh, E Miyoshi… - Cell reports …, 2023 - cell.com
Biological systems are immensely complex, organized into a multi-scale hierarchy of
functional units based on tightly regulated interactions between distinct molecules, cells …

[HTML][HTML] Semi-automated assembly of high-quality diploid human reference genomes

ED Jarvis, G Formenti, A Rhie, A Guarracino, C Yang… - Nature, 2022 - nature.com
The current human reference genome, GRCh38, represents over 20 years of effort to
generate a high-quality assembly, which has benefitted society,. However, it still has many …

Epigenetic patterns in a complete human genome

A Gershman, MEG Sauria, X Guitart, MR Vollger… - Science, 2022 - science.org
The completion of a telomere-to-telomere human reference genome, T2T-CHM13, has
resolved complex regions of the genome, including repetitive and homologous regions …

Examining horizontal gene transfer in microbial communities

IL Brito - Nature Reviews Microbiology, 2021 - nature.com
Bacteria acquire novel DNA through horizontal gene transfer (HGT), a process that enables
an organism to rapidly adapt to changing environmental conditions, provides a competitive …

[HTML][HTML] Systematic comparison of tools used for m6A mapping from nanopore direct RNA sequencing

ZD Zhong, YY Xie, HX Chen, YL Lan, XH Liu… - Nature …, 2023 - nature.com
Abstract N6-methyladenosine (m6A) has been increasingly recognized as a new and
important regulator of gene expression. To date, transcriptome-wide m6A detection primarily …

[HTML][HTML] Third-generation sequencing: the spearhead towards the radical transformation of modern genomics

K Athanasopoulou, MA Boti, PG Adamopoulos… - Life, 2021 - mdpi.com
Although next-generation sequencing (NGS) technology revolutionized sequencing, offering
a tremendous sequencing capacity with groundbreaking depth and accuracy, it continues to …

Next generation sequencing of SARS-CoV-2 genomes: challenges, applications and opportunities

M Chiara, AM D'Erchia, C Gissi… - Briefings in …, 2021 - academic.oup.com
Various next generation sequencing (NGS) based strategies have been successfully used in
the recent past for tracing origins and understanding the evolution of infectious agents …