[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 …

Upcoming progress of transcriptomics studies on plants: An overview

P Tyagi, D Singh, S Mathur, A Singh… - Frontiers in Plant …, 2022 - frontiersin.org
Transcriptome sequencing or RNA-Sequencing is a high-resolution, sensitive and high-
throughput next-generation sequencing (NGS) approach used to study non-model plants …

Comparative evaluation of Nanopore polishing tools for microbial genome assembly and polishing strategies for downstream analysis

JY Lee, M Kong, J Oh, JS Lim, SH Chung, JM Kim… - Scientific Reports, 2021 - nature.com
Assembling high-quality microbial genomes using only cost-effective Nanopore long-read
systems such as Flongle is important to accelerate research on the microbial genome and …

Benchmarking of long-read sequencing, assemblers and polishers for yeast genome

X Zhang, CG Liu, SH Yang, X Wang… - Briefings in …, 2022 - academic.oup.com
Background The long reads of the third-generation sequencing significantly benefit the
quality of the de novo genome assembly. However, its relatively high single-base error rate …

Simulation of the Ecological Service Value and Ecological Compensation in Arid Area: A Case Study of Ecologically Vulnerable Oasis

J Liu, X Pei, W Zhu, J Jiao - Remote Sensing, 2023 - mdpi.com
In recent years, the delicate balance between economic development and ecological
environment protection in ecologically fragile arid areas has gradually become apparent …

R5hmCFDV: computational identification of RNA 5-hydroxymethylcytosine based on deep feature fusion and deep voting

H Shi, S Zhang, X Li - Briefings in Bioinformatics, 2022 - academic.oup.com
Abstract RNA 5-hydroxymethylcytosine (5hmC) is a kind of RNA modification, which is
related to the life activities of many organisms. Studying its distribution is very important to …

An improved residual network using deep fusion for identifying RNA 5-methylcytosine sites

X Li, S Zhang, H Shi - Bioinformatics, 2022 - academic.oup.com
Abstract Motivation 5-Methylcytosine (m5C) is a crucial post-transcriptional modification.
With the development of technology, it is widely found in various RNAs. Numerous studies …

A similarity-based deep learning approach for determining the frequencies of drug side effects

H Zhao, S Wang, K Zheng, Q Zhao… - Briefings in …, 2022 - academic.oup.com
The side effects of drugs present growing concern attention in the healthcare system.
Accurately identifying the side effects of drugs is very important for drug development and …

Benchmarking genome assembly methods on metagenomic sequencing data

Z Zhang, C Yang, WP Veldsman, X Fang… - Briefings in …, 2023 - academic.oup.com
Metagenome assembly is an efficient approach to reconstruct microbial genomes from
metagenomic sequencing data. Although short-read sequencing has been widely used for …

[图书][B] Next-generation sequencing data analysis

X Wang - 2016 - taylorfrancis.com
Next-generation DNA and RNA sequencing has revolutionized biology and medicine. With
sequencing costs continuously dropping and our ability to generate large datasets rising …