RNA sequencing: new technologies and applications in cancer research

M Hong, S Tao, L Zhang, LT Diao, X Huang… - Journal of hematology & …, 2020 - Springer
Over the past few decades, RNA sequencing has significantly progressed, becoming a
paramount approach for transcriptome profiling. The revolution from bulk RNA sequencing …

[HTML][HTML] A review of computational tools for generating metagenome-assembled genomes from metagenomic sequencing data

C Yang, D Chowdhury, Z Zhang, WK Cheung… - Computational and …, 2021 - Elsevier
Metagenomic sequencing provides a culture-independent avenue to investigate the
complex microbial communities by constructing metagenome-assembled genomes (MAGs) …

Evolution of the germline mutation rate across vertebrates

LA Bergeron, S Besenbacher, J Zheng, P Li… - Nature, 2023 - nature.com
The germline mutation rate determines the pace of genome evolution and is an evolving
parameter itself. However, little is known about what determines its evolution, as most …

Neoadjuvant therapy with immune checkpoint blockade, antiangiogenesis, and chemotherapy for locally advanced gastric cancer

S Li, W Yu, F **e, H Luo, Z Liu, W Lv, D Shi… - Nature …, 2023 - nature.com
Despite neoadjuvant/conversion chemotherapy, the prognosis of cT4a/bN+ gastric cancer is
poor. Immune checkpoint inhibitors (ICIs) and antiangiogenic agents have shown activity in …

Single-cell landscape of the ecosystem in early-relapse hepatocellular carcinoma

Y Sun, L Wu, YU Zhong, K Zhou, Y Hou, Z Wang… - Cell, 2021 - cell.com
Hepatocellular carcinoma (HCC) has high relapse and low 5-year survival rates. Single-cell
profiling in relapsed HCC may aid in the design of effective anticancer therapies, including …

NRT1.1B is associated with root microbiota composition and nitrogen use in field-grown rice

J Zhang, YX Liu, N Zhang, B Hu, T **, H Xu… - Nature …, 2019 - nature.com
Nitrogen-use efficiency of indica varieties of rice is superior to that of japonica varieties. We
apply 16S ribosomal RNA gene profiling to characterize root microbiota of 68 indica and 27 …

Viral Metagenomics Revealed Sendai Virus and Coronavirus Infection of Malayan Pangolins (Manis javanica)

P Liu, W Chen, JP Chen - Viruses, 2019 - mdpi.com
Pangolins are endangered animals in urgent need of protection. Identifying and cataloguing
the viruses carried by pangolins is a logical approach to evaluate the range of potential …

fastp: an ultra-fast all-in-one FASTQ preprocessor

S Chen, Y Zhou, Y Chen, J Gu - Bioinformatics, 2018 - academic.oup.com
Motivation Quality control and preprocessing of FASTQ files are essential to providing clean
data for downstream analysis. Traditionally, a different tool is used for each operation, such …

UNC93B1 variants underlie TLR7-dependent autoimmunity

C Wolf, EL Lim, M Mokhtari, B Kind, A Odainic… - Science …, 2024 - science.org
UNC93B1 is critical for trafficking and function of nucleic acid–sensing Toll-like receptors
(TLRs) TLR3, TLR7, TLR8, and TLR9, which are essential for antiviral immunity. Overactive …

Inbreeding depression explains killer whale population dynamics

M Kardos, Y Zhang, KM Parsons, H Kang… - Nature Ecology & …, 2023 - nature.com
Understanding the factors that cause endangered populations to either grow or decline is
crucial for preserving biodiversity. Conservation efforts often address extrinsic threats, such …