RNA sequencing: the teenage years

R Stark, M Grzelak, J Hadfield - Nature Reviews Genetics, 2019 - nature.com
Over the past decade, RNA sequencing (RNA-seq) has become an indispensable tool for
transcriptome-wide analysis of differential gene expression and differential splicing of …

The triumphs and limitations of computational methods for scRNA-seq

PV Kharchenko - Nature methods, 2021 - nature.com
The rapid progress of protocols for sequencing single-cell transcriptomes over the past
decade has been accompanied by equally impressive advances in the computational …

scAAGA: Single cell data analysis framework using asymmetric autoencoder with gene attention

R Meng, S Yin, J Sun, H Hu, Q Zhao - Computers in biology and medicine, 2023 - Elsevier
In recent years, single-cell RNA sequencing (scRNA-seq) has emerged as a powerful
technique for investigating cellular heterogeneity and structure. However, analyzing scRNA …

High-throughput total RNA sequencing in single cells using VASA-seq

F Salmen, J De Jonghe, TS Kaminski, A Alemany… - Nature …, 2022 - nature.com
Most methods for single-cell transcriptome sequencing amplify the termini of polyadenylated
transcripts, capturing only a small fraction of the total cellular transcriptome. This precludes …

Insights gained from single-cell analysis of immune cells in the tumor microenvironment

X Ren, L Zhang, Y Zhang, Z Li… - Annual review of …, 2021 - annualreviews.org
Understanding tumor immune microenvironments is critical for identifying immune modifiers
of cancer progression and developing cancer immunotherapies. Recent applications of …

Single-cell RNA-seq technologies and related computational data analysis

G Chen, B Ning, T Shi - Frontiers in genetics, 2019 - frontiersin.org
Single-cell RNA sequencing (scRNA-seq) technologies allow the dissection of gene
expression at single-cell resolution, which greatly revolutionizes transcriptomic studies. A …

An MRI radiomics approach to predict survival and tumour-infiltrating macrophages in gliomas

G Li, L Li, Y Li, Z Qian, F Wu, Y He, H Jiang, R Li… - Brain, 2022 - academic.oup.com
Preoperative MRI is one of the most important clinical results for the diagnosis and treatment
of glioma patients. The objective of this study was to construct a stable and validatable …

Single‐cell RNA sequencing in cancer research

Y Zhang, D Wang, M Peng, L Tang, J Ouyang… - Journal of Experimental …, 2021 - Springer
Single-cell RNA sequencing (scRNA-seq), a technology that analyzes transcriptomes of
complex tissues at single-cell levels, can identify differential gene expression and epigenetic …

Single-cell RNA sequencing technologies and bioinformatics pipelines

B Hwang, JH Lee, D Bang - Experimental & molecular medicine, 2018 - nature.com
Rapid progress in the development of next-generation sequencing (NGS) technologies in
recent years has provided many valuable insights into complex biological systems, ranging …

[HTML][HTML] Molecular architecture of the mouse nervous system

A Zeisel, H Hochgerner, P Lönnerberg, A Johnsson… - Cell, 2018 - cell.com
The mammalian nervous system executes complex behaviors controlled by specialized,
precisely positioned, and interacting cell types. Here, we used RNA sequencing of half a …