Computational methods for single-cell RNA sequencing

B Hie, J Peters, SK Nyquist, AK Shalek… - Annual Review of …, 2020 - annualreviews.org
Single-cell RNA sequencing (scRNA-seq) has provided a high-dimensional catalog of
millions of cells across species and diseases. These data have spurred the development of …

Tutorial: guidelines for the computational analysis of single-cell RNA sequencing data

TS Andrews, VY Kiselev, D McCarthy, M Hemberg - Nature protocols, 2021 - nature.com
Single-cell RNA sequencing (scRNA-seq) is a popular and powerful technology that allows
you to profile the whole transcriptome of a large number of individual cells. However, the …

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 …

Single-cell RNA sequencing analysis: a step-by-step overview

S Slovin, A Carissimo, F Panariello, A Grimaldi… - RNA bioinformatics, 2021 - Springer
Thanks to innovative sample-preparation and sequencing technologies, gene expression in
individual cells can now be measured for thousands of cells in a single experiment. Since its …

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 …

Systematic comparative analysis of single cell RNA-sequencing methods

J Ding, X Adiconis, SK Simmons, MS Kowalczyk… - BioRxiv, 2019 - biorxiv.org
ABSTRACT A multitude of single-cell RNA sequencing methods have been developed in
recent years, with dramatic advances in scale and power, and enabling major discoveries …

Critical downstream analysis steps for single-cell RNA sequencing data

Z Zhang, F Cui, C Lin, L Zhao, C Wang… - Briefings in …, 2021 - academic.oup.com
Single-cell RNA sequencing (scRNA-seq) has enabled us to study biological questions at
the single-cell level. Currently, many analysis tools are available to better utilize these …

Design and computational analysis of single-cell RNA-sequencing experiments

R Bacher, C Kendziorski - Genome biology, 2016 - Springer
Single-cell RNA-sequencing (scRNA-seq) has emerged as a revolutionary tool that allows
us to address scientific questions that eluded examination just a few years ago. With the …

User-friendly, scalable tools and workflows for single-cell RNA-seq analysis

P Moreno, N Huang, JR Manning, S Mohammed… - Nature …, 2021 - nature.com
To the Editor—As single-cell RNA sequencing (scRNA-seq) becomes widespread,
accessible and scalable computational pipelines for data analysis are needed. We introduce …

Introduction to single‐cell RNA sequencing

TK Olsen, N Baryawno - Current protocols in molecular biology, 2018 - Wiley Online Library
During the last decade, high‐throughput sequencing methods have revolutionized the entire
field of biology. The opportunity to study entire transcriptomes in great detail using RNA …