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 …

Tumour heterogeneity and metastasis at single-cell resolution

DA Lawson, K Kessenbrock, RT Davis… - Nature cell …, 2018 - nature.com
Tumours comprise a heterogeneous collection of cells with distinct genetic and phenotypic
properties that can differentially promote progression, metastasis and drug resistance …

Systematic comparison of single-cell and single-nucleus RNA-sequencing methods

J Ding, X Adiconis, SK Simmons, MS Kowalczyk… - Nature …, 2020 - nature.com
The scale and capabilities of single-cell RNA-sequencing methods have expanded rapidly
in recent years, enabling major discoveries and large-scale cell mapping efforts. However …

Nanopore long-read RNAseq reveals widespread transcriptional variation among the surface receptors of individual B cells

A Byrne, AE Beaudin, HE Olsen, M Jain, C Cole… - Nature …, 2017 - nature.com
Understanding gene regulation and function requires a genome-wide method capable of
capturing both gene expression levels and isoform diversity at the single-cell level. Short …

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 …

Library construction for next-generation sequencing: overviews and challenges

SR Head, HK Komori, SA LaMere, T Whisenant… - …, 2014 - Taylor & Francis
High-throughput sequencing, also known as next-generation sequencing (NGS), has
revolutionized genomic research. In recent years, NGS technology has steadily improved …

[HTML][HTML] Discovery and functional analysis of lncRNAs: Methodologies to investigate an uncharacterized transcriptome

K Kashi, L Henderson, A Bonetti, P Carninci - Biochimica et Biophysica …, 2016 - Elsevier
It is known that more than 70% of mammalian genomes are transcribed, yet the vast majority
of transcripts do not code for proteins. Are these noncoding transcripts merely transcriptional …

Exploring patterns enriched in a dataset with contrastive principal component analysis

A Abid, MJ Zhang, VK Bagaria, J Zou - Nature communications, 2018 - nature.com
Visualization and exploration of high-dimensional data is a ubiquitous challenge across
disciplines. Widely used techniques such as principal component analysis (PCA) aim to …

Principles and innovative technologies for decrypting noncoding RNAs: from discovery and functional prediction to clinical application

YM Sun, YQ Chen - Journal of hematology & oncology, 2020 - Springer
Noncoding RNAs (ncRNAs) are a large segment of the transcriptome that do not have
apparent protein-coding roles, but they have been verified to play important roles in diverse …

Single-cell analyses of transcriptional heterogeneity during drug tolerance transition in cancer cells by RNA sequencing

MCW Lee, FJ Lopez-Diaz, SY Khan… - Proceedings of the …, 2014 - National Acad Sciences
The acute cellular response to stress generates a subpopulation of reversibly stress-tolerant
cells under conditions that are lethal to the majority of the population. Stress tolerance is …