Revealing the vectors of cellular identity with single-cell genomics

A Wagner, A Regev, N Yosef - Nature biotechnology, 2016 - nature.com
Single-cell genomics has now made it possible to create a comprehensive atlas of human
cells. At the same time, it has reopened definitions of a cell's identity and of the ways in …

RNA‐Seq methods for transcriptome analysis

R Hrdlickova, M Toloue, B Tian - Wiley Interdisciplinary …, 2017 - Wiley Online Library
Deep sequencing has been revolutionizing biology and medicine in recent years, providing
single base‐level precision for our understanding of nucleic acid sequences in high …

RNA sequencing and analysis

KR Kukurba, SB Montgomery - Cold Spring Harbor Protocols, 2015 - cshprotocols.cshlp.org
RNA sequencing (RNA-Seq) uses the capabilities of high-throughput sequencing methods
to provide insight into the transcriptome of a cell. Compared to previous Sanger sequencing …

The Landscape of long noncoding RNA classification

GS Laurent, C Wahlestedt, P Kapranov - Trends in genetics, 2015 - cell.com
Advances in the depth and quality of transcriptome sequencing have revealed many new
classes of long noncoding RNAs (lncRNAs). lncRNA classification has mushroomed to …

Defining cell types and states with single-cell genomics

C Trapnell - Genome research, 2015 - genome.cshlp.org
A revolution in cellular measurement technology is under way: For the first time, we have the
ability to monitor global gene regulation in thousands of individual cells in a single …

Base-pair-resolution genome-wide mapping of active RNA polymerases using precision nuclear run-on (PRO-seq)

DB Mahat, H Kwak, GT Booth, IH Jonkers, CG Danko… - Nature protocols, 2016 - nature.com
We provide a protocol for precision nuclear run-on sequencing (PRO-seq) and its variant,
PRO-cap, which map the location of active RNA polymerases (PRO-seq) or transcription …

Single-cell analysis tools for drug discovery and development

JR Heath, A Ribas, PS Mischel - Nature reviews Drug discovery, 2016 - nature.com
The genetic, functional or compositional heterogeneity of healthy and diseased tissues
presents major challenges in drug discovery and development. Such heterogeneity hinders …

[HTML][HTML] High-throughput transcriptome profiling in drug and biomarker discovery

X Yang, L Kui, M Tang, D Li, K Wei, W Chen… - Frontiers in …, 2020 - frontiersin.org
The development of new drugs is multidisciplinary and systematic work. High-throughput
techniques based on “-omics” have driven the discovery of biomarkers in diseases and …

Combinatorial labeling of single cells for gene expression cytometry

HC Fan, GK Fu, SPA Fodor - Science, 2015 - science.org
INTRODUCTION The measurement of specific proteins and transcripts in individual cells is
critical for understanding the role of cellular diversity in development, health, and disease …

[HTML][HTML] The role of noncoding RNAs in Parkinson's disease: biomarkers and associations with pathogenic pathways

MC Kuo, SCH Liu, YF Hsu, RM Wu - Journal of biomedical science, 2021 - Springer
The discovery of various noncoding RNAs (ncRNAs) and their biological implications is a
growing area in cell biology. Increasing evidence has revealed canonical and noncanonical …