Eukaryotic transcriptional dynamics: from single molecules to cell populations

A Coulon, CC Chow, RH Singer, DR Larson - Nature reviews genetics, 2013 - nature.com
Transcriptional regulation is achieved through combinatorial interactions between regulatory
elements in the human genome and a vast range of factors that modulate the recruitment …

Transcription dynamics in living cells

TL Lenstra, J Rodriguez, H Chen… - Annual review of …, 2016 - annualreviews.org
The transcription cycle can be roughly divided into three stages: initiation, elongation, and
termination. Understanding the molecular events that regulate all these stages requires a …

A continuum model of transcriptional bursting

AM Corrigan, E Tunnacliffe, D Cannon, JR Chubb - Elife, 2016 - elifesciences.org
Transcription occurs in stochastic bursts. Early models based upon RNA hybridisation
studies suggest bursting dynamics arise from alternating inactive and permissive states …

Epigenetic control of immunity

M Busslinger, A Tarakhovsky - Cold Spring Harbor …, 2014 - cshperspectives.cshlp.org
Immunity relies on the heterogeneity of immune cells and their ability to respond to pathogen
challenges. In the adaptive immune system, lymphocytes display a highly diverse antigen …

Direct observation of frequency modulated transcription in single cells using light activation

DR Larson, C Fritzsch, L Sun, X Meng, DS Lawrence… - Elife, 2013 - elifesciences.org
Single-cell analysis has revealed that transcription is dynamic and stochastic, but tools are
lacking that can determine the mechanism operating at a single gene. Here we utilize single …

Discrete distributional differential expression (D3E) - a tool for gene expression analysis of single-cell RNA-seq data

M Delmans, M Hemberg - BMC bioinformatics, 2016 - Springer
Background The advent of high throughput RNA-seq at the single-cell level has opened up
new opportunities to elucidate the heterogeneity of gene expression. One of the most …

Live imaging of nascent RNA dynamics reveals distinct types of transcriptional pulse regulation

T Muramoto, D Cannon, M Gierliński… - Proceedings of the …, 2012 - National Acad Sciences
Transcription of genes can be discontinuous, occurring in pulses or bursts. It is not clear how
properties of transcriptional pulses vary between different genes. We compared the pulsing …

Rapid and efficient genetic engineering of both wild type and axenic strains of Dictyostelium discoideum

P Paschke, DA Knecht, A Silale, D Traynor… - Plos one, 2018 - journals.plos.org
Dictyostelium has a mature technology for molecular-genetic manipulation based around
transfection using several different selectable markers, marker re-cycling, homologous …

Geometrical confinement controls the asymmetric patterning of brachyury in cultures of pluripotent cells

G Blin, D Wisniewski, C Picart, M Thery… - …, 2018 - journals.biologists.com
Diffusible signals are known to orchestrate patterning during embryogenesis, yet diffusion is
sensitive to noise. The fact that embryogenesis is remarkably robust suggests that additional …

What do expression dynamics tell us about the mechanism of transcription?

DR Larson - Current opinion in genetics & development, 2011 - Elsevier
Single-cell microscopy studies have the potential to provide an unprecedented view of gene
expression with exquisite spatial and temporal sensitivity. However, there is a challenge to …