Deciphering Transcriptional Dynamics In Vivo by Counting Nascent RNA Molecules

Validation of noise models for single-cell transcriptomics

(2014) Dominic Grün et al.   NATURE METHODS

Microfluidic single-cell whole-transcriptome sequencing

(2014) A. M. Streets et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dynamic regulation of eve stripe 2 expression reveals transcriptional bursts in living Drosophila embryos

(2014) J. P. Bothma et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transcription Factors Modulate c-Fos Transcriptional Bursts

(2014) Adrien Senecal et al.   Cell Reports

Regulation of Noise in Gene Expression

(2013) Alvaro Sanchez et al.   Annual Review of Biophysics

Precise Developmental Gene Expression Arises from Globally Stochastic Transcriptional Activity

(2013) Shawn C. Little et al.   CELL

Stochastic models of transcription: From single molecules to single cells

(2013) Alvaro Sanchez et al.   METHODS

Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells

(2013) Alex K. Shalek et al.   NATURE

Bimodal expression of PHO84 is modulated by early termination of antisense transcription

(2013) Manuele Castelnuovo et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The SWI/SNF Chromatin Remodeling Complex Influences Transcription by RNA Polymerase I in Saccharomyces cerevisiae

(2013) Yinfeng Zhang et al.   PLoS One

Genetic Determinants and Cellular Constraints in Noisy Gene Expression

(2013) A. Sanchez et al.   SCIENCE

Rapid Transcription Fosters Coordinate snail Expression in the Drosophila Embryo

(2013) Alistair Nicol Boettiger et al.   Cell Reports

Consequences of mRNA Transport on Stochastic Variability in Protein Levels

(2012) Abhyudai Singh et al.   BIOPHYSICAL JOURNAL

Single-molecule dynamics of transcription of the lar promoter

(2012) M Kandhavelu et al.   PHYSICAL BIOLOGY

Stochastic modeling of regulation of gene expression by multiple small RNAs

(2012) Charles Baker et al.   PHYSICAL REVIEW E

Universal Protein Fluctuations in Populations of Microorganisms

(2012) Hanna Salman et al.   PHYSICAL REVIEW LETTERS

Transcriptional burst frequency and burst size are equally modulated across the human genome

(2012) R. D. Dar et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Using Gene Expression Noise to Understand Gene Regulation

(2012) B. Munsky et al.   SCIENCE

Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq

(2011) S. Islam et al.   GENOME RESEARCH

Real-time imaging of cotranscriptional splicing reveals a kinetic model that reduces noise: implications for alternative splicing regulation

(2011) Ute Schmidt et al.   JOURNAL OF CELL BIOLOGY

Nascent transcript sequencing visualizes transcription at nucleotide resolution

(2011) L. Stirling Churchman et al.   NATURE

General properties of transcriptional time series in Escherichia coli

(2011) Lok-hang So et al.   NATURE GENETICS

Regulation by small RNAs via coupled degradation: Mean-field and variational approaches

(2011) Thierry Platini et al.   PHYSICAL REVIEW E

Intrinsic Noise in Stochastic Models of Gene Expression with Molecular Memory and Bursting

(2011) Tao Jia et al.   PHYSICAL REVIEW LETTERS

Random partitioning of molecules at cell division

(2011) D. Huh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Real-Time Observation of Transcription Initiation and Elongation on an Endogenous Yeast Gene

(2011) D. R. Larson et al.   SCIENCE

Effect of Promoter Architecture on the Cell-to-Cell Variability in Gene Expression

(2011) Alvaro Sanchez et al.   PLoS Computational Biology

Loss of Topoisomerase I leads to R-loop-mediated transcriptional blocks during ribosomal RNA synthesis

(2010) A. El Hage et al.   GENES & DEVELOPMENT

Non-genetic heterogeneity from stochastic partitioning at cell division

(2010) Dann Huh et al.   NATURE GENETICS

Single-allele analysis of transcription kinetics in living mammalian cells

(2010) Sharon Yunger et al.   NATURE METHODS

Transcription of functionally related constitutive genes is not coordinated

(2010) Saumil J Gandhi et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Quantifying E. coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells

(2010) Y. Taniguchi et al.   SCIENCE

HIV Promoter Integration Site Primarily Modulates Transcriptional Burst Size Rather Than Frequency

(2010) Ron Skupsky et al.   PLoS Computational Biology

Stochastic noise in splicing machinery

(2009) Eugene Melamud et al.   NUCLEIC ACIDS RESEARCH

Elongation dynamics shape bursty transcription and translation

(2009) Maciej Dobrzyński et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A single molecule view of gene expression

(2009) Daniel R. Larson et al.   TRENDS IN CELL BIOLOGY

Single-RNA counting reveals alternative modes of gene expression in yeast

(2008) Daniel Zenklusen et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Effects of protein maturation on the noise in gene expression

(2008) Guang Qiang Dong et al.   PHYSICAL REVIEW E

Transcriptional control of noise in gene expression

(2008) Álvaro Sánchez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Stochasticity and traffic jams in the transcription of ribosomal RNA: Intriguing role of termination and antitermination

(2008) S. Klumpp et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Stochastic Single-Molecule Event Triggers Phenotype Switching of a Bacterial Cell

(2008) P. J. Choi et al.   SCIENCE

The Generation of Promoter-Mediated Transcriptional Noise in Bacteria

(2008) Namiko Mitarai et al.   PLoS Computational Biology