The causes of evolvability and their evolution
Evolvability is the ability of a biological system to produce phenotypic variation that is both
heritable and adaptive. It has long been the subject of anecdotal observations and …
heritable and adaptive. It has long been the subject of anecdotal observations and …
Challenges in measuring and understanding biological noise
Biochemical reactions are intrinsically stochastic, leading to variation in the production of
mRNAs and proteins within cells. In the scientific literature, this source of variation is typically …
mRNAs and proteins within cells. In the scientific literature, this source of variation is typically …
Single-cell measurement of plasmid copy number and promoter activity
Accurate measurements of promoter activities are crucial for predictably building genetic
systems. Here we report a method to simultaneously count plasmid DNA, RNA transcripts …
systems. Here we report a method to simultaneously count plasmid DNA, RNA transcripts …
Homeostasis of protein and mRNA concentrations in growing cells
J Lin, A Amir - Nature communications, 2018 - nature.com
Many experiments show that the numbers of mRNA and protein are proportional to the cell
volume in growing cells. However, models of stochastic gene expression often assume …
volume in growing cells. However, models of stochastic gene expression often assume …
Diverse spatial expression patterns emerge from unified kinetics of transcriptional bursting
How transcriptional bursting relates to gene regulation is a central question that has
persisted for more than a decade. Here, we measure nascent transcriptional activity in early …
persisted for more than a decade. Here, we measure nascent transcriptional activity in early …
What's luck got to do with it: single cells, multiple fates, and biological nondeterminism
The field of single-cell biology has morphed from a philosophical digression at its inception,
to a playground for quantitative biologists, to a major area of biomedical research. The last …
to a playground for quantitative biologists, to a major area of biomedical research. The last …
Single-cell analysis of transcription kinetics across the cell cycle
SO Skinner, H Xu, S Nagarkar-Jaiswal, PR Freire… - Elife, 2016 - elifesciences.org
Transcription is a highly stochastic process. To infer transcription kinetics for a gene-of-
interest, researchers commonly compare the distribution of mRNA copy-number to the …
interest, researchers commonly compare the distribution of mRNA copy-number to the …
BurstDECONV: a signal deconvolution method to uncover mechanisms of transcriptional bursting in live cells
Monitoring transcription in living cells gives access to the dynamics of this complex
fundamental process. It reveals that transcription is discontinuous, whereby active periods …
fundamental process. It reveals that transcription is discontinuous, whereby active periods …
Sequence specificity in DNA binding is mainly governed by association
Sequence-specific binding of proteins to DNA is essential for accessing genetic information.
We derive a model that predicts an anticorrelation between the macroscopic association and …
We derive a model that predicts an anticorrelation between the macroscopic association and …
Measurement of gene regulation in individual cells reveals rapid switching between promoter states
In vivo mapping of transcription-factor binding to the transcriptional output of the regulated
gene is hindered by probabilistic promoter occupancy, the presence of multiple gene copies …
gene is hindered by probabilistic promoter occupancy, the presence of multiple gene copies …