Effects of different burst form on gene expression dynamic and first-passage time

2017 ◽  
Vol 9 ◽  
pp. 91-100
Author(s):  
Xuejie Liu ◽  
Qiuying Li
Keyword(s):  
Gene Expression ◽  
First Passage Time ◽  
Passage Time ◽  
First Passage ◽  
Gene Expression Dynamic

scholarly journals Estimation of mean first passage time for bursty gene expression

2016 ◽  
Vol 13 (3) ◽  
pp. 036004 ◽  
Author(s):  
Mayank Shreshtha ◽  
Anudeep Surendran ◽  
Anandamohan Ghosh
Keyword(s):  
Gene Expression ◽  
First Passage Time ◽  
Passage Time ◽  
Mean First Passage Time ◽  
First Passage

Modulation of first-passage time for gene expression via asymmetric cell division

2019 ◽  
Vol 12 (05) ◽  
pp. 1950052
Author(s):  
Kunwen Wen ◽  
Lifang Huang ◽  
Qi Wang ◽  
Jianshe Yu
Keyword(s):  
Gene Expression ◽  
Growth Rate ◽  
Cell Division ◽  
Asymmetric Cell Division ◽  
First Passage Time ◽  
Passage Time ◽  
Exponential Growth Rate ◽  
First Passage ◽  
Division Rate ◽  
The Mean

How to balance the size of exponentially growing cells has always been a focus of biologists. Recent experiments have uncovered that the cell is divided into two daughter cells only when the level of time-keeper protein reaches a fixed threshold and cell division in prokaryote is not completely symmetric. The timing of cell division is essentially random because gene expression is stochastic, but cells seen to manage to have precise timing of cell division events. Although the inter-cellular variability of gene expression has attracted much attention, the randomness of event timing has been rarely studied. In our analysis, the timing of cell division is formulated as the first-passage time (denoted by FPT) for time-keeper protein’s level to cross a critical threshold firstly, we derive exact analytical formulae for the mean and noise of FPT based on stochastic gene expression model with asymmetric cell division. The results of numerical simulation show that the regulatory factors (division rate, newborn cell size, exponential growth rate and threshold) have significant influence on the mean and noise of FPT. We also show that both the increase of division rate and newborn cell size could reduce the mean of FPT and increase the noise of FPT, the larger the exponential growth rate is, the smaller the mean and noise of FPT will be; and the larger the threshold value is, the higher the mean of FPT is and the lower the noise is. In addition, compared with symmetric division, asymmetric division can reduce the mean of FPT and improve the noise of FPT. In summary, our results provide insight into the relationship between regulatory factors and FPT and reveal that asymmetric division is an effective mechanism to shorten the mean of FPT.

scholarly journals Controlling gene expression timing through gene regulatory architecture

2021 ◽  
Author(s):  
Md Zulfikar Ali ◽  
Robert C. Brewster
Keyword(s):  
Gene Expression ◽  
Binding Affinity ◽  
Gene Networks ◽  
First Passage Time ◽  
Passage Time ◽  
Network Size ◽  
Stochastic Simulations ◽  
Regulatory Control ◽  
Regulatory Function ◽  
First Passage

Gene networks typically involve the regulatory control of multiple genes with related function. This connectivity enables correlated control of the levels and timing of gene expression. Here we study how the timing of gene expression in networks can be encoded in the regulatory DNA of a gene. Using stochastic simulations, we examine the role of binding affinity, TF regulatory function and network size in controlling the mean first-passage time to reach a fixed fraction of steady-state expression for both an auto-regulated TF gene and a target gene. We also examine how the variability in first-passage time depends on these factors. We find that both network size and binding affinity can dramatically speed up or slow down the response time of network genes, in some cases predicting more than a 100-fold change compared to constitutive expression. Furthermore, these factors can also significantly impact the fidelity of this response. Importantly, these effects do not occur at "extremes" of network size or binding affinity, but rather in an intermediate window of either quantity.

First passage time for the state of exact chemical equilibrium

1980 ◽  
Vol 45 (3) ◽  
pp. 777-782 ◽  
Author(s):  
Milan Šolc
Keyword(s):  
Chemical Equilibrium ◽  
First Passage Time ◽  
Passage Time ◽  
The State ◽  
Recurrence Time ◽  
First Passage ◽  
First Order ◽  
The Mean ◽  
Passage Times ◽  
Number Of Particles

The establishment of chemical equilibrium in a system with a reversible first order reaction is characterized in terms of the distribution of first passage times for the state of exact chemical equilibrium. The mean first passage time of this state is a linear function of the logarithm of the total number of particles in the system. The equilibrium fluctuations of composition in the system are characterized by the distribution of the recurrence times for the state of exact chemical equilibrium. The mean recurrence time is inversely proportional to the square root of the total number of particles in the system.

scholarly journals Credit Gap Risk in a First Passage Time Model with Jumps

2009 ◽  
Author(s):  
Natalie Packham ◽  
Lutz Schloegl ◽  
Wolfgang M. Schmidt
Keyword(s):  
First Passage Time ◽  
Passage Time ◽  
First Passage ◽  
Time Model ◽  
Gap Risk ◽  
Credit Gap
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