Effects of elongation delay in transcription dynamics
In the transcription process, elongation delay is induced by the movement of RNA polymerases (RNAP) along the DNA sequence, and can result in changes in the transcription dynamics. This paper studies the transcription dynamics that involved the elongation delay and effects of cell division and DNA...
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| Format: | Article |
| Language: | English |
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AIMS Press
2014-08-01
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| Series: | Mathematical Biosciences and Engineering |
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| Online Access: | https://www.aimspress.com/article/doi/10.3934/mbe.2014.11.1431 |
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| _version_ | 1832590145222606848 |
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| author | Xuan Zhang Huiqin Jin Zhuoqin Yang Jinzhi Lei |
| author_facet | Xuan Zhang Huiqin Jin Zhuoqin Yang Jinzhi Lei |
| author_sort | Xuan Zhang |
| collection | DOAJ |
| description | In the transcription process, elongation delay is induced by the movement of RNA polymerases (RNAP) along the DNA sequence, and can result in changes in the transcription dynamics. This paper studies the transcription dynamics that involved the elongation delay and effects of cell division and DNA replication. The stochastic process of gene expression is modeled with delay chemical master equation with periodic coefficients, and is studied numerically through the stochastic simulation algorithm with delay. We show that the average transcription level approaches to a periodic dynamics over cell cycles at homeostasis, and the elongation delay can reduce the transcription level and increase the transcription noise. Moreover, the transcription elongation can induce bimodal distribution of mRNA levels that can be measured by the techniques of flow cytometry. |
| format | Article |
| id | doaj-art-bfd9b9ce59de426fabe1fb7aaa930b6b |
| institution | Kabale University |
| issn | 1551-0018 |
| language | English |
| publishDate | 2014-08-01 |
| publisher | AIMS Press |
| record_format | Article |
| series | Mathematical Biosciences and Engineering |
| spelling | doaj-art-bfd9b9ce59de426fabe1fb7aaa930b6b2025-01-24T02:29:00ZengAIMS PressMathematical Biosciences and Engineering1551-00182014-08-011161431144810.3934/mbe.2014.11.1431Effects of elongation delay in transcription dynamicsXuan Zhang0Huiqin Jin1Zhuoqin Yang2Jinzhi Lei3School of Mathematics and Systems Science, Beihang University, Beijing 100191Zhou Pei-Yuan Center for Applied Mathematics, Tsinghua University, Beijing 100084School of Mathematics and System Sciences and LMIB, Beihang University, Beijing, 100191Zhou Pei-Yuan Center for Applied Mathematics, MOE Key Laboratory of Bioinformatics, Tsinghua University, Beijing 100084In the transcription process, elongation delay is induced by the movement of RNA polymerases (RNAP) along the DNA sequence, and can result in changes in the transcription dynamics. This paper studies the transcription dynamics that involved the elongation delay and effects of cell division and DNA replication. The stochastic process of gene expression is modeled with delay chemical master equation with periodic coefficients, and is studied numerically through the stochastic simulation algorithm with delay. We show that the average transcription level approaches to a periodic dynamics over cell cycles at homeostasis, and the elongation delay can reduce the transcription level and increase the transcription noise. Moreover, the transcription elongation can induce bimodal distribution of mRNA levels that can be measured by the techniques of flow cytometry.https://www.aimspress.com/article/doi/10.3934/mbe.2014.11.1431flow cytometry.delaygene expressionstochastic simulationtranscription |
| spellingShingle | Xuan Zhang Huiqin Jin Zhuoqin Yang Jinzhi Lei Effects of elongation delay in transcription dynamics Mathematical Biosciences and Engineering flow cytometry. delay gene expression stochastic simulation transcription |
| title | Effects of elongation delay in transcription dynamics |
| title_full | Effects of elongation delay in transcription dynamics |
| title_fullStr | Effects of elongation delay in transcription dynamics |
| title_full_unstemmed | Effects of elongation delay in transcription dynamics |
| title_short | Effects of elongation delay in transcription dynamics |
| title_sort | effects of elongation delay in transcription dynamics |
| topic | flow cytometry. delay gene expression stochastic simulation transcription |
| url | https://www.aimspress.com/article/doi/10.3934/mbe.2014.11.1431 |
| work_keys_str_mv | AT xuanzhang effectsofelongationdelayintranscriptiondynamics AT huiqinjin effectsofelongationdelayintranscriptiondynamics AT zhuoqinyang effectsofelongationdelayintranscriptiondynamics AT jinzhilei effectsofelongationdelayintranscriptiondynamics |