High density simulation for transcriptional dynamics

转录动力学的高密度模拟

• 批准号: 22700309
• 负责人: OHTA Yoshihiro
• 金额: $ 2.25万
• 依托单位: The University of Tokyo
• 依托单位国家: 日本
• 项目类别: Grant-in-Aid for Young Scientists (B)
• 财政年份: 2010
• 资助国家: 日本
• 起止时间: 2010 至 2011
• 项目状态: 已结题
• 来源: https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-22700309/
• 关键词: 転写; シミュレーション; RNAPII; RNA; セルオートマトン; バイオインフォマティクス

RNA polymerase II(RNAPII) is the responsible motor protein for transcription. Here we studied the formulation and results of a cellular automaton model of the RNAPII dynamics of gene transcription that takes account the effect of the velocity change according to the gene position, such as occurs in introns and exons. It was found that the RNAPII molecules move as a free-flow state, though regions of reduced velocity do exist such as exons, as far as the time interval between nearest RNAPII molecules is larger than the time required for an RNAPII passing the exclusion length in the velocity reduction region.

RNA聚合酶II（RNAPII）是负责转录的马达蛋白。在这里，我们研究了RNAPII基因转录动力学的元胞自动机模型的制定和结果，该模型考虑了根据基因位置的速度变化的影响，例如发生在内含子和外显子中。据发现，RNAPII分子移动作为一个自由流动的状态，虽然降低速度的区域确实存在，如外显子，只要最近的RNAPII分子之间的时间间隔是大于所需的时间RNAPII通过排除长度在速度降低区域。

项目成果

Active RNA polymerases: mobile or immobile molecular machines?

• DOI: 10.1371/journal.pbio.1000419
• 发表时间: 2010-07-13
• 期刊: PLoS biology
• 影响因子: 9.8
• 作者: Papantonis A;Larkin JD;Wada Y;Ohta Y;Ihara S;Kodama T;Cook PR
• 通讯作者: Cook PR