From Molecular Dynamics to Systems Biology: A Multi-scale Approach Tightly Integrating Simulation and Experiment to Quantitatively Analyze the Transcription Accuracy of RNA Polymerase II

Professor Li, Xuechen   (Co-Principal Investigator (Co-PI) (for projects led by other university))

Professor Huang Xuhui   (Project coordinator)

36

2016-06-30

600000

From Molecular Dynamics to Systems Biology: A Multi-scale Approach Tightly Integrating Simulation and Experiment to Quantitatively Analyze the Transcription Accuracy of RNA Polymerase II

Markov State Models, Molecular Dynamics, RNA Polymerase II, Transcription fidelty, Transcriptome

Gene Regulation,Bioinformatics, Systems and Synthetifc Biology

Physical Sciences (P)

C6009-15G

Collaborative Research Fund (CRF) - Group Research Project

2015

Completed

1. To elucidate structural dynamics of critical conformational changes during Pol II elongation. 2. To construct sequence-dependent kinetic network models for complete Pol II elongation cycles. 3. To apply kinetic network models to identify hot-spot sequence motifs with high transcription errors from the yeast transcriptome. To link these error prone sequence motifs with dynamics of specific Pol II conformational changes using Pol II mutant libraries. 4. To apply kinetic network models to investigate the hot spots for transcriptional mutations caused by human Pol II in the transcriptome.