Nucleosome positioning - Transient Depletion and Recovery of the Essential RSC Chromatin Remodeling Complex [MNase-Seq]

we use an induced degron system to study how rapid clearance of ATP-dependent chromatin remodelers affect nucleosome locations. 1. Screening eight remodelers 2. depletion of Sth1 leads to rapid and reversible fill-in of nucleosome-free regions at gene promoters. 3. changes at depletion and recovery do not depend on major chromatin reassembly during DNA replication. 4. RSC is crucial in maintaining open promoters of low expressed genes. RSC is not directly required for an acute transcriptional response. 5. Changes in nucleosome positions are tightly related to the specific TSS usage at promoters. We use in induced degron system in several experiments: 1. screen experiment 2. sth1 depletion experiment 3. sth1 recovery experiment 4. replication arrest experiment 5. stress response experiment. In most experiments we used both RNA seq and Mnase seq data.