GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE117006 Query DataSets for GSE117006
Status Public on Sep 14, 2018
Title Dynamic turnover of paused pol II complexes at human promoters
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Paused RNA polymerase II that piles up near most human promoters is the target of mechanisms that control entry into productive elongation. Whether paused pol II is a stable or a dynamic target remains unresolved. We report that most 5’-paused pol II throughout the genome is turned over within 2 minutes. This process is revealed under hypertonic conditions that prevent pol II recruitment to promoters. This turnover requires cell viability but is not prevented by inhibiting transcription elongation suggesting that it is mediated at the level of termination. When initiation was prevented by triptolide during recovery from high salt, a novel pre-initiated state of pol II lacking the pausing factor Spt5 accumulated at transcription start sites. We propose that pol II occupancy near 5’ ends is governed by a cycle of ongoing assembly of pre-initiated complexes that transition to pause sites followed by eviction from the DNA template. This model suggests that mechanisms regulating the transition to productive elongation at pause sites operate on a dynamic population of pol II that is turning over at rates far higher than previously suspected. We suggest that a plausible alternative to elongation control via escape from a stable pause, is by escape from premature termination.
Overall design Initiation of transcription was inhibited by high salt treatment or treatment with triptolide and pol II occupancy was mapped around start sites and within genes by anti-pol II ChIP-seq in HCT116 cells at time points between 2 and 10 minutes afterwards.
Contributor(s) Bentley D, Erickson B
Citation(s) 30150253
Submission date Jul 12, 2018
Last update date Mar 21, 2019
Contact name David Bentley
Phone 3037243237
Organization name UCD AMC
Department BMG
Lab Bentley
Street address 12801 E. 17th Ave, RC1 So. RM 10401D
City Aurora
State/province Colorado
ZIP/Postal code 80045
Country USA
Platforms (2)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (44)
GSM3267255 HCT116_W303_3MB_control_PolII_150622_R1
GSM3267256 HCT116_W303_3MB_NaCl_10_PolII_150622_R1
GSM3267257 HCT116_W303_control_PolII_150822_R2
BioProject PRJNA480845
SRA SRP153173

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE117006_RAW.tar 5.0 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap