NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE33677 Query DataSets for GSE33677
Status Public on Jan 20, 2012
Title Forkhead transcription factors establish origin timing and long-range clustering in S. cerevisiae [Sequence Data]
Organism Saccharomyces cerevisiae
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary The replication of eukaryotic chromosomes is organized temporally and spatially within the nucleus through epigenetic regulation of replication origin function. The characteristic initiation timing of specific origins is thought to reflect their chromatin environment or sub-nuclear positioning, however the mechanism remains obscure. Here we show that the yeast Forkhead transcription factors, Fkh1 and Fkh2, are global determinants of replication origin timing. Forkhead regulation of origin timing is independent of local levels or changes of transcription. Instead, we show that Fkh1 and Fkh2 are required for the clustering of early origins and their association with the key initiation factor Cdc45 in G1-phase, suggesting that Fkh1 and Fkh2 selectively recruit origins to emergent replication factories. Fkh1 and Fkh2 bind Fkh-activated origins, and interact physically with ORC, providing a plausible mechanism to cluster origins. These findings add a new dimension to our understanding of the epigenetic basis for differential origin regulation and its connection to chromosomal domain organization.
 
Overall design These files contain BrdU-IP-seq files (2 replicates for each strain; 5 strains total where WT was used as control). These files also contain RNA-seq data from Asynchronous and G1 arrested WT and Mutant cells (2 replicates per strain and condition; paired end). These files also contain RNA-pol-chip-seq data from Asynchronous and G1 arrested WT and Mutant cells (2 replicates per strain/condition).
 
Contributor(s) Knott SR, Peace JM, Ostrow AZ, Gan Y, Rex AE, Viggiani CJ, Tavare S, Aparicio OM
Citation(s) 22265405
Submission date Nov 14, 2011
Last update date May 15, 2019
Contact name Simon Robert Vincent Knott
E-mail(s) sknott@cshl.edu
Organization name Cold Spring Harbor Laboratory
Lab Hannon
Street address 1 Bungtown Rd
City Cold Spring Harbor
State/province NY
ZIP/Postal code 11724
Country USA
 
Platforms (1)
GPL9377 Illumina Genome Analyzer II (Saccharomyces cerevisiae)
Samples (26)
GSM832674 BrdU-IP-seq WT 1
GSM832675 BrdU-IP-seq WT 2
GSM832676 BrdU-IP-seq fkh1Δ 1
This SubSeries is part of SuperSeries:
GSE33704 Forkhead transcription factors establish origin timing and long-range clustering in S. cerevisiae
Relations
BioProject PRJNA154203
SRA SRP009319

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
GSE33677_BrdU_HU_Normalized_Values.txt.gz 4.3 Mb (ftp)(http) TXT
GSE33677_RNA_Seq_Normalized_Values.txt.gz 1.9 Mb (ftp)(http) TXT
GSE33677_Rpb3_chIP_seq_Normalized_Values.txt.gz 3.3 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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