NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE81107 Query DataSets for GSE81107
Status Public on Oct 25, 2016
Title Tail and Kinase Modules Differently Regulate Core Mediator Recruitment and Function In Vivo
Organism Saccharomyces cerevisiae
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary Mediator is a highly conserved transcriptional coactivator organized into four modules, namely Tail, Middle, Head and Kinase (CKM). Previous work suggests regulatory roles for Tail and CKM, but an integrated model for these activities is lacking. Here, we analyzed the genome-wide distribution of Mediator subunits in wild-type and mutant yeast cells in which RNA polymerase II promoter escape is blocked allowing detection of transient Mediator forms. We found that while all modules are recruited to upstream activated regions (UAS), assembly of Mediator within the pre-initiation complex is accompanied by the release of CKM. Interestingly, our data show that CKM regulates Mediator-UAS interaction rather than Mediator-promoter association. In addition, while Tail is required for Mediator recruitment to UAS, Tail-less Mediator nevertheless interacts with core promoters. Collectively, our data suggest that the essential function of Mediator is mediated by Head and Middle at core promoters, while Tail and CKM play regulatory roles.
 
Overall design We took a systematic approach to examine the genome-wide distribution (using ChIP-chip) of various Mediator subunits in WT, kin28as, med13Δ, med3Δ/med15Δ, med13Δ/kin28as and med3Δ/med15Δ/kin28as cells. Mediator ChIPs were performed with Myc/FLAG/HA-tagged subunits. ChIPs (in Cy5) were hybridyzed against a control ChIP sample from an isogenic non-tagged strain (in Cy3). In addition to Mediator ChIPs, the project includes TFIIB ChIP-chip datasets in WT, med3Δ/med15Δ and med18(srb5)-AA cells. All ChIP-chip experiments were done in duplicates. Each microarray was normalized using the Lima Loess and replicates were combined using a weighted average method as previously described (Pokholok et al., 2005).
 
Contributor(s) Jeronimo C, Langelier M, Bataille AR, Pascal JM, Pugh BF, Robert F
Citation(s) 27773677
Submission date May 04, 2016
Last update date Aug 30, 2018
Contact name Francois Robert
E-mail(s) francois.robert@ircm.qc.ca
Organization name IRCM
Lab Chromatin and Genomic Expression
Street address 110 av des Pins Ouest
City Montreal
State/province QC
ZIP/Postal code H2W 1R7
Country Canada
 
Platforms (1)
GPL18340 Agilent-034462 Yeast_4x180K
Samples (86)
GSM2142967 yFR1888vsFR762-WT_15minNAPP1_Rox3-Med19-18MYCvsUntagged_rep1
GSM2142968 yFR1888vsFR762-WT_15minNAPP1_Rox3-Med19-18MYCvsUntagged_rep2
GSM2142969 yFR1889vsFR763-kin28as_15minNAPP1_Rox3-Med19-18MYCvsUntagged_rep1
Relations
BioProject PRJNA320535

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
GSE81107_RAW.tar 3.8 Gb (http)(custom) TAR (of GPR)
GSE81107_SmthBED_yFR117_WT_TFIIBvsInput_EtOH_20160314_rep1-2_S.cerevisiaeApr11_353805.bed.gz 8.5 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1321_WT-AA_90minRapamycin_TFIIBvsInput_20160208_rep1-2_S.cerevisiaeApr11_589437.bed.gz 8.5 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1325_Srb5-AA_90minRapamycin_TFIIBvsInput_20160208_rep1-2_S.cerevisiaeApr11_404980.bed.gz 8.4 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1636vsFR762_Gal11-9MYCvsNoTag_KIN28_15minNAPP1_20160331_rep1-2_S.cerevisiaeApr11_399502.bed.gz 8.3 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1636vsFR762_Med15-9MYCvsNoTag_WT_20160715_rep1-2__S.cerevisiaeApr11_24536.bed.gz 8.3 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1638vsFR763_Gal11-9MYCvsNoTag_kin28as_15minNAPP1_20160331_rep1-2_S.cerevisiaeApr11_614092.bed.gz 8.5 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1685vs762_Srb10-Cdk8-9MYC_WT_MYCvsNotag_20160406_rep1-2_S.cerevisiaeApr11_12746.bed.gz 8.2 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1888vsFR762-WT_15minNAPP1_Rox3-Med19-18MYCvsUntagged_rep1-2_S.cerevisiaeApr11_349724.bed.gz 8.2 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1889vsFR763-kin28as_15minNAPP1_Rox3-Med19-18MYCvsUntagged_rep1-2_S.cerevisiaeApr11_3919.bed.gz 8.6 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1896vsFR762-WT_15minNAPP1_Rgr1-Med14-13MYCvsUntagged_rep1-2_S.cerevisiaeApr11_29443.bed.gz 8.2 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1897vsFR762-WT_15minNAPP1_Srb6-Med22-13MYCvsUntagged_rep1-2_S.cerevisiaeApr11_643381.bed.gz 8.2 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1898vsFR762-WT_15minNAPP1_Srb9-Med13-FLAGvsUntagged_rep1-2_S.cerevisiaeApr11_201214.bed.gz 8.3 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1900vsFR762-KIN28_Med7-13MYCvsUntagged_15minNAPP1_20160129_rep1-2_S.cerevisiaeApr11_131621.bed.gz 8.3 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1900vsFR762-WT_15minNAPP1_Med7-13MYCvsUntagged_rep1-2_S.cerevisiaeApr11_644870.bed.gz 8.2 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1901vsFR763-kin28as_15minNAPP1_Srb6-Med22-13MYCvsUntagged_20151012_rep2-3_S.cerevisiaeApr11_34039.bed.gz 8.5 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1902vsFR763-kin28as_15minNAPP1_Med7-13MYCvsUntagged_rep1-2_S.cerevisiaeApr11_398296.bed.gz 8.5 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1902vsFR763-kin28as_Med7-13MYCvsUntagged_15minNAPP1_20160129_rep1-2_S.cerevisiaeApr11_407586.bed.gz 8.6 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1902vsFR763_Med7-13MYCvsNoTag_kin28as_15minNAPP1_20160406_rep1-2_S.cerevisiaeApr11_577886.bed.gz 8.5 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1903vsFR763-kin28as_15minNAPP1_Rgr1-Med14-13MYCvsUntagged_rep1-2_S.cerevisiaeApr11_824063.bed.gz 8.4 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1904vsFR762-WT_15minNAPP1_Srb11-CycC-3FlagvsUntagged_20150316_rep1-2_S.cerevisiaeApr11_715610.bed.gz 8.2 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1905vsFR762-WT_15minNAPP1_Srb10-Cdk8-3FlagvsUntagged_20150316_rep1-2_S.cerevisiaeApr11_139867.bed.gz 8.2 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1908vsFR762-WT_15minNAPP1_Srb4-Med17-3HAvsUntagged_rep1-2_S.cerevisiaeApr11_647158.bed.gz 8.4 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1912vsFR763-kin28as_15minNAPP1_Srb9-Med13-FLAGvsUntagged_rep1-2_S.cerevisiaeApr11_46763.bed.gz 8.3 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1916vsFR763-kin28as_15minNAPP1_Srb4-Med17-3HAvsUntagged_rep1-2_S.cerevisiaeApr11_237668.bed.gz 8.6 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1937vsFR763-kin28as_15minNAPP1_Srb10-Cdk8-3FlagvsUntagged_20150316_rep1-2_S.cerevisiaeApr11_627601.bed.gz 8.3 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR1938vsFR763-kin28as_15minNAPP1_Srb11-CycC-3FlagvsUntagged_20150316_rep1-2_S.cerevisiaeApr11_553303.bed.gz 8.3 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2102vsFR2107_Gal11-9MYCvsNoTag_KIN28med13D_15minNAPP1_20160331_rep1-2_S.cerevisiaeApr11_217747.bed.gz 8.3 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2109vsFR2108_Gal11-9MYCvsNoTag_kin28asmed13D_15minNAPP1_20160331_rep1-2_S.cerevisiaeApr11_61216.bed.gz 8.5 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2183vsFR763-kin28as_15minNAPP1_Med8-9MYCvsNoTag_20151012_rep3-4_S.cerevisiaeApr11_975386.bed.gz 8.5 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2184vsFR763-kin28as_15minNAPP1_Med6-18MYCvsNoTag_20151012_rep3-4_S.cerevisiaeApr11_366314.bed.gz 8.5 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2185vsFR763-kin28as_15minNAPP1_Med16-Sin4-18MYCvsNoTag_20151012_rep3-4_S.cerevisiaeApr11_943117.bed.gz 8.5 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2186vsFR762-WT_15minNAPP1_Med8-9MYCvsNoTag_20151012_rep3-4_S.cerevisiaeApr11_150444.bed.gz 8.2 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2187vsFR762-WT_15minNAPP1_Med6-18MYCvsNoTag_20151012_rep3-4_S.cerevisiaeApr11_898611.bed.gz 8.2 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2188vsFR762-WT_15minNAPP1_Med16-Sin4-18MYCvsNoTag_20151012_rep3-4_S.cerevisiaeApr11_871273.bed.gz 8.2 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2200_TailD_TFIIBvsInput_EtOH_20160314_rep1-2_S.cerevisiaeApr11_474653.bed.gz 8.5 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2264vsFR2274_KIN28-deltaTail_Med7-13MYCvsUntagged_15minNAPP1_20160129_rep1-2_S.cerevisiaeApr11_251333.bed.gz 8.2 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2269vsFR2275_kin28as-deltaTail_Med7-13MYCvsUntagged_15minNAPP1_20160129_rep1-2_S.cerevisiaeApr11_840812.bed.gz 8.5 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2286vsFR117-WT_Srb10-Cdk8-3FLAGvsNoTag_20160202_rep1-2_S.cerevisiaeApr11_160525.bed.gz 8.3 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2287vsFR2263-med13D_Srb10-Cdk8-3FLAGvsNotag_20160202_rep1-2_S.cerevisiaeApr11_16218.bed.gz 8.2 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2355vsFR2107_Med7-13MYCvsNoTag_KIN28med13D_15minNAPP1_20160406_rep1-2_S.cerevisiaeApr11_35740.bed.gz 8.4 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2356vsFR2108_Med7-13MYCvsNoTag_kin28asmed13D_15minNAPP1_20160406_rep1-2_S.cerevisiaeApr11_780120.bed.gz 8.6 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2362vs2274_Srb10-Cdk8-9MYC_med3Dmed15D_MYCvsNotag_20160406_rep1-2_S.cerevisiaeApr11_588100.bed.gz 8.2 Mb (ftp)(http) BED
GSE81107_SmthBED_yFR2492vsFR2491_Med15-9MYCvsNoTag_cdk8D290A_20160715_rep1-2__S.cerevisiaeApr11_543849.bed.gz 8.4 Mb (ftp)(http) BED
Processed data included within Sample table
Processed data are available on Series record
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap