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Series GSE206694 Query DataSets for GSE206694
Status Public on Apr 12, 2023
Title RNA Polymerase II transcription independent of TBP (CUT&Tag)
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Other
Summary Using CUT&Tag, a chromatin profiling technique, we show that TBP depletion via IAA surprisingly does not affect RNA Pol II transcription but affects RNA Pol III transcription. Additionally, induction of genes via heat shock and retinoic acid treatment does not require TBP. We also show that a metazoan specific paralog TRF2 does not compensate for TBP for RNA Pol II transcription and that the TFIID subunit of the Pre-initiation Complex can still form with specific subunits still binding onto DNA when TBP is depleted.
 
Overall design Chromatin profiling was done for Pol II, Pol III, TBP, TAF1, TAF4 and TFIIA in mESCs for control, IAA, HS, HSIAA, RA, RAIAA with at least 2 replicates for each condition
 
Contributor(s) Kwan JZ, Nguyen TF, Uzozie AC, Budzyński MA, Cui J, Lee JM, Van Petegem F, Lange PF, Teves SS
Citation(s) 36995326
Submission date Jun 22, 2022
Last update date Aug 04, 2023
Contact name Sheila Teves
E-mail(s) TevesLab@gmail.com
Organization name Life Science Institute
Department Biochemistry
Lab Teves Lab
Street address 2350 Health Sciences Mall
City Vancouver
State/province BC
ZIP/Postal code V6T 1Ze
Country Canada
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (83)
GSM7114134 mESC RNA Pol II WT run2_rep1
GSM7114135 mESC RNA Pol II WT run2_rep2
GSM7114136 mESC RNA Pol II WT run3_rep1
This SubSeries is part of SuperSeries:
GSE172401 RNA Polymerase II transcription independent of TBP
Relations
BioProject PRJNA851783

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
GSE206694_CUT_Tag_Sequencing_Normalization.txt.gz 7.2 Kb (ftp)(http) TXT
GSE206694_HA-TRF2_vs_Pol2_promoters.xlsx 3.3 Mb (ftp)(http) XLSX
GSE206694_HA-TRF2_vs_TBP_promoters.xlsx 3.1 Mb (ftp)(http) XLSX
GSE206694_Pol2_con_vs_IAA_promoters_filtered.xls.gz 1.3 Mb (ftp)(http) XLS
GSE206694_Pol3_Ctrl_vs_IAA_promoter_filtered.xlsx 55.6 Kb (ftp)(http) XLSX
GSE206694_RAW.tar 2.7 Gb (http)(custom) TAR (of BW)
GSE206694_TBP_Ctrl_vs_IAA_promoters_filtered.xls.gz 705.0 Kb (ftp)(http) XLS
GSE206694_TFIIA_Ctrl_vs_IAA_promoters_filtered.xlsx 2.3 Mb (ftp)(http) XLSX
GSE206694_TFIIA_vs_Pol2_promoters_filter50_pol2.xlsx 2.4 Mb (ftp)(http) XLSX
GSE206694_Taf1_Ctrl_vs_IAA_promoter_filtered.xls.gz 3.3 Mb (ftp)(http) XLS
GSE206694_Taf1_vs_Pol2_promoters_filter50_pol2.xlsx 4.1 Mb (ftp)(http) XLSX
GSE206694_Taf4_Ctrl_vs_IAA_promoters_filtered.xls.gz 795.4 Kb (ftp)(http) XLS
GSE206694_Taf4_vs_Pol2_promoters_filter50_pol2.xlsx 2.1 Mb (ftp)(http) XLSX
GSE206694_Taf4_vs_TFIIA_promoters_filter50x50.xlsx 1.6 Mb (ftp)(http) XLSX
GSE206694_featurecounts_pol2_B8_ctrl_iaa_bam_6hours.txt.gz 1.2 Mb (ftp)(http) TXT
GSE206694_featurecounts_pol2_ctrl_B8_vs_C64_bam.txt.gz 1.1 Mb (ftp)(http) TXT
GSE206694_featurecounts_pol2_ctrl_vs_hs_v2.txt.gz 608.4 Kb (ftp)(http) TXT
GSE206694_featurecounts_pol2_ctrl_vs_iaa_16hours.txt.gz 607.6 Kb (ftp)(http) TXT
GSE206694_featurecounts_pol2_ctrl_vs_iaa_6hours_v2.txt.gz 607.6 Kb (ftp)(http) TXT
GSE206694_featurecounts_pol2_ctrl_vs_ra_v2.txt.gz 608.0 Kb (ftp)(http) TXT
GSE206694_featurecounts_pol2_hs_vs_hsiaa_v2.txt.gz 609.5 Kb (ftp)(http) TXT
GSE206694_featurecounts_pol2_ra_vs_raiaa_v2.txt.gz 608.7 Kb (ftp)(http) TXT
GSE206694_processed_data_readme.txt 8.1 Kb (ftp)(http) TXT
GSE206694_tata_genes_unique.bed.gz 103.0 Kb (ftp)(http) BED
GSE206694_tataless_genes_unique.bed.gz 313.7 Kb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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