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Series GSE119781 Query DataSets for GSE119781
Status Public on Jan 25, 2019
Title Mitotic chromosome binding predicts transcription factor properties in interphase [ATAC-Seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Mammalian transcription factors (TFs) differ broadly in their nuclear mobility and sequence-specific/ non-specific DNA binding affinity. How these properties affect the ability of TFs to occupy their specific binding sites in the genome and modify the epigenetic landscape is unclear. Here we combined live cell quantitative measurements of mitotic chromosome binding (MCB) of 502 TFs, measurements of TF mobility by fluorescence recovery after photobleaching, single molecule imaging of DNA binding in live cells, and genome-wide mapping of TF binding and chromatin accessibility. MCB scaled with interphase properties such as association with DNA-rich compartments, mobility, as well as large differences in genome-wide specific site occupancy that correlated with TF impact on chromatin accessibility. As MCB is largely mediated by electrostatic, non-specific TF-DNA interactions, our data suggests that non-specific DNA binding of TFs enhances their search for specific sites and thereby their impact on the accessible chromatin landscape.
Overall design NIH-3T3 cells overexpressing different transcription factors (or no overexpression control) were subjected to ATAC-seq by Tn5 transposition
Contributor(s) Suter DM, Friman ET
Citation(s) 30700703
Submission date Sep 11, 2018
Last update date Mar 25, 2019
Contact name David Michael Suter
Organization name École polytechnique fédérale de Lausanne
Department Institute of Bioengineering
Street address EPFL SV-IN Station 19
City Lausanne
ZIP/Postal code 1015
Country Switzerland
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (31)
GSM3383675 ATAC WT NIH-3T3
GSM3383676 ATAC BHLHB8 rep1
GSM3383677 ATAC BHLHB8 rep2
This SubSeries is part of SuperSeries:
GSE119784 Mitotic chromosome binding predicts transcription factor properties in interphase
BioProject PRJNA490288
SRA SRP161469

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Supplementary file Size Download File type/resource 139.0 Mb (ftp)(http) BW 234.1 Mb (ftp)(http) BW 143.2 Mb (ftp)(http) BW 234.4 Mb (ftp)(http) BW 157.8 Mb (ftp)(http) BW 242.0 Mb (ftp)(http) BW 131.3 Mb (ftp)(http) BW 229.4 Mb (ftp)(http) BW 158.3 Mb (ftp)(http) BW 241.2 Mb (ftp)(http) BW 131.3 Mb (ftp)(http) BW 229.7 Mb (ftp)(http) BW 133.0 Mb (ftp)(http) BW 230.1 Mb (ftp)(http) BW 121.4 Mb (ftp)(http) BW 225.1 Mb (ftp)(http) BW 135.0 Mb (ftp)(http) BW 231.0 Mb (ftp)(http) BW 136.0 Mb (ftp)(http) BW 231.4 Mb (ftp)(http) BW 139.9 Mb (ftp)(http) BW 234.4 Mb (ftp)(http) BW 123.1 Mb (ftp)(http) BW 225.8 Mb (ftp)(http) BW 139.7 Mb (ftp)(http) BW 232.6 Mb (ftp)(http) BW 176.4 Mb (ftp)(http) BW
GSE119781_RAW.tar 183.0 Mb (http)(custom) TAR (of BW, NARROWPEAK)
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Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

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