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Series GSE114172 Query DataSets for GSE114172
Status Public on Feb 27, 2019
Title Molecular basis of neuronal subtype bias introduced by proneural factors Ascl1 and Neurog2 (ChIP-seq)
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Basic helix-loop-helix (bHLH) proneural transcription factors (TFs) Ascl1 and Neurog2 are integral to the development of the nervous system. Here, we investigated the molecular mechanisms by which Ascl1 and Neurog2 control the acquisition of generic neuronal fate and impose neuronal subtype identity. Using direct neuronal programming of embryonic stem cells, we found that Ascl1 and Neurog2 regulate distinct targets by binding to largely different sets of sites. Their divergent binding pattern is not determined by the previous chromatin state but distinguished by specific E-box enrichments which reflect the DNA sequence preference of the bHLH domain. The divergent Ascl1 and Neurog2 binding patterns result in distinct chromatin accessibility and enhancer activity landscapes that shape the binding and activity of downstream TFs during neuronal specification. Our findings suggest that proneural factors contribute to neuronal diversity by differentially altering the chromatin landscapes that shape the binding of neuronally expressed TFs.
Overall design ChIP-seq was used to characterize transcription factor binding upon overexpression of Ascl1 and Neurog2 in mouse embryonic stem cells. Input (no IP) was used as control.
Contributor(s) Aydin B, Kakumanu A, Rossillo MG, Moreno-Estelles M, Ringstad N, Flames N, Mahony S, Mazzoni EO
Citation(s) 31086315, 33413545
Submission date May 08, 2018
Last update date Jan 11, 2021
Contact name Shaun Mahony
Phone 814-865-3008
Organization name Penn State University
Department Biochemistry & Molecular Biology
Lab Shaun Mahony
Street address 404 South Frear Bldg
City University Park
State/province PA
ZIP/Postal code 16802
Country USA
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (31)
GSM3136828 ChIPseq Ascl1 in EB+12hrDox(iAscl1.V5) replicate 1
GSM3136829 ChIPseq Ascl1 in EB+12hrDox(iAscl1.V5) replicate 2
GSM3136830 ChIPseq Ascl1 in EB+12hrDox(iAscl1.V5) replicate 3
This SubSeries is part of SuperSeries:
GSE114176 Molecular basis of neuronal subtype bias introduced by proneural factors Ascl1 and Neurog2
BioProject PRJNA467527
SRA SRP144960

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE114172_Ascl1_Ngn2_06042017_EB+12hr_iA_Ascl1.bed.gz 193.3 Kb (ftp)(http) BED 734.3 Kb (ftp)(http) TXT
GSE114172_Ascl1_Ngn2_06042017_EB+12hr_iA_N_Ascl1_Ngn2_.bed.gz 194.4 Kb (ftp)(http) BED 630.8 Kb (ftp)(http) TXT
GSE114172_Ascl1_Ngn2_06042017_EB+12hr_iN_Ngn2.bed.gz 263.4 Kb (ftp)(http) BED 1021.1 Kb (ftp)(http) TXT
GSE114172_Ascl1_Ngn2_12_and_48_14112017_EB+48hr_iA_Ascl1.bed.gz 205.7 Kb (ftp)(http) BED 917.7 Kb (ftp)(http) TXT
GSE114172_Ascl1_Ngn2_12_and_48_14112017_EB+48hr_iN_Ngn2.bed.gz 442.1 Kb (ftp)(http) BED 2.0 Mb (ftp)(http) TXT
GSE114172_Brn2_14112017_multigps_Brn2_iAscl1_48hr.bed.gz 232.0 Kb (ftp)(http) BED 1.0 Mb (ftp)(http) TXT
GSE114172_Brn2_14112017_multigps_Brn2_iNgn2_48hr.bed.gz 100.9 Kb (ftp)(http) BED 467.8 Kb (ftp)(http) TXT
GSE114172_Ebf2_26012018_multigps_Ebf2_iAscl1_48hr.bed.gz 444.8 Kb (ftp)(http) BED 1.3 Mb (ftp)(http) TXT
GSE114172_Ebf2_26012018_multigps_Ebf2_iNgn2_48hr.bed.gz 570.8 Kb (ftp)(http) BED 1.7 Mb (ftp)(http) TXT
GSE114172_Onecut2_26012018_multigps_Onecut2_iAscl1_48hr.bed.gz 513.6 Kb (ftp)(http) BED 1.5 Mb (ftp)(http) TXT
GSE114172_Onecut2_26012018_multigps_Onecut2_iNgn2_48hr.bed.gz 915.0 Kb (ftp)(http) BED 2.5 Mb (ftp)(http) TXT
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