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Series GSE202645 Query DataSets for GSE202645
Status Public on Jul 01, 2024
Title Identifying the binding sites for miRSome on miR-9 genomic locus with ChIP-seq
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Recent studies have attributed multiple etiological factors for NDDs. miR-9/29a/107 is a key regulator in NDD. Therefore, understanding the upstream regulation of miR-9/29a/107 is critical for NDDs. We have used a unique multi-animal model-CC line that gives greater genetic diversity because miR upstream regulators could involve single or multiple factors. Using mirQTL mapping of CC we identified three candidates-Panx2/Polr1c/Mgea5. We showed that they modulate neuronal differentiation through miR-9. Next, we determined by ChIP that these genes are recruited to the regulatory region of the miR-9 locus. We showed that Panx2 is cleaved by RIP and translocated to the nucleus to interact with Polr1c and Mgea5. ChIP-combined-loop and 3C assays established the interaction on the miR-9 genomic locus through chromatin loops and histone modifications. We also proved that Panx2/Polr1c/Mgea5-miR-9 crosstalk to alter neuronal differentiation. Overall, we established a miRSome complex that govern transcriptional events during adult hippocampal neurogenesis.
 
Overall design Chromatin immunoprecipitation DNA-sequencing (ChIP-seq) for Panx2, Polr1c and Mgea5 in duplicates with treatment and control files
 
Contributor(s) Kuriakose D
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Submission date May 10, 2022
Last update date Jul 01, 2024
Contact name Diji Kuriakose
E-mail(s) diji.kuriakose@monash.edu
Organization name Monash University
Lab ADB
Street address Wellington road
City Melbourne
State/province Victoria
ZIP/Postal code 3800
Country Australia
 
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (8)
GSM6127713 Input_repeat_1
GSM6127714 Input_repeat_2
GSM6127715 Mgea5peaks_treatment_repeat_1
Relations
BioProject PRJNA836876

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
GSE202645_Control_repeat_1.bedgraph.gz 102.1 Mb (ftp)(http) BEDGRAPH
GSE202645_Control_repeat_2.bedgraph.gz 100.8 Mb (ftp)(http) BEDGRAPH
GSE202645_Mgea5peaks_peaks_repeat_1.broadPeak.gz 9.7 Mb (ftp)(http) BROADPEAK
GSE202645_Mgea5peaks_peaks_repeat_2.broadPeak.gz 9.6 Mb (ftp)(http) BROADPEAK
GSE202645_Mgea5peaks_treatment_repeat_1.bedgraph.gz 280.2 Mb (ftp)(http) BEDGRAPH
GSE202645_Mgea5peaks_treatment_repeat_2.bedgraph.gz 407.6 Mb (ftp)(http) BEDGRAPH
GSE202645_Panx2peaks_peaks_repeat_1.broadPeak.gz 2.4 Mb (ftp)(http) BROADPEAK
GSE202645_Panx2peaks_peaks_repeat_2.broadPeak.gz 9.6 Mb (ftp)(http) BROADPEAK
GSE202645_Panx2peaks_treatment_repeat_1.bedgraph.gz 122.1 Mb (ftp)(http) BEDGRAPH
GSE202645_Panx2peaks_treatment_repeat_2.bedgraph.gz 156.8 Mb (ftp)(http) BEDGRAPH
GSE202645_Polr1cpeaks_peaks_repeat_1.narrowPeak.gz 17.3 Kb (ftp)(http) NARROWPEAK
GSE202645_Polr1cpeaks_peaks_repeat_2.narrowPeak.gz 652.6 Kb (ftp)(http) NARROWPEAK
GSE202645_Polr1cpeaks_treatment_repeat_1.bedgraph.gz 147.9 Mb (ftp)(http) BEDGRAPH
GSE202645_Polr1cpeaks_treatment_repeat_2.bedgraph.gz 305.7 Mb (ftp)(http) BEDGRAPH
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Raw data are available in SRA
Processed data are available on Series record

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