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Series GSE111190 Query DataSets for GSE111190
Status Public on Mar 07, 2019
Title 4Cseq analysis of neural stem/progenitor cells (NSC) from wild type and Sox2-deleted mouse neonatal forebrain
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We report the application of 4Cseq technology for the profiling of chromatin interactions in wild type and Sox2-deleted NSC, for 9 different loci (viewpoints): Olig2 promoter, Olig1 promoter, Tcf4 promoter, Kat2b promoter, Sox3 promoter, Stox2 promoter, c-fos 5' enhancer, c-fos 3' enhancer and c-fos promoter.
 
Overall design NSC from wild type and mutant littermates individual mouse forebrains were cultured, and expanded for 3-7 passages (as in Favaro et al., Nature Neuroscience 2009, 12:1248-56, and Zhang et al., Nature 2013, 504:306-10). Cells were fixed as in Zhang et al., 2013, and processed for 4Cseq analysis. For 7 viewpoints analyzed, three wild type and three mutant cultures, each derived from individual P0 brains of littermate mice, were used; for 2 viewpoints analyzed, one wild type and one mutant culture were used.
 
Contributor(s) Zhu Y, Tjong H, Pavesi G
Citation(s) 30849367
Submission date Feb 27, 2018
Last update date May 21, 2019
Contact name Federico Zambelli
Organization name University of Milan
Department Department of Biosciences
Street address Via Giovanni Celoria 26
City Milano
ZIP/Postal code 20133
Country Italy
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (46)
GSM3025035 Wt1 c-Fos enhancer (5-prime) 4Cseq
GSM3025036 Mt1 c-Fos enhancer (5-prime) 4Cseq
GSM3025037 Wt1 c-Fos promoter 4Cseq
This SubSeries is part of SuperSeries:
GSE90561 Sox2 is required for functional chromatin connectivity in brain-derived neural stem cells.
Relations
BioProject PRJNA436135
SRA SRP133580

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
GSE111190_RAW.tar 1.0 Mb (http)(custom) TAR (of BEDGRAPH)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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