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Series GSE86788 Query DataSets for GSE86788
Status Public on Sep 26, 2017
Title Actively translating transcriptome (Ribotag) profiling of mouse retinal endothelial cells during postnatal development
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Angiogenesis, a process mediating the expansion of vascular beds in many physiological and pathological settings, requires dynamic changes in endothelial cell (EC) behavior. The molecular mechanisms governing EC activity during different phases of vascular growth, remodeling, maturation, and quiescence remain elusive. Here, we have employed actively translating transcriptome analysis of mouse retinal ECs for the characterization of dynamic gene expression changes during postnatal development and the identification of critical angiogenic factors. In silico computational analyses of these data enabled the identification of candidate regulators controlling EC behavior at different developmental checkpoints. The detailed characterization of Mafb, one of the identified candidates, established that this transcription factor controls endothelial sprouting in vitro and in vivo. Integrative analysis of RNA-Seq and ChIP-Seq data defined putative direct Mafb targets, which are repressed or activated by the transcriptional regulator. Together, our results identify novel cell-autonomous regulatory mechanisms controlling sprouting angiogenesis.
Overall design 2 retinas from a mouse were used for single library / 3 biological replicates (individual mouse) per sample / 5 developmental stages of P6, P10, P15, P21 and P50 / EC-specific Mafb conditional KO
Contributor(s) Jeong H, Adams RH
Citation(s) 28959057
Submission date Sep 09, 2016
Last update date May 15, 2019
Contact name Hyun-Woo Jeong
Phone +4917631115236
Organization name Max-Planck-Institute for Molecular Biomedicine
Department Dept. Tissue Morphogenesis
Lab Adams
Street address Roentgenstr.20
City Muenster
State/province NRW
ZIP/Postal code 48149
Country Germany
Platforms (1)
GPL16417 Illumina MiSeq (Mus musculus)
Samples (20)
GSM2308724 P6_rEC_rep1
GSM2308725 P6_rEC_rep2
GSM2308726 P6_rEC_rep3
BioProject PRJNA342498
SRA SRP087891

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE86788_Mafb-HA-ChIP_peaks.txt.gz 67.1 Kb (ftp)(http) TXT
GSE86788_MafbcKO_all_FPKMs.xlsx 998.3 Kb (ftp)(http) XLSX
GSE86788_rEC_all_FPKMs.xlsx 5.6 Mb (ftp)(http) XLSX
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Raw data are available in SRA
Processed data are available on Series record

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