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| Status |
Public on Jan 07, 2020 |
| Title |
A genome-wide view of the de-differentiation of central nervous system endothelial cells in culture |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Vascular endothelial cells (ECs) derived from the central nervous system (CNS) variably lose their unique barrier properties during in vitro culture, hindering the development of robust assays for BBB function, including drug permeability and extrusion assays. In previous work (Sabbagh et al., 2018) we characterized transcriptional and accessible chromatin landscapes of acutely isolated CNS ECs. In this report, we compare transcriptional and accessible chromatin landscapes of acutely isolated CNS ECs versus CNS ECs in short-term in vitro culture. We observe that standard culture conditions are associated with a rapid and selective loss of BBB transcripts and chromatin features, as well as a greatly reduced level of beta-catenin signaling. Interestingly, forced expression of a stabilized derivative of beta-catenin, which in vivo leads to a partial conversion of non-BBB CNS ECs to a BBB-like state, has little or no effect on gene expression or chromatin accessibility in vitro.
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| |
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| Overall design |
RNA-seq and ATAC-seq of primary brain EC culture
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| |
|
| Contributor(s) |
Sabbagh MF, Nathans J |
| Citation(s) |
31913116 |
| |
| Submission date |
Aug 19, 2018 |
| Last update date |
Jan 13, 2020 |
| Contact name |
Mark F Sabbagh |
| E-mail(s) |
msabbag2@jhmi.edu
|
| Organization name |
Johns Hopkins University School of Medicine
|
| Department |
Molecular Biology and Genetics
|
| Lab |
Jeremy Nathans
|
| Street address |
725 North Wolfe Street
|
| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21205 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
| Samples (30)
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| Relations |
| BioProject |
PRJNA486618 |
| SRA |
SRP158892 |
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