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| Status |
Public on Apr 15, 2022 |
| Title |
REST transcription factor holds the balance between the invasion and cell differentiation in IDH-mutant and IDH-wild type gliomas |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
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| Summary |
Glioblastoma is the deadliest brain tumor with median survival of 15 months due to diffusive growth and lack of efficient therapy. Recurrent mutations in genes coding for isocitrate dehydrogenases (IDH) 1 or 2 cause to a change in function of the enzymes, resulting in production of 2-hydroxyglutarate, which leads to DNA hypermethylation phenotype, affecting transcription activators/repressors binding to DNA and gene expression. REST is a canonical repressor of neuronal genes in non-neuronal cells, whose levels differ between IDH wt and mut gliomas and whose expression levels correlate with the patients’ survival probability.
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| Overall design |
IDH1 mutant-U-87 Isogenic Cell Line and malignant glioma U-87 MG were used in the experiments. For each cell line, REST-chromatin immunoprecipitation was performed twice, followed by sequencing and position weight matrix (PWM) analysis. Total RNA was extracted from U-87 MG and IDH1 mutant-U-87 isogenic cell lines that had not been treated, had control siRNA transfected, and had REST-targeting siRNA transfected. Following the construction and sequencing of mRNA sequencing libraries, differential analysis between REST knockdown and control samples was performed.
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| Contributor(s) |
Perycz M, Jardanowska M, Roura AJ, Stepniak K, Gielniewski B, Dabrowski MJ, Kaminska B, Wojtas B |
| Citation missing |
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| Submission date |
May 12, 2021 |
| Last update date |
Apr 16, 2022 |
| Contact name |
Adria-Jaume Roura |
| E-mail(s) |
a.canalda@nencki.edu.pl
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| Organization name |
Nencki Institute of Experimental Biology, Polish Academy of Sciences
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| Street address |
Ludwika Pasteura 3
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| City |
Warsaw |
| ZIP/Postal code |
02-093 |
| Country |
Poland |
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| Platforms (1) |
| GPL18460 |
Illumina HiSeq 1500 (Homo sapiens) |
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| Samples (26)
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| Relations |
| BioProject |
PRJNA729272 |
| SRA |
SRP319405 |
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