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| Status |
Public on Jun 12, 2013 |
| Title |
Gene expression data from pilocytic astrocytoma tumour samples and normal cerebellum controls |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
Pilocytic astrocytomas (PA) are the most common brain tumor in pediatric patients and can cause significant morbidity, including chronic neurological deficiencies. They are characterized by activating alterations in the mitogen-activated protein kinase (MAPK) pathway, but little else is known about their development. To further define their molecular development, we analysed the global DNA methylation profiles of 61 PAs and 6 normal cerebellum samples and integrated this data with transcriptome profiling. These data revealed two subgroups of PA that separate according to tumor location (infratentorial versus supratentorial), and identified key neural developmental genes that are differentially methylated between the two groups. Significant expression differences were identified for the majority of differentially methylated genes, and these were unexpectedly associated with a strong positive correlation between methylation and expression. We also identified a large number of differentially methylated/expressed genes between cerebellar PAs and normal cerebellum, which included additional developmental genes.
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| Overall design |
Total RNA from 49 PA tumour samples and 9 normal cerebellum samples (from commercial sources) were hybridised to the Affymetrix HG U133 Plus 2.0 microarrays.
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| Contributor(s) |
Lambert SR, Witt H, Hovestadt V, Zucknick M, Kool M, Pearson DM, Korshunov A, Ryzhova M, Ichimura K, Jabado N, Fontebasso A, Lichter P, Pfister SM, Collins VP, Jones DT |
| Citation(s) |
23660940 |
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| Submission date |
Mar 08, 2013 |
| Last update date |
Mar 25, 2019 |
| Contact name |
Marcel Kool |
| E-mail(s) |
[email protected]
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| Phone |
00496221424636
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| Organization name |
German Cancer Research Center
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| Department |
Pediatric Neuro Oncology
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| Street address |
Im Neuenheimer Feld 580
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| City |
Heidelberg |
| ZIP/Postal code |
69120 |
| Country |
Germany |
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| Platforms (1) |
| GPL570 |
[HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array |
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| Samples (58)
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| Relations |
| BioProject |
PRJNA192667 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE44971_RAW.tar |
274.1 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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