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| Status |
Public on Jun 12, 2013 |
| Title |
DNA methylation data from pilocytic astrocytoma tumor samples and normal cerebellum controls |
| Organism |
Homo sapiens |
| Experiment type |
Methylation 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 map the global DNA methylation profiles of these tumors, we analysed 61 PAs and 6 normal cerebellum samples using Illumina's Infinium HumanMethylation450 BeadChips. 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. Integration with transcriptome microarray data highlighted significant expression differences, which were unexpectedly associated with a strong positive correlation between methylation and expression. Differentially methylated probes were often identified within the gene body and/or regions up- or downstream of the gene, rather than at the transcription start site. We also identified a large number of differentially methylated genes between cerebellar PAs and normal cerebellum, which included additional developmental genes.
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| Overall design |
Bisulphite converted DNA from 61 PA tumours (fresh frozen) and 6 normal cerebellum (from commerical sources) were hybridised to the Illumina Infinium HumanMethylation450 BeadChips.
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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 |
| Submission date |
Feb 26, 2013 |
| Last update date |
Mar 22, 2019 |
| Contact name |
Sally R Lambert |
| E-mail(s) |
sally_lambert40@hotmail.com
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| Organization name |
Queen Mary, University of London
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| Department |
Centre for Cutaneous Research
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| Street address |
Blizard Institute, 4 Newark Street
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| City |
London |
| ZIP/Postal code |
E1 2AT |
| Country |
United Kingdom |
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| Platforms (1) |
| GPL13534 |
Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482) |
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| Samples (67)
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| Relations |
| BioProject |
PRJNA190897 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE44684_RAW.tar |
183.1 Mb |
(http)(custom) |
TAR |
| GSE44684_beta.txt.gz |
137.5 Mb |
(ftp)(http) |
TXT |
| GSE44684_signals.txt.gz |
284.8 Mb |
(ftp)(http) |
TXT |
| Processed data included within Sample table |
| Processed data are available on Series record |
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