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. 2013 Jun;125(6):913-6.
doi: 10.1007/s00401-013-1126-5. Epub 2013 May 14.

Robust molecular subgrouping and copy-number profiling of medulloblastoma from small amounts of archival tumour material using high-density DNA methylation arrays

Volker Hovestadt, Marc Remke, Marcel Kool, Torsten Pietsch, Paul A Northcott, Roger Fischer, Florence M G Cavalli, Vijay Ramaswamy, Marc Zapatka, Guido Reifenberger, Stefan Rutkowski, Matthias Schick, Melanie Bewerunge-Hudler, Andrey Korshunov, Peter Lichter, Michael D Taylor, Stefan M Pfister, David T W Jones

Robust molecular subgrouping and copy-number profiling of medulloblastoma from small amounts of archival tumour material using high-density DNA methylation arrays

Volker Hovestadt et al. Acta Neuropathol. 2013 Jun.
No abstract available

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Figures

Fig. 1
Fig. 1
a k-means consensus clustering of the Heidelberg fresh-frozen cohort (n = 107) using the 21,092 most variable CpG probes (SD > 0.25) indicates the presence of four major subgroups in the DNA methylation data. b Heatmap of DNA methylation values within the four subgroups derived from the consensus clustering. The gene expression subgroup of the matched samples is indicated below the heatmap. Eight normal cerebellum controls are also shown for comparison. c Concordance chart of the gene expression versus DNA methylation-derived subgroups for each sample. d Multidimensional scaling (MDS) analysis of the same samples and same CpG probes used for the consensus clustering. e Correlation of DNA methylation values derived from fresh-frozen and FFPE material from a single tumour sample. f Heatmap of DNA methylation values across a combined set of the Heidelberg fresh-frozen cohort and the FFPE tumour cohort (n = 276). Patient age and copy-number events derived from the 450k array data are indicated below the heatmap. g Correlation of DNA methylation values from a dilution series of fresh-frozen and FFPE tumour DNA from a single sample. h Copy-number plot of a Group 3 medulloblastoma from the FFPE series, showing stereotypic MYC amplification and i(17q). i Copy-number plot of an SHH medulloblastoma from the FFPE series displaying evidence of dramatic structural changes, reminiscent of chromothripsis
See this image and copyright information in PMC

References

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