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Table 3 Methylation-based classification systems and tumor type predictions

From: DNA 5-hydroxymethylcytosine in pediatric central nervous system tumors may impact tumor classification and is a positive prognostic marker

Capper methylation-based classification tool

BS (n)

OxBS (n)

MethPed methylation-based classification tool

BS (n)

OxBS (n)

Glioma

11

9

Glioma

15

18

 Anaplastic pleomorphic xanthoastrocytoma

1

1

 Pilocytic astrocytoma

7

11

 CNS high-grade neuroepithelial tumor with MN1 alteration

1

1

 Glioblastoma

8

7

 Pilocytic astrocytoma

6

6

   

 Glioma, IDH mutant

1

1

   

 Low-grade glioma, dysembryoplastic neuroepithelial tumor

2

    

Ependymoma

5

4

Ependymoma

5

5

 Ependymoma, myxopapillary

1

1

   

 Ependymoma, posterior fossa group A

3

2

   

 Ependymoma, RELA fusion

1

1

   

Embryonal

4

4

Embryonal

6

4

 Medulloblastoma group 3 and 4

4

4

 Medulloblastoma SHH

1

1

 Medulloblastoma group 3 and 4

4

3

 Embryonal tumor with multilayered rosettes

1

 

Undefined

7

10

Undefined

1

0

 Not defined

6

6

   

 Control tissue

1

    

 Plexus tumor

 

3

   

 CNS neuroblastoma with FOXR2 activation

 

1

   
  1. aSample IDAT files from both BS and OxBS-treated tissues were submitted to methylation-based CNS tumor classification systems: molecular neuropathology and MethPed. The table above demonstrates how classifications switched in pediatric tumors based on the classification system and the files submitted