TY  - JOUR
AU  - Cruzeiro, Gustavo Alencastro Veiga
AU  - Salomão, Karina Bezerra
AU  - de Biagi, Carlos Alberto Oliveira
AU  - Baumgartner, Martin
AU  - Sturm, Dominik
AU  - Lira, Régia Caroline Peixoto
AU  - de Almeida Magalhães, Taciani
AU  - Baroni Milan, Mirella
AU  - da Silva Silveira, Vanessa
AU  - Saggioro, Fabiano Pinto
AU  - de Oliveira, Ricardo Santos
AU  - Dos Santos Klinger, Paulo Henrique
AU  - Seidinger, Ana Luiza
AU  - Yunes, José Andrés
AU  - de Paula Queiroz, Rosane Gomes
AU  - Oba-Shinjo, Sueli Mieko
AU  - Scrideli, Carlos Alberto
AU  - Nagahashi, Suely Marie Kazue
AU  - Tone, Luiz Gonzaga
AU  - Valera, Elvis Terci
TI  - A simplified approach using Taqman low-density array for medulloblastoma subgrouping.
JO  - Acta Neuropathologica Communications
VL  - 7
IS  - 1
SN  - 2051-5960
CY  - London
PB  - Biomed Central
M1  - DKFZ-2019-00812
SP  - 33
PY  - 2019
AB  - Next-generation sequencing platforms are routinely used for molecular assignment due to their high impact for risk stratification and prognosis in medulloblastomas. Yet, low and middle-income countries still lack an accurate cost-effective platform to perform this allocation. TaqMan Low Density array (TLDA) assay was performed using a set of 20 genes in 92 medulloblastoma samples. The same methodology was assessed in silico using microarray data for 763 medulloblastoma samples from the GSE85217 study, which performed MB classification by a robust integrative method (Transcriptional, Methylation and cytogenetic profile). Furthermore, we validated in 11 MBs samples our proposed method by Methylation Array 450 K to assess methylation profile along with 390 MB samples (GSE109381) and copy number variations. TLDA with only 20 genes accurately assigned MB samples into WNT, SHH, Group 3 and Group 4 using Pearson distance with the average-linkage algorithm and showed concordance with molecular assignment provided by Methylation Array 450 k. Similarly, we tested this simplified set of gene signatures in 763 MB samples and we were able to recapitulate molecular assignment with an accuracy of 99.1
LB  - PUB:(DE-HGF)16
C6  - pmid:30832734
C2  - pmc:PMC6398239
DO  - DOI:10.1186/s40478-019-0681-y
UR  - https://inrepo02.dkfz.de/record/143213
ER  -