pone.0245526.g002.tif (2.64 MB)

Classification of 30 cases of Stage 4 neuroblastoma based on expression profiles.

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posted on 2021-01-19, 18:41 authored by Shunsuke Kimura, Masahiro Sekiguchi, Kentaro Watanabe, Mitsuteru Hiwatarai, Masafumi Seki, Kenichi Yoshida, Tomoya Isobe, Yusuke Shiozawa, Hiromichi Suzuki, Noriko Hoshino, Yasuhide Hayashi, Akira Oka, Satoru Miyano, Seishi Ogawa, Junko Takita

(A) Unsupervised consensus clustering of total 34 samples (30 neuroblastoma and four normal adrenal glands; GSE93499, GSE88682, GSE88668 [34]) identified two distinct subgroups, MES- and ADRN-clusters. Five cases of MES-cluster neuroblastoma showed similar expression profiles to normal adrenal gland samples. (B) The expression of core genes indicated two subtypes. Normalized expression was calculated from read counts on each gene with DESeq2 software. The P-value was calculated using the Wilcoxon rank-sum test. The mean and 25th and 75th percentiles are represented in the box plots by the midline and box edges, respectively, and whiskers extend to 1.5 times the interquartile range. (C) Supervised hierarchical clustering of 30 neuroblastoma cases using the same gene set used for classification of MES- and ADRN-clusters in previous reports [21, 22]. Pathway analysis with Metascape software by using top 500 differentially expressed genes in (D) ADRN-cluster and (E) MES-cluster. MES, Mesenchymal; ADRN, Noradrenergic.