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. 2021 May 27;142(2):339–360. doi: 10.1007/s00401-021-02327-x

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© The Author(s) 2021

Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 3 — FGFR1 and FGFR3 mRNA splice variants in EPN tissue samples and cell models. FGFR1-IIIb and -IIIc as well as FGFR3-IIIb and -IIIc mRNA levels in EPN (a) tissue samples and (b) cell models were determined by qRT-PCR, normalized to the housekeeping gene β-actin (ΔCT), converted to a linear form using 2^−ΔCT and were finally expressed as ratios IIIc/IIIb. FGFR-positive controls (NCI-H1703 and Hep3B) are included. The cohort comprises myxopapillary ependymoma (SP-MPE), spinal ependymoma WHO grade II (SP-EPN), posterior fossa group A (PF-A) and B (PF-B), supratentorial subependymoma (ST-SE), RelA fusion-positive (ST-RELA), and Yap1 fusion-positive (ST-YAP1) ependymomas, medulloblastoma group 3 (MB G3), group 4 (MB G4), sonic hedgehog-activated (MB SHH), wingless-activated (MB WNT), and high-grade glioma (HGG). c Immunoblots depict protein expression and phosphorylation levels 72 h post transfection of the ST-RELA cell models VBT211 and BT165 with siRELA or non-targeting siRNA (siScr). Fold changes of the indicated proteins are given relative to respective siScr controls. d Red and pink peaks represent chromatin immunoprecipitation (ChIP) sequencing read coverage for the activating histone mark H3K27-acetyl (H3K27Ac) and RELA, respectively, at FGFR1 and FGFR3 gene loci. Sequencing reads of two ST-RELA tissue samples (ST-RELA-1 and ST-RELA-2) were mapped to hg19 human genome and visualized utilizing an integrative genome viewer