Fig. 1

Expression of HDAC class I genes in EwS. a Gene expression profiles of HDAC class I genes HDAC1, HDAC2, HDAC3, HDAC8 on 27 EwS, 11 osteosarcomas (OS), 5 rhabdomyosarcomas (RMS), 5 synovial sarcomas (SyS), and 25 samples of different normal tissue (NT). Patient RNA were hybridized onto Human Gene ST 1.0 arrays (Affymetrix; GSE45544, GSE73166) and compared to a published microarray study of normal tissue (GSE45544). b Expression of class I HDAC genes in different EwS cell lines determined by qRT-PCR. c Expression of HDAC class I genes are downregulated in EwS cell lines after transient shRNA transfection with EWS-FLi1 specific shRNA (see Materials and methods) measured by qRT-PCR. Control transfectants contained irrelevant shRNAs. Transfectants were treated with doxycycline for 72 h. d Low HDAC class I gene expression correlates with event-free survival: Kaplan-Meier estimates for event-free survival probability for HDAC class I gene expression, using the GSE63157 study set (n = 85) and the amc onco-genomics software tool (https://hgserver1.amc.nl/cgi-bin/r2/main.cgi)