Fig. 1

LMO1 regulates gene expressions in a tumor-specific manner. a Four independent shRNAs targeting LMO1 (shLMO1 #1, 2, 3, and 4) as well as a control shRNA targeting GFP (shGFP) were transduced by lentivirus infection in two neuroblastoma cell lines (Kelly and SH-SY5Y) and one T-ALL cell line (Jurkat). Whole cell protein extract was harvested after 3 days of virus infection and were subjected to western blot analysis using antibodies specific for LMO1 or α-tubulin (internal control). b Cell viability was measured after 3, 5, 7, and 9 days of lentiviral transduction of shRNA. The growth rate (fold-change) over 9 days compared with day 3 was indicated (n = 3 per group). Data are represented as means ± standard deviation (SD) for technical triplicates. The p values by two-way ANOVA (repeated measurements) followed by Tukey's multiple comparisons post hoc test are indicated. ****p value < 0.0001. ns not significant. c The shRNA targeting LMO1 or control (shGFP) was transduced into Kelly and Jurkat cells by lentiviral infection. Experiments were done in biological duplicates. Total RNAs were harvested after 3 days of infection and were subjected to RNA-seq analysis to compare gene expression profiles between two controls and two LMO1 knockdown (KD) samples. Genes differentially expressed were selected based on the following criteria: adjusted p value < 0.05, log2 fold-change <−0.5 or >0.5, and TPM > 3. A Venn diagram represents the number of genes which were significantly downregulated by LMO1 knockdown in each cell line. d Gene ontology analysis was performed using the gene list selected above. Top ten terms are shown with combined score. The p values by the Fisher exact test are indicated.