Expression analysis of genes targeted by RIS in T-cell clones. Quantitative transcript analysis of genes landed in a 200-kb window around the RV integration site in individual T-cell clones isolated ex vivo from patient 2 (A) and patient 3 (B), as performed by real-time RT-PCR on low-density arrays. Only genes found expressed by the majority of clones (≥ 95%) are depicted. (C) Quantitative PCR analysis of the expression of genes hit by RV integration in randomly selected T-cell clones transduced in vitro. Expression level (y-axis) of each gene (x-axis) hit by the nearby RIS, measured as relative mRNA quantity after normalization for the level of the housekeeping gene GAPDH (ΔCt), is presented as a dot for the target clone(s) and by box-and-whisker plots for all control clones. Box-and-whisker plots illustrate the median, interquartile range, and range that contains the central 95% of the observation and the maximum and the minimum values. Red arrows and dots represent the expression of the dysregulated gene in the T-cell clone containing the RIS and its relative P value.