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. 2015 Apr 29;2:15015. doi: 10.1038/mtm.2015.15

Figure 3.

Figure 3

Over-representation of γ-retroviral vector integration sites (ISs) at coding genes. (a) Overrepresentation values relative to random sites were calculated for proportions of ISs falling within ±100 kb of the transcription start site (TSS) of each known coding gene. A subset of oncogenes was extracted from this list of genes, leaving “other coding genes” (n = 17,822). Oncogenes associated with hematological malignancies were designated “hematological oncogenes” (n = 89), leaving “other oncogenes” (n = 1,852). All comparisons of mean overrepresentation values showed statistical support of differences (independent t-tests, P < 0.05), except where indicated. Error bars indicate the standard errors of the means. (b) Genes exhibiting higher integration frequency under either P or L transduction conditions. Numbers of genes where IS counts within TSS ±100 kb in one dataset statistically outnumber counts in the other dataset (one-sided Fisher’s exact test, P < 0.05) are shown in the internal circles. (c) Coordinates of P(54k) (size-matched for L) and L ISs falling within 100 kb of the LMO2 TSS are shown (http://genome.ucsc.edu). The region within 5 kb of the LMO2 TSS is boxed.