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Fig. 4 | Mobile DNA

Fig. 4

From: Transcription coupled repair and biased insertion of human retrotransposon L1 in transcribed genes

Fig. 4

The tendency of L1 de novo insertions in the antisense orientation within genes decreased in the cells deficient in the TCR pathway (CSA- and XPD- cells). a Analysis of the distribution of L1 de novo insertions in the genome of CSA- and CSA+ cells. Bars represent the frequency of de novo L1 insertions in genic and intergenic regions of the genome. The numbers over the bars represent the counts of recovered insertions for each condition. The difference in the genomic repartition of the insertions between CSA+ and CSA- cells is not statistically significant (p = 0.227; Fisher exact test). b Analysis of the orientation of L1 de novo insertions within genes in CSA+ and CSA- cells. Bars represent the frequency of de novo L1 insertions in sense and antisense orientation within genes. The numbers over the bars represent the counts of recovered insertions for each condition. The difference in the counts of sense-oriented vs antisense-oriented recovered L1 insertions between CSA+ and CSA- cells is not statistically significant (p = 0.292; Fisher exact test). c Analysis of the orientation of L1 de novo insertions within genes in TCR proficient (TCR+: HeLa, CSA+, XPD+, XPC-) and deficient (TCR-: XPD-, CSA-) cell lines. Bars represent the frequency of de novo L1 inserts in sense and antisense orientation within genes in TCR+ and TCR- cell lines. The numbers over the bars represent the combinations of the counts of recovered L1 insertions in HeLa, CSA+, XPD+ and XPC- cells (TRC+ cell lines) and in XPD- and CSA- cells (TRC- cell lines). The difference in the counts of sense-oriented vs antisense-oriented recovered L1 insertions between TCR+ and TCR- cell lines is statistically significant (p = 0.049; Fisher exact test)

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