Figure 9.

Differential expression of transcripts between WT andKlf1 KO. The three volcano plots illustrate the differential expression (DE) between the WT and Klf1 KO samples at either gene or transcript level: (a) DE of all genes. At the gene level, Klf1 globally appears to be an activator since more genes are significantly repressed (334, red points over the positive x-axis) than the activated ones (250, red points over the negative x-axis) after Klf1 is knocked out; (b) DE of all transcripts. At the transcript/isoform level, Klf1 also behaves like an activator since more transcripts are significantly repressed (262) than activated ones (147) after Klf1 is knocked out; (c) DE of the novel lncRNAs. For the 13 DE significant lncRNA transcripts, Klf1 still functions like an activator since 10 lncRNAs are repressed and 3 ones are activated after Klf1 is knocked out. The DE significant transcripts are all represented by red points

Sun et al. BMC Bioinformatics 2012 13:331   doi:10.1186/1471-2105-13-331
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