Fig. 3

CircRNA internal structure and expression were regulated upon HOG differentiation. a CARP identified circRNA isoform switching events upon HOG differentiation. Blue and red dots represent short to long isoform switch and long to short isoform switch, respectively (Student’s t-test, two-tailed and unpaired, P < 0.05). The “inclusion difference” is the difference of “inclusion level” that is calculated based on junction reads count between undifferentiated and differentiated HOG cells. b A 100-bp exon (green) was excluded in circCFAP299 in differentiated HOG cells. c IGV view shows that the cassette exon of circCFAP299 was supported by mapped reads. The novel exon in circCFAP299 was also confirmed by a recent study using the Nanopore-based long reads sequencing method. d DE analysis of circRNAs in undifferentiated and differentiated HOG cells. Orange and blue dots show upregulated and downregulated circRNAs upon HOG differentiation (DESeq2, FDR < 0.05)