Fig. 3: Long-read sequenced INSCRIBE enables mRNA isoform distinctions. | Nature Communications

Fig. 3: Long-read sequenced INSCRIBE enables mRNA isoform distinctions.

From: High-sensitivity in situ capture of endogenous RNA-protein interactions in fixed cells and primary tissues

Fig. 3

a HOMER de novo motif discovery of PacBio sequenced INSCRIBE replicates identified the canonical RBFOX2 motif (UGCAUG), using a cumulative hypergeometric distribution for p values. b Heatmap of editsC (ratio of number of edited Cs relative to the number of Cs across exons and UTRs of isoforms) of individual RNA isoforms from both replicates of RBFOX2-INSCRIBE and enzyme-only controls. c EditsC of example RNA isoforms in gene DEPDC1 and DCUN1D4 from both replicates of RBFOX2-INSCRIBE and enzyme-only control. d Integrative genome viewer (IGV) tracks showing PacBio sequenced RBFOX2-INSCRIBE vs enzyme-only control edits on two isoforms of DCUN1D4 in a 20 kb window, alongside with INSCRIBE read coverage, eCLIP peaks (HEK293T). The short-read sequenced RBFOX2-INSCRIBE vs enzyme-only control edit fractions and the confident edit clusters are shown at the bottom panel for comparison.

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