Skip to main content
. 2022 Jan;32(1):162–174. doi: 10.1101/gr.275784.121

Figure 2.

Figure 2.

Overview of the sequencing result. (A) Summary of sequencing experiments: Experiments were performed, resulting in three data set types: ReCappable-seq (ALL), CIP-treated ReCappable-seq (CIP), and a unenriched control for which the streptavidin step has been omitted (Ct). ALL corresponds to the ReCappable-seq data set without CIP treatment and defines 42,988 candidate TSSs. Comparison of ALL with Ct enables the definition of 38,737 high-confidence (HC) TSSs. Comparison of HC with CIP enables the definition of HC Pol II TSSs (33,468) and the HC non–Pol II TSSs (5269). (B) Candidate TSS positions (42,988) are distributed according to the TPM ratio between ALL and Ct (x-axis) and the TPM ratio between ALL and CIP (y-axis). Dotted lines define four quadrants as follows: ALL ÷ CIP less than four (Pol II TSS), ALL ÷ CIP above or equal to four (non–Pol II TSS), ALL ÷ Ct above or equal to one (HC TSS), and ALL ÷ Ct less than one (false-positive TSS). Colors denote the ratio between ALL and CAGE with red (enriched in CAGE relative to ReCappable-seq) and blue (depleted in CAGE relative to ReCappable-seq).