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Fig. 3 | BMC Bioinformatics

Fig. 3

From: ECCsplorer: a pipeline to detect extrachromosomal circular DNA (eccDNA) from next-generation sequencing data

Fig. 3

Comparison of results from ECCsplorer with Circle-Map [18] and originally published eccDNA candidates. We reanalyzed data from A. thaliana [12] and H. sapiens [32] using available eccDNA tools, our ECCsplorer and Circle-Map. a Mapping plots from all three approaches (ECCsplorer, Circle-Map and original published data by Lanciano et al. 2017) of (re-) analyzed A. thaliana circSeq data. For each approach, the detected eccDNA candidates have been highlighted in blue with the key eccDNA candidate EVD/ATCOPIA93 shown in orange (experimentally validated: “ground truth”; maximal coverage depth of each individual plot corresponds to 100% relative depth). b Comparison of all three approaches (ECCsplorer, Circle-Map and original published data by Møller et al. 2018) of (re-)analyzed H. sapiens circSeq data. Bars in track 2 represent the detected eccDNA candidate regions by each approach. The connections highlight similar (overlapping) genomic regions detected on chromosome 16 of hg38 (arrow points to eccDNA candidate with high confidence). c Length distribution of by each approach detected eccDNA candidates using A. thaliana circSeq data (1 candidates with low confidence additionally shown in light grey). The ECCsplorer’s high-confidence hits show large overlap to the “ground truth”. d Venn-diagram of similarly detected eccDNA candidates using A. thaliana circSeq data with EVD/ATCOPIA93 candidate overlaps shown in orange. e Length distribution of by each approach detected eccDNA candidates using H. sapiens circSeq data. f Venn-diagram of similarly detected eccDNA candidates using H. sapiens circSeq data. The ECCsplorer shows a larger overlap to the original data than the CircleMap tool; yet “ground truth” data is still lacking

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