Fig. 4: Statistical analysis of EmbedTAD using in-situ Hi-C data. | Communications Biology

Fig. 4: Statistical analysis of EmbedTAD using in-situ Hi-C data.

From: EmbedTAD Using Graph Embedding and Unsupervised Learning to Identify TADs from High-Resolution Hi-C Data

Fig. 4

A EmbedTAD detects more TADs at 10Kb resolution compared to 5Kb resolution from same organism (GM12878 and CH12LX). B–E TAD Size Distribution at 5Kb and 10Kb resolution using GM12878 and CH12LX. Average TAD size (blue line) of both organisms is nearly same at the same resolution, whereas EmbedTAD discovered larger TAD at 10Kb resolution than at 5Kb resolution. F Box-plot shows TAD size using GM12878 and CH12LX at 5Kb and 10Kb resolution where EmbedTAD showed consistent results between 5Kb and 10Kb resolution. This visualization also validate previous distribution plot prediction. Insulation score (IS) using G GM12878 chromosome 19 and H CH12LX chromosome 18 at 10Kb resolution between 40Mb and 44Mb regions. EmbedTAD's detected TADs are annotated with blue lines (top), line plot shows IS over the region with TAD cutoff threshold and bars indicate currently called TADs (middle), and heatmap with IS score (bottom). Within this region, EmbedTAD showed significant agreement between detected TADs and IS scores.

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