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Predictive long-range allele-specific mapping of regulatory variants and target transcripts

Fig 4

Schematic of predictive allelic mapping using a small number of samples.

In this illustration, the 10 samples in the first 10 rows are used for training and prediction. Over the whole-genome, testable and untestable pairs of regulatory regions and transcripts are collected. The red and blue bars represent the number of allele-specific ChIP-seq or RNA-seq reads. Heterozygotes should have the two bars simultaneously whereas homozygotes should have only one. The prediction outcome is validated by performing allelic tests using additional samples. In this illustration, the remaining 90 samples were used for this purpose. For example, one of the untestable pairs is called positive by Random Forest, and indeed shows allele imbalance in one sample heterozygous for the regulatory region and transcript.

Fig 4

doi: https://doi.org/10.1371/journal.pone.0175768.g004