How big are TAD boundaries?
I have .bed files for TADs from experiments on neuronal fetal tissue downloaded from GEO (GSE77565). I need to extract the boundaries and I am not sure how long they should be. Is it ok to take 5kb flanks as you do for CCD boundaries?
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annamariabugaj •
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1 answer
In Hi-C experiments, the boundary size is usually equal to the bin size.
The genome is split into bins. Each bin is assigned a boundary score. The bins with local maximum boundary scores become the boundaries and separate the neighboring TADs. Thus, each bin is either in a specific TAD or is a boundary.
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