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TADBD: a sensitive and fast method for detection of typologically associated domain boundaries
Hongqiang Lyu1, Lin Li1, Zhifang Wu1
1School of Electronic & Information Engineering, Xi'an Jiaotong University, Xi'an 710049, China.
Abstract:
A topologically associated domain (TAD) is a self-interacting genomic block. Detection of TAD boundaries on Hi-C contact matrix is one of the most important issues in the analysis of 3D genome architecture at TAD level. Here, we present TAD boundary detection (TADBD), a sensitive and fast computational method for detection of TAD boundaries on Hi-C contact matrix. This method implements a Haar-based algorithm by considering Haar diagonal template, acceleration via a compact integrogram, multi-scale aggregation at template size and statistical filtering. In most cases, comparison results from simulated and experimental data show that TADBD outperforms the other five methods. In addition, a new R package for TADBD is freely available online.
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