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Provides a probabilistic model for de novo DNA motif pair discovery on paired sequences. MotifHyades is more accurate than the previous ad hoc computational pipeline for DNA motif pair discovery. In particular, the de novo nature can enable to discover novel motif pairs on the rapidly growing chromatin interaction and genome segmentation datasets. In addition, MotifHyades was applied to discover thousands of DNA motif pairs with higher gold standard motif matching ratio, higher DNase accessibility and higher evolutionary conservation than the previous ones in the human K562 cell line.

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MotifHyades classification

MotifHyades specifications

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Computer skills:
Command line interface
Operating system:
Unix/Linux, Windows

MotifHyades distribution


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MotifHyades support



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Department of Computer Science, City University of Hong Kong, Kowloon Tong, Hong Kong

Funding source(s)

Supported by a grant from City University of Hong Kong (CityU Project No 7200444/CS); an Amazon Web Service (AWS) Research Grant; a Microsoft Azure Research Award; and an Early Career Scheme grant from Research Grant Council (CityU Project No. 9048072 and RGC Project No. 21200816) in Hong Kong.

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