G4 detection using HMM

Using hidden Markov models to investigate G-quadruplex motifs in genomic sequences

Last updated: 2016-12-07

C++ and Perl programs

The programs (g4hmm-1.0.0.tar.gz) for running HMM-based methods and regular expression-based method are available.

Data

The positive and negative sequence data (Seq.tar.gz) used in this work are available.
In addition, actual probability parameters used in computational experiments are HMMs_pos50.tar.gz for 50 training sequences and HMMs_pos100.tar.gz for 100 training sequences.

Reference

Masato Yano and Yuki Kato, Using hidden Markov models to investigate G-quadruplex motifs in genomic sequences, BMC Genomics, vol. 15(Suppl 9), S15, Dec. 2014.

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If you have any questions, please contact Yuki Kato
Graduate School of Medicine, Osaka University, Japan