HapMonster: A Statistically Unified Approach for Variant Calling and Haplotyping Based on Phase-Informative Reads. - Kaname Kojima; Naoki Nariai; Takahiro Mimori; Yumi Yamaguchi-Kabata; Yukuto Sato; Yosuke Kawai; Masao Nagasaki (AlCoB, 2014)

SVEM: A Structural Variant Estimation Method Using Multi-mapped Reads on Breakpoints. - Tomohiko Ohtsuki; Naoki Nariai; Kaname Kojima; Takahiro Mimori; Yukuto Sato; Yosuke Kawai; Yumi Yamaguchi-Kabata; Tetsuo Shibuya; Masao Nagasaki (AlCoB, 2014)

Estimating copy numbers of alleles from population-scale high-throughput sequencing data. - Takahiro Mimori; Naoki Nariai; Kaname Kojima; Yukuto Sato; Yosuke Kawai; Yumi Yamaguchi-Kabata; Masao Nagasaki (BMC Bioinform., 2015)

HLA-VBSeq: accurate HLA typing at full resolution from whole-genome sequencing data. - Naoki Nariai; Kaname Kojima; Sakae Saito; Takahiro Mimori; Yukuto Sato; Yosuke Kawai; Yumi Yamaguchi-Kabata; Jun Yasuda; Masao Nagasaki (BMC Genom., 2015)

A Bayesian approach for estimating allele-specific expression from RNA-Seq data with diploid genomes. - Naoki Nariai; Kaname Kojima; Takahiro Mimori; Yosuke Kawai; Masao Nagasaki (BMC Genom., 2016)

Time-Series Filtering for Replicated Observations via a Kernel Approximate Bayesian Computation. - Takanori Hasegawa; Kaname Kojima; Yosuke Kawai; Masao Nagasaki (IEEE Trans. Signal Process., 2018)