Kaname Kojima

According to our database, Kaname Kojima authored at least 23 papers between 2006 and 2020.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2020

A genotype imputation method for de-identified haplotype reference information by using recurrent neural network.

Kaname Kojima, Shu Tadaka, Fumiki Katsuoka, Gen Tamiya, Masayuki Yamamoto, Kengo Kinoshita

PLoS Comput. Biol., 2020

2018

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

2016

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

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

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

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

Proceedings of the Algorithms for Computational Biology - First International Conference, 2014

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

Proceedings of the Algorithms for Computational Biology - First International Conference, 2014

2013

iSVP: an integrated structural variant calling pipeline from high-throughput sequencing data.

Takahiro Mimori, Naoki Nariai, Kaname Kojima, Mamoru Takahashi, Akira Ono, Yukuto Sato, Yumi Yamaguchi-Kabata, Masao Nagasaki

BMC Syst. Biol., 2013

TIGAR: transcript isoform abundance estimation method with gapped alignment of RNA-Seq data by variational Bayesian inference.

Naoki Nariai, Osamu Hirose, Kaname Kojima, Masao Nagasaki

Bioinform., 2013

A statistical variant calling approach from pedigree information and local haplotyping with phase informative reads.

Kaname Kojima, Naoki Nariai, Takahiro Mimori, Mamoru Takahashi, Yumi Yamaguchi-Kabata, Yukuto Sato, Masao Nagasaki

Bioinform., 2013

2012

Functional clustering of time series gene expression data by Granger causality.

André Fujita, Patricia Severino, Kaname Kojima, João Ricardo Sato, Alexandre Galvão Patriota, Satoru Miyano

BMC Syst. Biol., 2012

Identifying regulational alterations in gene regulatory networks by state space representation of vector autoregressive models and variational annealing.

Kaname Kojima, Seiya Imoto, Rui Yamaguchi, André Fujita, Mai Yamauchi, Noriko Gotoh, Satoru Miyano

BMC Genom., 2012

2010

Optimal Search on Clustered Structural Constraint for Learning Bayesian Network Structure.

Kaname Kojima, Eric Perrier, Seiya Imoto, Satoru Miyano

J. Mach. Learn. Res., 2010

Identification of Granger Causality between Gene Sets.

André Fujita, João Ricardo Sato, Kaname Kojima, Luciana Rodrigues Gomes, Masao Nagasaki, Mari Cleide Sogayar, Satoru Miyano

J. Bioinform. Comput. Biol., 2010

Cell Illustrator 4.0: A Computational Platform for Systems Biology.

Masao Nagasaki, Ayumu Saito, Euna Jeong, Chen Li, Kaname Kojima, Emi Ikeda, Satoru Miyano

Silico Biol., 2010

An efficient biological pathway layout algorithm combining grid-layout and spring embedder for complicated cellular location information.

Kaname Kojima, Masao Nagasaki, Satoru Miyano

BMC Bioinform., 2010

A fast and robust statistical test based on likelihood ratio with Bartlett correction to identify Granger causality between gene sets.

André Fujita, Kaname Kojima, Alexandre Galvão Patriota, João Ricardo Sato, Patricia Severino, Satoru Miyano

Bioinform., 2010

Searching Optimal Bayesian Network Structure on Constraint Search Space: Super-Structure Approach.

Seiya Imoto, Kaname Kojima, Eric Perrier, Yoshinori Tamada, Satoru Miyano

Proceedings of the New Frontiers in Artificial Intelligence, 2010

Identifying Hidden Confounders in Gene Networks by Bayesian Networks.

Tomoya Higashigaki, Kaname Kojima, Rui Yamaguchi, Masato Inoue, Seiya Imoto, Satoru Miyano

Proceedings of the 10th IEEE International Conference on Bioinformatics and Bioengineering, 2010

2009

BFL: a node and edge betweenness based fast layout algorithm for large scale networks.

Tatsunori B. Hashimoto, Masao Nagasaki, Kaname Kojima, Satoru Miyano

BMC Bioinform., 2009

2008

Fast grid layout algorithm for biological networks with sweep calculation.

Kaname Kojima, Masao Nagasaki, Satoru Miyano

Bioinform., 2008

2007

An efficient grid layout algorithm for biological networks utilizing various biological attributes.

Kaname Kojima, Masao Nagasaki, Euna Jeong, Mitsuru Kato, Satoru Miyano

BMC Bioinform., 2007

2006

A weight estimation method using LDA for multi-band speech recognition.

Koji Iwano, Kaname Kojima, Sadaoki Furui

Proceedings of the Ninth International Conference on Spoken Language Processing, 2006