Teppei Shimamura

Publication Activity (10 Years)

Years Active: 2009-2023
Publications (10 Years): 15

Top Topics

Simulation Models

Gene Regulatory

Association Analysis

Nonnegative Matrix Factorization

Top Venues

J. Comput. Biol.

Publications

Ko Abe, Teppei Shimamura
UNMF: a unified nonnegative matrix factorization for multi-dimensional omics data. Briefings Bioinform. 24 (5) (2023)
Kodai Minoura, Ko Abe, Yuka Maeda, Hiroyoshi Nishikawa, Teppei Shimamura
CYBERTRACK2.0: zero-inflated model-based cell clustering and population tracking method for longitudinal mass cytometry data. Bioinform. 37 (11) (2021)
Ko Abe, Kodai Minoura, Yuka Maeda, Hiroyoshi Nishikawa, Teppei Shimamura
Model-based clustering for flow and mass cytometry data with clinical information. BMC Bioinform. (13) (2020)
Hideko Kawakubo, Yusuke Matsui, Itaru Kushima, Norio Ozaki, Teppei Shimamura
A network of networks approach for modeling interconnected brain tissue-specific networks. Bioinform. 35 (17) (2019)
Kodai Minoura, Ko Abe, Yuka Maeda, Hiroyoshi Nishikawa, Teppei Shimamura
Model-based cell clustering and population tracking for time-series flow cytometry data. BMC Bioinform. (23) (2019)
Ko Abe, Masaaki Hirayama, Kinji Ohno, Teppei Shimamura
ENIGMA: an enterotype-like unigram mixture model for microbial association analysis. BMC Genom. 20 (S2) (2019)
Heewon Park, Teppei Shimamura, Seiya Imoto, Satoru Miyano
Adaptive NetworkProfiler for Identifying Cancer Characteristic-Specific Gene Regulatory Networks. J. Comput. Biol. 25 (2) (2018)
Ko Abe, Masaaki Hirayama, Kinji Ohno, Teppei Shimamura
A latent allocation model for the analysis of microbial composition and disease. BMC Bioinform. (19) (2018)
Yusuke Matsui, Atsushi Niida, Ryutaro Uchi, Koshi Mimori, Satoru Miyano, Teppei Shimamura
phyC: Clustering cancer evolutionary trees. PLoS Comput. Biol. 13 (5) (2017)
Yusuke Matsui, Satoru Miyano, Teppei Shimamura
Tumor Subclonal Progression Model for Cancer Hallmark Acquisition. CIBB (2017)
Teppei Shimamura, Yusuke Matsui, Taisuke Kajino, Satoshi Ito, Takashi Takahashi, Satoru Miyano
GIMLET: Identifying Biological Modulators in Context-Specific Gene Regulation Using Local Energy Statistics. CIBB (2017)
Yusuke Matsui, Masahiro Mizuta, Satoshi Ito, Satoru Miyano, Teppei Shimamura
M: detection of differential distributions of methylation levels. Bioinform. 32 (15) (2016)
Takanori Hasegawa, Atsushi Niida, Tomoya Mori, Teppei Shimamura, Rui Yamaguchi, Satoru Miyano, Tatsuya Akutsu, Seiya Imoto
A likelihood-free filtering method via approximate Bayesian computation in evaluating biological simulation models. Comput. Stat. Data Anal. 94 (2016)
Takanori Hasegawa, Tomoya Mori, Rui Yamaguchi, Teppei Shimamura, Satoru Miyano, Seiya Imoto, Tatsuya Akutsu
Genomic data assimilation using a higher moment filtering technique for restoration of gene regulatory networks. BMC Syst. Biol. 9 (2015)
Satoshi Ito, Yuichi Shiraishi, Teppei Shimamura, Kenichi Chiba, Satoru Miyano
High performance computing of a fusion gene detection pipeline on the K computer. BIBM (2015)
Atsushi Niida, Seiya Imoto, Teppei Shimamura, Satoru Miyano
Statistical model-based testing to evaluate the recurrence of genomic aberrations. Bioinform. 28 (12) (2012)
Shuichi Kawano, Teppei Shimamura, Atsushi Niida, Seiya Imoto, Rui Yamaguchi, Masao Nagasaki, Ryo Yoshida, Cristin G. Print, Satoru Miyano
Identifying Gene Pathways Associated with Cancer Characteristics via Sparse Statistical Methods. IEEE ACM Trans. Comput. Biol. Bioinform. 9 (4) (2012)
Yasuhiro Sogawa, Shohei Shimizu, Teppei Shimamura, Aapo Hyvärinen, Takashi Washio, Seiya Imoto
Estimating exogenous variables in data with more variables than observations. Neural Networks 24 (8) (2011)
André Fujita, João Ricardo Sato, Marcos Angelo Almeida Demasi, Rui Yamaguchi, Teppei Shimamura, Carlos Eduardo Ferreira, Mari Cleide Sogayar, Satoru Miyano
Inferring Contagion in Regulatory Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 8 (2) (2011)
Yasuhiro Sogawa, Shohei Shimizu, Aapo Hyvärinen, Takashi Washio, Teppei Shimamura, Seiya Imoto
Discovery of Exogenous Variables in Data with More Variables Than Observations. ICANN (1) (2010)
Teppei Shimamura, Seiya Imoto, Rui Yamaguchi, Masao Nagasaki, Satoru Miyano
Inferring dynamic gene networks under varying conditions for transcriptomic network comparison. Bioinform. 26 (8) (2010)
Teppei Shimamura, Seiya Imoto, Atsushi Niida, Masao Nagasaki, Rui Yamaguchi, Satoru Miyano
Network profiling analysis for generating modulator-dependent gene networks. BIBM Workshops (2010)
Shuichi Kawano, Teppei Shimamura, Atsushi Niida, Seiya Imoto, Rui Yamaguchi, Masao Nagasaki, Ryo Yoshida, Cristin G. Print, Satoru Miyano
Discovering functional gene pathways associated with cancer heterogeneity via sparse supervised learning. BIBM (2010)
Atsushi Niida, Seiya Imoto, Rui Yamaguchi, Masao Nagasaki, André Fujita, Teppei Shimamura, Satoru Miyano
Model-free unsupervised gene set screening based on information enrichment in expression profiles. Bioinform. 26 (24) (2010)
Teppei Shimamura, Seiya Imoto, Rui Yamaguchi, André Fujita, Masao Nagasaki, Satoru Miyano
Recursive regularization for inferring gene networks from time-course gene expression profiles. BMC Syst. Biol. 3 (2009)