Teppei Shimamura

27 papers Journal 21Unranked 6
YearRankTypeTitle / Venue / Authors
2026 J jnl
scSurv: a deep generative model for single-cell survival analysis.
Bioinform.
Chikara Mizukoshi, Yasuhiro Kojima, Shuto Hayashi, Ko Abe, Daisuke Kasugai, Teppei Shimamura
2024 J jnl
LineageVAE: reconstructing historical cell states and transcriptomes toward unobserved progenitors.
Bioinform.
Koichiro Majima, Yasuhiro Kojima, Kodai Minoura, Ko Abe, Haruka Hirose, Teppei Shimamura
2023 J jnl
UNMF: a unified nonnegative matrix factorization for multi-dimensional omics data.
Briefings Bioinform.
Ko Abe, Teppei Shimamura
2021 J jnl
CYBERTRACK2.0: zero-inflated model-based cell clustering and population tracking method for longitudinal mass cytometry data.
Bioinform.
Kodai Minoura, Ko Abe, Yuka Maeda, Hiroyoshi Nishikawa, Teppei Shimamura
2020 J jnl
Model-based clustering for flow and mass cytometry data with clinical information.
BMC Bioinform.
Ko Abe, Kodai Minoura, Yuka Maeda, Hiroyoshi Nishikawa, Teppei Shimamura
2019 J jnl
A network of networks approach for modeling interconnected brain tissue-specific networks.
Bioinform.
Hideko Kawakubo, Yusuke Matsui, Itaru Kushima, Norio Ozaki, Teppei Shimamura
2019 J jnl
ENIGMA: an enterotype-like unigram mixture model for microbial association analysis.
BMC Genom.
Ko Abe, Masaaki Hirayama, Kinji Ohno, Teppei Shimamura
2019 J jnl
Model-based cell clustering and population tracking for time-series flow cytometry data.
BMC Bioinform.
Kodai Minoura, Ko Abe, Yuka Maeda, Hiroyoshi Nishikawa, Teppei Shimamura
2018 J jnl
A latent allocation model for the analysis of microbial composition and disease.
BMC Bioinform.
Ko Abe, Masaaki Hirayama, Kinji Ohno, Teppei Shimamura
2018 J jnl
Adaptive NetworkProfiler for Identifying Cancer Characteristic-Specific Gene Regulatory Networks.
J. Comput. Biol.
Heewon Park, Teppei Shimamura, Seiya Imoto, Satoru Miyano
2017 — conf
GIMLET: Identifying Biological Modulators in Context-Specific Gene Regulation Using Local Energy Statistics.
CIBB
Teppei Shimamura, Yusuke Matsui, Taisuke Kajino, Satoshi Ito, Takashi Takahashi, Satoru Miyano
2017 — conf
Tumor Subclonal Progression Model for Cancer Hallmark Acquisition.
CIBB
Yusuke Matsui, Satoru Miyano, Teppei Shimamura
2017 J jnl
phyC: Clustering cancer evolutionary trees.
PLoS Comput. Biol.
Yusuke Matsui, Atsushi Niida, Ryutaro Uchi, Koshi Mimori, Satoru Miyano, Teppei Shimamura
2016 J jnl
A likelihood-free filtering method via approximate Bayesian computation in evaluating biological simulation models.
Comput. Stat. Data Anal.
Takanori Hasegawa, Atsushi Niida, Tomoya Mori, Teppei Shimamura, Rui Yamaguchi, Satoru Miyano, Tatsuya Akutsu, Seiya Imoto
2016 J jnl
D
Bioinform.
Yusuke Matsui, Masahiro Mizuta, Satoshi Ito, Satoru Miyano, Teppei Shimamura
2015 J jnl
Genomic data assimilation using a higher moment filtering technique for restoration of gene regulatory networks.
BMC Syst. Biol.
Takanori Hasegawa, Tomoya Mori, Rui Yamaguchi, Teppei Shimamura, Satoru Miyano, Seiya Imoto, Tatsuya Akutsu
2015 — conf
High performance computing of a fusion gene detection pipeline on the K computer.
BIBM
Satoshi Ito, Yuichi Shiraishi, Teppei Shimamura, Kenichi Chiba, Satoru Miyano
2012 J jnl
Identifying Gene Pathways Associated with Cancer Characteristics via Sparse Statistical Methods.
IEEE ACM Trans. Comput. Biol. Bioinform.
Shuichi Kawano, Teppei Shimamura, Atsushi Niida, Seiya Imoto, Rui Yamaguchi, Masao Nagasaki, Ryo Yoshida, Cristin G. Print, Satoru Miyano
2012 J jnl
Statistical model-based testing to evaluate the recurrence of genomic aberrations.
Bioinform.
Atsushi Niida, Seiya Imoto, Teppei Shimamura, Satoru Miyano
2011 J jnl
Estimating exogenous variables in data with more variables than observations.
Neural Networks
Yasuhiro Sogawa, Shohei Shimizu, Teppei Shimamura, Aapo Hyvärinen, Takashi Washio, Seiya Imoto
2011 J jnl
Inferring Contagion in Regulatory Networks.
IEEE ACM Trans. Comput. Biol. Bioinform.
André Fujita, João Ricardo Sato, Marcos Angelo Almeida Demasi, Rui Yamaguchi, Teppei Shimamura, Carlos Eduardo Ferreira, Mari Cleide Sogayar, Satoru Miyano
2010 — conf
Discovering functional gene pathways associated with cancer heterogeneity via sparse supervised learning.
BIBM
Shuichi Kawano, Teppei Shimamura, Atsushi Niida, Seiya Imoto, Rui Yamaguchi, Masao Nagasaki, Ryo Yoshida, Cristin G. Print, Satoru Miyano
2010 — conf
Discovery of Exogenous Variables in Data with More Variables Than Observations.
ICANN (1)
Yasuhiro Sogawa, Shohei Shimizu, Aapo Hyvärinen, Takashi Washio, Teppei Shimamura, Seiya Imoto
2010 J jnl
Inferring dynamic gene networks under varying conditions for transcriptomic network comparison.
Bioinform.
Teppei Shimamura, Seiya Imoto, Rui Yamaguchi, Masao Nagasaki, Satoru Miyano
2010 J jnl
Model-free unsupervised gene set screening based on information enrichment in expression profiles.
Bioinform.
Atsushi Niida, Seiya Imoto, Rui Yamaguchi, Masao Nagasaki, André Fujita, Teppei Shimamura, Satoru Miyano
2010 — conf
Network profiling analysis for generating modulator-dependent gene networks.
BIBM Workshops
Teppei Shimamura, Seiya Imoto, Atsushi Niida, Masao Nagasaki, Rui Yamaguchi, Satoru Miyano
2009 J jnl
Recursive regularization for inferring gene networks from time-course gene expression profiles.
BMC Syst. Biol.
Teppei Shimamura, Seiya Imoto, Rui Yamaguchi, André Fujita, Masao Nagasaki, Satoru Miyano