Atsushi Niida

Publication Activity (10 Years)

Years Active: 2008-2020
Publications (10 Years): 8

Top Topics

Cancer Classification

Gene Expression Profiles

Simulation Models

Top Venues

J. Comput. Biol.

IEEE ACM Trans. Comput. Biol. Bioinform.

J. Frankl. Inst.

Publications

Takanori Hasegawa, Rui Yamaguchi, Atsushi Niida, Satoru Miyano, Seiya Imoto
Ensemble smoothers for inference of hidden states and parameters in combinatorial regulatory model. J. Frankl. Inst. 357 (5) (2020)
Takanori Hasegawa, Shuto Hayashi, Eigo Shimizu, Shinichi Mizuno, Atsushi Niida, Rui Yamaguchi, Satoru Miyano, Hidewaki Nakagawa, Seiya Imoto
Neoantimon: a multifunctional R package for identification of tumor-specific neoantigens. Bioinform. 36 (18) (2020)
Yusuke Matsui, Atsushi Niida, Ryutaro Uchi, Koshi Mimori, Satoru Miyano, Teppei Shimamura
phyC: Clustering cancer evolutionary trees. PLoS Comput. Biol. 13 (5) (2017)
Heewon Park, Atsushi Niida, Seiya Imoto, Satoru Miyano
Interaction-Based Feature Selection for Uncovering Cancer Driver Genes Through Copy Number-Driven Expression Level. J. Comput. Biol. 24 (2) (2017)
Emi Ayada, Takanori Hasegawa, Atsushi Niida, Satoru Miyano, Seiya Imoto
Binary contingency table method for analysing gene mutation in cancer genome. Int. J. Bioinform. Res. Appl. 12 (3) (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)
Emi Ayada, Atsushi Niida, Takanori Hasegawa, Satoru Miyano, Seiya Imoto
Binary Contingency Table Method for Analyzing Gene Mutation in Cancer Genome. ISBRA (2015)
Heewon Park, Atsushi Niida, Satoru Miyano, Seiya Imoto
Sparse Overlapping Group Lasso for Integrative Multi-Omics Analysis. J. Comput. Biol. 22 (2) (2015)
Atsushi Niida, Georg Tremmel, Seiya Imoto, Satoru Miyano
Multilayer Cluster Heat Map Visualizing Biological Tensor Data. BSB (2013)
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)
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)
Atsushi Niida, Andrew D. Smith, Seiya Imoto, Hiroyuki Aburatani, Michael Q. Zhang, Tetsu Akiyama
Gene set-based module discovery in the breast cancer transcriptome. BMC Bioinform. 10 (2009)
Atsushi Niida, Andrew D. Smith, Seiya Imoto, Shuichi Tsutsumi, Hiroyuki Aburatani, Michael Q. Zhang, Tetsu Akiyama
Integrative bioinformatics analysis of transcriptional regulatory programs in breast cancer cells. BMC Bioinform. 9 (2008)