Publications (Since 2017)

Preprint

Hardik Tankaria, Dinesh Singh, Makoto Yamada
Nys-Curve: Nyström-Approximated Curvature for Stochastic Optimization
arXiv 2021

Yuki Takezawa, Ryoma Sato, Zornitsa Kozareva, Sujith Ravi, Makoto Yamada
Fixed Support Tree-Sliced Wasserstein Barycenter
arXiv 2021

Ryoma Sato, Makoto Yamada, Hisashi Kashime
Re-evaluating Word Mover’s Distance
arXiv 2021

Ryoma Sato, Makoto Yamada, Hisashi Kashima
Poincare: Recommending Publication Venues via Treatment Effect Estimation
arXiv 2020

Mathis Petrovich, Chao Liang, Ryoma Sato, Yanbin Liu, Yao-Hung Hubert Tsai, Linchao Zhu, Yi Yang, Ruslan Salakhutdinov, Makoto Yamada
Feature Robust Optimal Transport for High-dimensional Data
arXiv 2020

Liu Ziyin, Zihao Wang, Makoto Yamada, Masahito Ueda
Volumization as a Natural Generalization of Weight Decay
arXiv 2020

Mathis Petrovich, Makoto Yamada
Fast local linear regression with anchor regularization
arXiv 2020

Ryoma Sato, Marco Cuturi, Makoto Yamada, Hisashi Kashima
Fast and Robust Comparison of Probability Measures in Heterogeneous Spaces
arXiv 2020

Dinesh Singh, Héctor Climente-González, Mathis Petrovich, Eiryo Kawakami, Makoto Yamada
FsNet: Feature Selection Network on High-dimensional Biological Data
arXiv 2020

Qiang Huang, Makoto Yamada, Yuan Tian, Dinesh Singh, Dawei Yin, Yi Chang
GraphLIME: Local Interpretable Model Explanations for Graph Neural Networks
arXiv 2020

Tam Le, Viet Huynh, Nhat Ho, Dinh Phung, Makoto Yamada
Tree-Wasserstein Barycenter for Large-Scale Multilevel Clustering and Scalable Bayes
arXiv 2019

2021

Hiroaki Yamada, Makoto Yamada
Dynamic Sasvi: Strong Safe Screening for Norm-Regularized Least Squares
NeurIPS 2021

Tam Le, Truyen Nguyen, Makoto Yamada, Jose Blanchet, Viet Anh Nguyen
Adversarial Regression with Doubly Non-negative Weighting Matrices
NeurIPS 2021

Trung Nguyen, Quang-Hieu Pham, Tam Le, Tung Pham, Nhat Ho, Binh-Son Hua
Point-set Distances for Learning Representations of 3D Point Clouds
ICCV 2021

Yanbin Liu, Makoto Yamada, Yao-Hung Hubert Tsai, Tam Le, Ruslan Salakhutdinov, Yi Yang
LSMI-Sinkhorn: Semi-supervised Squared-Loss Mutual Information Estimation with Optimal Transport
ECML 2021

Yuki Takezawa, Ryoma Sato, Makoto Yamada
Supervised Tree-Wasserstein Distance
ICML 2021

Tobias Freidling, Benjamin Poignard, Héctor Climente-González, Makoto Yamada
Post-selection inference with HSIC-Lasso
ICML 2021

Vu Nguyen*, Tam Le*, Makoto Yamada, Michael A Osborne (*:equal contribution)
Optimal Transport Kernels for Sequential and Parallel Neural Architecture Search
ICML 2021

Mari Hashimoto, Yoriko Saito, Ryo Nakagawa, Ikuko Ogahara, Shinsuke Takagi, Sadaaki Takata, Hanae Amitani, Mikiko Endo, Hitomi Yuki, Jordan A. Ramilowski, Jessica Severin, Ri-ichiroh Manabe, Takashi Watanabe, Kokoro Ozaki, Akiko Kaneko, Hiroshi Kajita, Saera Fujiki, Kaori Sato, Teruki Honma, Naoyuki Uchida, Takehiro Fukami, Yasushi Okazaki, Osamu Ohara, Leonard D. Shultz, Makoto Yamada, Shuichi Taniguchi, Paresh Vyas, Michiel de Hoon, Yukihide Momozawa, Fumihiko Ishikawa
Combined inhibition of XIAP and BCL2 drives maximal therapeutic efficacy in genetically diverse aggressive acute myeloid leukemia
Nature Cancer 2021

Ayato Toyokuni, Sho Yokoi, Hisashi Kashima, Makoto Yamada
Computationally Efficient Wasserstein Loss for Structured Labels
EACL SRW 2021

Tam Le*, Naht Ho*, Makoto Yamada (*:equal contribution)
Flow-based Alignment Approaches for Probability Measures in Different Spaces
AISTATS 2021

Tam Le*, Truyen Nguyen* (*:equal contribution)
Entropy Partial Transport with Tree Metrics: Theory and Practice
AISTATS 2021

Ryoma Sato, Makoto Yamada, Hisashi Kashima
Random Features Strengthen Graph Neural Networks
SDM 2021

2020

Yuta Takahashi, Masao Ueki, Makoto Yamada, Gen Tamiya, Ikuko N. Motoike, Daisuke Saigusa, Miyuki Sakurai, Fuji Nagami, Soichi Ogishima, Seizo Koshiba, Kengo Kinoshita, Masayuki Yamamoto
Improved metabolomic data-based prediction of depressive symptoms using nonlinear machine learning with feature selection
Translational Psychiatry, 2020.

Yao-Hung Hubert Tsai, Han Zhao, Makoto Yamada, Louis-Philippe Morency, Ruslan Salakhutdinov
Neural Methods for Point-wise Dependency Estimation
NeurIPS 2020

Ryoma Sato, Makoto Yamada, Hisashi Kashima
Fast Unbalanced Optimal Transport on Tree
NeurIPS 2020

Luu Huu Phuc, Koh Takeuchi, Makoto Yamada, Hisashi Kashima
Simultaneous Link Prediction on Unaligned Networks Using Graph Embedding and Optimal Transport
DSAA, 2020

Yanbin Liu, Linchao Zhu, Makoto Yamada, Yi Yang
Semantic Correspondence as an Optimal Transport Problem
CVPR 2020

Tatsuya Shiraishi, Tam Le, Hisashi Kashima, Makoto Yamada
Topological Bayesian Optimization with Persistence Diagrams
ECAI 2020

Benjamin Poignard, Makoto Yamada
Sparse Hilbert-Schmidt Independence Criterion Regression
AISTATS 2020

Jenning Lim, Makoto Yamada, Wittawat Jitkrittum, Yoshikazu Terada, Shigeyuki Matsui, Hidetoshi Shimodaira
More Powerful Selective Kernel Tests for Feature Selection
AISTATS 2020

Qiang Huang, TingYu Xia, HuiYan Sun, Makoto Yamada, Yi Chang
Unsupervised Nonlinear Feature Selection from High-dimensional Signed Networks
AAAI 2020

2019

Eugene Ndiaye, Tam Le, Olivier Fercoq, Joseph Salmon, Ichiro Takeuchi
Safe Grid Search with Optimal Complexity
ICML 2019

Yu Saito, Kento Shin, Kei Terayama, Shaan Desai, Masaru Onga, Yuji Nakagawa, Yuki M. Itahashi, Yoshihiro Iwasa, Makoto Yamada, Koji Tsuda
Deep-learning-based quality filtering of mechanically exfoliated 2D crystals
npj Computational Materials, 2019.

Akihiro Isozaki, Hideharu Mikami, Kotaro Hiramatsu, Shinya Sakuma, Yusuke Kasai, Takanori Iino, Takashi Yamano, Atsushi Yasumoto, Yusuke Oguchi, Nobutake Suzuki, Yoshitaka Shirasaki, Taichiro Endo, Takuro Ito, Kei Hiraki, Makoto Yamada, Satoshi Matsusaka, Takeshi Hayakawa, Hideya Fukuzawa, Yutaka Yatomi, Fumihito Arai, Dino Di Carlo, Atsuhiro Nakagawa, Yu Hoshino, Yoichiroh Hosokawa, Sotaro Uemura, Takeaki Sugimura, Yasuyuki Ozeki, Nao Nitta, Keisuke Goda.
A practical guide to intelligent image-activated cell sorting
Nature Protocols, 2019.

Héctor Climente-González, Chloé-Agathe Azencott, Samuel Kaski, Makoto Yamada
Block HSIC Lasso: model-free biomarker detection for ultra-high dimensional data
Bioinformatics (ISMB) 2019

Ryoma Sato, Makoto Yamada, Hisashi Kashima
Approximation Ratios of Graph Neural Networks for Combinatorial Problems
NeurIPS 2019

Tam Le, Makoto Yamada, Kenji Fukumizu, Marco Cuturi
Tree-Sliced Variants of Wasserstein Distances
NeurIPS 2019

Jenning Lim, Makoto Yamada, Bernhard Schoelkopf, Wittawat Jitkrittum
Kernel Stein Tests for Multiple Model Comparison
NeurIPS 2019

Ryoma Sato, Makoto Yamada, Hisashi Kashima
Learning to Sample Hard Instances for Graph Algorithms
ACML 2019

Yao-Hung Hubert Tsai, Shaojie Bai, Makoto Yamada, Louis-Philippe Morency and Ruslan Salakhutdinov.
Empirical Study of Transformer’s Attention Mechanism via the Lens of Kernel
EMNLP 2019

Makoto Yamada, Denny Wu, Yao-Hung Hubert Tsai, Hirofumi Ohta, Ruslan Salakhutdinov, Ichiro Takeuchi, Kenji Fukumizu
Post Selection Inference with Incomplete Maximum Mean Discrepancy Estimator
ICLR 2019

2018

Nao Nitta, Takeaki Sugimura, Akihiro Isozaki, Hideharu Mikami, Kei Hiraki, Shinya Sakuma, Takanori Iino, Fumihito Arai, Taichiro Endo, Yasuhiro Fujiwaki, Hideya Fukuzawa, Misa Hase, Takeshi Hayakawa, Kotaro Hiramatsu, Yu Hoshino, Mary Inaba, Takuro Ito, Hiroshi Karakawa, Yusuke Kasai, Kenichi Koizumi, SangWook Lee, Cheng Lei, Ming Li, Takanori Maeno, Satoshi Matsusaka, Daichi Murakami, Atsuhiro Nakagawa, Yusuke Oguchi, Minoru Oikawa, Tadataka Ota, Kiyotaka Shiba, Hirofumi Shintaku, Yoshitaka Shirasaki, Kanako Suga, Yuta Suzuki, Nobutake Suzuki, Yo Tanaka, Hiroshi Tezuka, Chihana Toyokawa, Yaxiaer Yalikun, Makoto Yamada, Mai Yamagishi, Takashi Yamano, Atsushi Yasumoto, Yutaka Yatomi, Masayuki Yazawa, Dino Di Carlo, Yoichiroh Hosokawa, Yasuyuki Ozeki, Keisuke Goda.
Intelligent Image-Activated Cell Sorting
Cell, 2018.

Cheng Lei, Hirofumi Kobayashi, Yi Wu, Ming Li, Akihiro Isozaki, Atsushi Yasumoto, Hideharu Mikami, Takuro Ito, Nao Nitta, Takeaki Sugimura, Makoto Yamada, Yutaka Yatomi, Dino Di Carlo, Yasuyuki Ozeki, Keisuke Goda
High-throughput imaging flow cytometry by optofluidic time-stretch microscopy
Nature Protocols, 2018.

Makoto Yamada, Yuta Umezu, Kenji Fukumizu, Ichiro Takeuchi
Post Selection Inference with Kernels
AISTATS 2018

Tanmoy Mukherjee, Makoto Yamada, Timothy M. Hospedales
Learning Unsupervised Word Translations Without Adversaries
EMNLP 2018

Tam Le, Makoto Yamada
Persistence Fisher Kernel: A Riemannian Manifold Kernel for Persistence Diagrams
NeurIPS 2018

2017

Makoto Yamada, Koh Takeuchi, Tomoharu Iwata, John Shawe-Taylor, Samuel Kaski
Localized Lasso for High-Dimensional Regression
AISTATS 2017