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586 results on '"Ogura, Yusuke"'

1. Spatial-photonic Ising machine by space-division multiplexing with physically tunable coefficients of a multi-component model

Author

Sakabe, Takumi, Shimomura, Suguru, Ogura, Yusuke, Okubo, Ken-ichi, Yamashita, Hiroshi, Suzuki, Hideyuki, and Tanida, Jun

Subjects
Physics - Optics, Computer Science - Emerging Technologies, Physics - Applied Physics
Abstract

This paper proposes a space-division multiplexed spatial-photonic Ising machine (SDM-SPIM) that physically calculates the weighted sum of the Ising Hamiltonians for individual components in a multi-component model. Space-division multiplexing enables tuning a set of weight coefficients as an optical parameter and obtaining the desired Ising Hamiltonian at a time. We solved knapsack problems to verify the system's validity, demonstrating that optical parameters impact the search property. We also investigated a new dynamic coefficient search algorithm to enhance search performance. The SDM-SPIM would physically calculate the Hamiltonian and a part of the optimization with an electronics process., Comment: 12 pages, 5 figures

Published
2023
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2. Low-rank combinatorial optimization and statistical learning by spatial photonic Ising machine

Author

Yamashita, Hiroshi, Okubo, Ken-ichi, Shimomura, Suguru, Ogura, Yusuke, Tanida, Jun, and Suzuki, Hideyuki

Subjects
Condensed Matter - Disordered Systems and Neural Networks, Computer Science - Emerging Technologies, Physics - Applied Physics, Physics - Optics, Statistics - Machine Learning
Abstract

The spatial photonic Ising machine (SPIM) [D. Pierangeli et al., Phys. Rev. Lett. 122, 213902 (2019)] is a promising optical architecture utilizing spatial light modulation for solving large-scale combinatorial optimization problems efficiently. The primitive version of the SPIM, however, can accommodate Ising problems with only rank-one interaction matrices. In this Letter, we propose a new computing model for the SPIM that can accommodate any Ising problem without changing its optical implementation. The proposed model is particularly efficient for Ising problems with low-rank interaction matrices, such as knapsack problems. Moreover, it acquires the learning ability of Boltzmann machines. We demonstrate that learning, classification, and sampling of the MNIST handwritten digit images are achieved efficiently using the model with low-rank interactions. Thus, the proposed model exhibits higher practical applicability to various problems of combinatorial optimization and statistical learning, without losing the scalability inherent in the SPIM architecture., Comment: 6 pages, 5 figures (with a 4-page supplemental); accepted version

Published
2023
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6. Case-based Similar Image Retrieval for Weakly Annotated Large Histopathological Images of Malignant Lymphoma Using Deep Metric Learning

Author

Hashimoto, Noriaki, Takagi, Yusuke, Masuda, Hiroki, Miyoshi, Hiroaki, Kohno, Kei, Nagaishi, Miharu, Sato, Kensaku, Takeuchi, Mai, Furuta, Takuya, Kawamoto, Keisuke, Yamada, Kyohei, Moritsubo, Mayuko, Inoue, Kanako, Shimasaki, Yasumasa, Ogura, Yusuke, Imamoto, Teppei, Mishina, Tatsuzo, Tanaka, Ken, Kawaguchi, Yoshino, Nakamura, Shigeo, Ohshima, Koichi, Hontani, Hidekata, and Takeuchi, Ichiro

Subjects
Computer Science - Computer Vision and Pattern Recognition, H.3.3, I.2.1, J.3
Abstract

In the present study, we propose a novel case-based similar image retrieval (SIR) method for hematoxylin and eosin (H&E)-stained histopathological images of malignant lymphoma. When a whole slide image (WSI) is used as an input query, it is desirable to be able to retrieve similar cases by focusing on image patches in pathologically important regions such as tumor cells. To address this problem, we employ attention-based multiple instance learning, which enables us to focus on tumor-specific regions when the similarity between cases is computed. Moreover, we employ contrastive distance metric learning to incorporate immunohistochemical (IHC) staining patterns as useful supervised information for defining appropriate similarity between heterogeneous malignant lymphoma cases. In the experiment with 249 malignant lymphoma patients, we confirmed that the proposed method exhibited higher evaluation measures than the baseline case-based SIR methods. Furthermore, the subjective evaluation by pathologists revealed that our similarity measure using IHC staining patterns is appropriate for representing the similarity of H&E-stained tissue images for malignant lymphoma.

Published
2021

11. Case-based similar image retrieval for weakly annotated large histopathological images of malignant lymphoma using deep metric learning

Author

Hashimoto, Noriaki, Takagi, Yusuke, Masuda, Hiroki, Miyoshi, Hiroaki, Kohno, Kei, Nagaishi, Miharu, Sato, Kensaku, Takeuchi, Mai, Furuta, Takuya, Kawamoto, Keisuke, Yamada, Kyohei, Moritsubo, Mayuko, Inoue, Kanako, Shimasaki, Yasumasa, Ogura, Yusuke, Imamoto, Teppei, Mishina, Tatsuzo, Tanaka, Ken, Kawaguchi, Yoshino, Nakamura, Shigeo, Ohshima, Koichi, Hontani, Hidekata, and Takeuchi, Ichiro

Published
2023
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12. Comprehensive gene expression analysis using RNA sequencing between male and female patients with idiopathic carpal tunnel syndrome.

Author

Ogura, Yusuke, Miyoshi, Hiroaki, Yoshida, Shiro, Arakawa, Fumiko, Takeuchi, Mai, Nakama, Kenjiro, Matsuura, Mitsuhiro, Takada, Hirofumi, Yamanaka, Yoshiaki, Hiraoka, Koji, and Ohshima, Koichi

Subjects
*PATIENTS, *GENE expression, *RNA sequencing, *GENE expression profiling, *IDIOPATHIC diseases, *CARPAL tunnel syndrome
Abstract

Idiopathic carpal tunnel syndrome is the most common entrapment neuropathy in hand surgery, and it is characterized by Noninflammatory fibrosis of subsynovial connective tissues. The prevalence and incidence differ between male and female individuals, and the mechanism underlying this difference remains largely unclear. In the present study, we collected subsynovial connective tissues from six male and six female patients diagnosed with idiopathic carpal tunnel syndrome during surgery. We performed a comprehensive gene expression analysis using RNA sequencing to compare the gene expression profiles between male and female patients with idiopathic carpal tunnel syndrome. We identified 26 genes with significantly different expressions between male and female patients, in which POSTN, COL1A1, and COL3A1, which are involved in extracellular matrix organization, and IGF1, an important fibrotic factor, were significantly upregulated in male patients. Immunohistochemistry confirmed the expression of proteins encoded by these genes in tissues, and male patients tended to show increased POSTN expression. Our results indicate that fibrosis of subsynovial connective tissues is induced by different mechanisms in male and female patients, and genes involved in extracellular matrix organization, especially POSTN, might be important factors in male patients. This study provides insight into the pathogenesis of idiopathic carpal syndrome and might contribute to the development of new treatment strategies. [ABSTRACT FROM AUTHOR]

Published
2024
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32. Co-stimulatory and immune checkpoint molecules are important in the tumor microenvironment of Hodgkin-like adult T-cell leukemia/lymphoma

Author

Takeuchi, Mai, primary, Miyoshi, Hiroaki, additional, Semba, Yuichiro, additional, Yamada, Kyohei, additional, Nakashima, Kazutaka, additional, Sato, Kensaku, additional, Furuta, Takuya, additional, Moritsubo, Mayuko, additional, Ogura, Yusuke, additional, Tanaka, Ken, additional, Imamoto, Teppei, additional, Arakawa, Fumiko, additional, Kohno, Kei, additional, and Ohshima, Koichi, additional

Published
2023
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44. Spatial-photonic Boltzmann machines: low-rank combinatorial optimization and statistical learning by spatial light modulation

Author

Yamashita, Hiroshi, Okubo, Ken-ichi, Shimomura, Suguru, Ogura, Yusuke, Tanida, Jun, and Suzuki, Hideyuki

Subjects
FOS: Computer and information sciences, Emerging Technologies (cs.ET), Statistics - Machine Learning, FOS: Physical sciences, Computer Science - Emerging Technologies, Machine Learning (stat.ML), Disordered Systems and Neural Networks (cond-mat.dis-nn), Applied Physics (physics.app-ph), Physics - Applied Physics, Condensed Matter - Disordered Systems and Neural Networks, Optics (physics.optics), Physics - Optics
Abstract

The spatial-photonic Ising machine (SPIM) [D. Pierangeli et al., Phys. Rev. Lett. 122, 213902 (2019)] is a promising optical architecture utilizing spatial light modulation for solving large-scale combinatorial optimization problems efficiently. However, the SPIM can accommodate Ising problems with only rank-one interaction matrices, which limits its applicability to various real-world problems. In this Letter, we propose a new computing model for the SPIM that can accommodate any Ising problem without changing its optical implementation. The proposed model is particularly efficient for Ising problems with low-rank interaction matrices, such as knapsack problems. Moreover, the model acquires learning ability and can thus be termed a spatial-photonic Boltzmann machine (SPBM). We demonstrate that learning, classification, and sampling of the MNIST handwritten digit images are achieved efficiently using SPBMs with low-rank interactions. Thus, the proposed SPBM model exhibits higher practical applicability to various problems of combinatorial optimization and statistical learning, without losing the scalability inherent in the SPIM architecture., 7 pages, 5 figures (with a 3-page supplemental)

Published
2023

46. Preface

Author

Ogura, Yusuke, Hagen, Nathan, Hayasaki, Yoshio, Saarinen, Jarkko J., Taue, Shuji, Vartiainen, Erik, and Yokota, Masayuki

Published
2020
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47. Reversible Transition of Photonic DNA Automaton Using Hairpin-DNA Responding to a Single Kind of Photonic Signal

Author

Sakai, Hiroto, Ogura, Yusuke, Tanida, Jun, Hutchison, David, Series editor, Kanade, Takeo, Series editor, Kittler, Josef, Series editor, Kleinberg, Jon M., Series editor, Mattern, Friedemann, Series editor, Mitchell, John C., Series editor, Naor, Moni, Series editor, Nierstrasz, Oscar, Series editor, Pandu Rangan, C., Series editor, Steffen, Bernhard, Series editor, Sudan, Madhu, Series editor, Terzopoulos, Demetri, Series editor, Tygar, Doug, Series editor, Vardi, Moshe Y., Series editor, Weikum, Gerhard, Series editor, Sakakibara, Yasubumi, editor, and Mi, Yongli, editor

Published
2011
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49. Positional State Representation and Its Transition Control for Photonic DNA Automaton

Author

Sakai, Hiroto, Ogura, Yusuke, Tanida, Jun, Hutchison, David, editor, Kanade, Takeo, editor, Kittler, Josef, editor, Kleinberg, Jon M., editor, Mattern, Friedemann, editor, Mitchell, John C., editor, Naor, Moni, editor, Nierstrasz, Oscar, editor, Pandu Rangan, C., editor, Steffen, Bernhard, editor, Sudan, Madhu, editor, Terzopoulos, Demetri, editor, Tygar, Doug, editor, Vardi, Moshe Y., editor, Weikum, Gerhard, editor, Deaton, Russell, editor, and Suyama, Akira, editor

Published
2009
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50. Digital spatial profiling of CD4+ T cells in classic Hodgkin lymphoma.

Author

Takeuchi, Mai, Miyoshi, Hiroaki, Semba, Yuichiro, Yamada, Kyohei, Nakashima, Kazutaka, Sato, Kensaku, Furuta, Takuya, Moritsubo, Mayuko, Ogura, Yusuke, Tanaka, Ken, Imamoto, Teppei, Arakawa, Fumiko, Kohno, Kei, and Ohshima, Koichi

Abstract

Classic Hodgkin lymphoma (CHL) harbors a small number of Hodgkin-Reed-Sternberg (HRS) cells scattered among numerous lymphocytes. HRS cells are surrounded by distinct CD4+ T cells in a rosette-like manner. These CD4+ T cell rosettes play an important role in the tumor microenvironment (TME) of CHL. To elucidate the interaction between HRS cells and CD4+ T cell rosettes, we completed digital spatial profiling to compare the gene expression profiles of CD4+ T cell rosettes and other CD4+ T cells separated from the HRS cells. Immune checkpoint molecules including OX40, programed cell death-1 (PD-1), and cytotoxic T lymphocyte associated protein 4 (CTLA-4) expression was higher in CD4+ T cell rosettes compared to other CD4+ T cells. Immunohistochemistry confirmed variable PD-1, CTLA-4, and OX40 expression in the CD4+ T cell rosettes. This study introduced a new pathological approach to study the CHL TME, and provided deeper insight into CD4+ T cells in CHL. [ABSTRACT FROM AUTHOR]

Published
2023
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