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5. Magnetic structures and phase transitions of A-site Ordered Double-Perovskite SmBaMn2O6

Author

Kiyanagi, Ryoji, Yamada, Shigeki, Aoki, Hiroshi, Sagayama, Hajime, Moyoshi, Taketo, Nakao, Akiko, and Arima, Takahisa

Subjects
Condensed Matter - Strongly Correlated Electrons, Condensed Matter - Materials Science
Abstract

Magnetic structures and the relationship between spin and charge-orbital orderings of an A-site ordered double-perovskite manganite SmBaMn2O6, an anticipated multiferroic material, were investigated by means of neutron diffraction. The spin arrangement in MnO2 planes perpendicular to the c axis is revealed to be the same as that in the A-site disordered half-doped manganites CE-type but the stacking pattern is found to be different displaying a unique twofold period. The temperature dependence of the superlattice magnetic and nuclear reflections clarifies that the antiferromagnetic spin ordering occurs at a temperature slightly lower than the temperature at which a rearrangement of the charge-orbital orderings occurs. The result evidences that the rearrangement leads the spin ordering. The intensities of the magnetic reflections are found to change across Tf = 10 K, suggesting a spin-flop by 90 [deg.] while keeping the Mn spin ordering pattern unchanged., Comment: 11 pages, 5 figures

Published
2021

6. MicroRNA detection on microsensor arrays by SPR imaging measurements with enzymatic signal enhancement

Author

Aoki, Hiroshi, Corn, Robert M, and Matthews, Brandon

Subjects
Analytical Chemistry, Engineering, Chemical Sciences, Bioengineering, Nanotechnology, Biotechnology, Benzidines, DNA Probes, Equipment Design, Humans, Limit of Detection, MicroRNAs, Nucleic Acid Hybridization, Oligonucleotide Array Sequence Analysis, Surface Plasmon Resonance, Surface plasmon resonance imaging, SPRI, RNA, Detection, Enzymatic amplification, Biomedical Engineering, Bioinformatics, Analytical chemistry, Biomedical engineering
Abstract

We investigated sequence-specific and simultaneous microRNA (miRNA) detections by surface plasmon resonance (SPR) imaging measurements on SPR chips possessing an Au spot array modified with probe DNAs based on a miRNA-detection-selective SPR signal amplification method. MiRNAs were detected with the detection limit of the attomole level by SPR imaging measurements for different miRNA concentrations on a single chip. SPR signals were enhanced based on a combination process of sequence-specific hybridization of the miRNA to the probe DNAs, extension reaction of polyadenine (poly(A)) tails by poly(A) polymerase, binding of a ternary complex of T30-biotin/horseradish peroxidase (HRP)-biotin/streptavidin to the poly(A) tails, and the oxidation reaction of tetramethylbenzidine (TMB) on the HRP by providing a blue precipitate on the surface. This process sequence-specifically and dramatically amplified the SPR signals. This is a simple, cost-effective, and feasible signal amplification method based on the organic compound TMB instead of metal nanoparticles.

Published
2019

10. Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition)

Author

Klionsky, Daniel J, Abdelmohsen, Kotb, Abe, Akihisa, Abedin, Md Joynal, Abeliovich, Hagai, Acevedo Arozena, Abraham, Adachi, Hiroaki, Adams, Christopher M, Adams, Peter D, Adeli, Khosrow, Adhihetty, Peter J, Adler, Sharon G, Agam, Galila, Agarwal, Rajesh, Aghi, Manish K, Agnello, Maria, Agostinis, Patrizia, Aguilar, Patricia V, Aguirre-Ghiso, Julio, Airoldi, Edoardo M, Ait-Si-Ali, Slimane, Akematsu, Takahiko, Akporiaye, Emmanuel T, Al-Rubeai, Mohamed, Albaiceta, Guillermo M, Albanese, Chris, Albani, Diego, Albert, Matthew L, Aldudo, Jesus, Algül, Hana, Alirezaei, Mehrdad, Alloza, Iraide, Almasan, Alexandru, Almonte-Beceril, Maylin, Alnemri, Emad S, Alonso, Covadonga, Altan-Bonnet, Nihal, Altieri, Dario C, Alvarez, Silvia, Alvarez-Erviti, Lydia, Alves, Sandro, Amadoro, Giuseppina, Amano, Atsuo, Amantini, Consuelo, Ambrosio, Santiago, Amelio, Ivano, Amer, Amal O, Amessou, Mohamed, Amon, Angelika, An, Zhenyi, Anania, Frank A, Andersen, Stig U, Andley, Usha P, Andreadi, Catherine K, Andrieu-Abadie, Nathalie, Anel, Alberto, Ann, David K, Anoopkumar-Dukie, Shailendra, Antonioli, Manuela, Aoki, Hiroshi, Apostolova, Nadezda, Aquila, Saveria, Aquilano, Katia, Araki, Koichi, Arama, Eli, Aranda, Agustin, Araya, Jun, Arcaro, Alexandre, Arias, Esperanza, Arimoto, Hirokazu, Ariosa, Aileen R, Armstrong, Jane L, Arnould, Thierry, Arsov, Ivica, Asanuma, Katsuhiko, Askanas, Valerie, Asselin, Eric, Atarashi, Ryuichiro, Atherton, Sally S, Atkin, Julie D, Attardi, Laura D, Auberger, Patrick, Auburger, Georg, Aurelian, Laure, Autelli, Riccardo, Avagliano, Laura, Avantaggiati, Maria Laura, Avrahami, Limor, Awale, Suresh, Azad, Neelam, Bachetti, Tiziana, Backer, Jonathan M, Bae, Dong-Hun, Bae, Jae-Sung, Bae, Ok-Nam, Bae, Soo Han, Baehrecke, Eric H, Baek, Seung-Hoon, Baghdiguian, Stephen, and Bagniewska-Zadworna, Agnieszka

Subjects
Biochemistry and Cell Biology, Biological Sciences, Animals, Autophagy, Biological Assay, Computer Simulation, Humans, autolysosome, autophagosome, chaperone-mediated autophagy, flux, LC3, lysosome, macroautophagy, phagophore, stress, vacuole, Biochemistry & Molecular Biology, Biochemistry and cell biology
Published
2016

21. Guidelines for the use and interpretation of assays for monitoring autophagy.

Author

Klionsky, Daniel J, Abdalla, Fabio C, Abeliovich, Hagai, Abraham, Robert T, Acevedo-Arozena, Abraham, Adeli, Khosrow, Agholme, Lotta, Agnello, Maria, Agostinis, Patrizia, Aguirre-Ghiso, Julio A, Ahn, Hyung Jun, Ait-Mohamed, Ouardia, Ait-Si-Ali, Slimane, Akematsu, Takahiko, Akira, Shizuo, Al-Younes, Hesham M, Al-Zeer, Munir A, Albert, Matthew L, Albin, Roger L, Alegre-Abarrategui, Javier, Aleo, Maria Francesca, Alirezaei, Mehrdad, Almasan, Alexandru, Almonte-Becerril, Maylin, Amano, Atsuo, Amaravadi, Ravi, Amarnath, Shoba, Amer, Amal O, Andrieu-Abadie, Nathalie, Anantharam, Vellareddy, Ann, David K, Anoopkumar-Dukie, Shailendra, Aoki, Hiroshi, Apostolova, Nadezda, Arancia, Giuseppe, Aris, John P, Asanuma, Katsuhiko, Asare, Nana YO, Ashida, Hisashi, Askanas, Valerie, Askew, David S, Auberger, Patrick, Baba, Misuzu, Backues, Steven K, Baehrecke, Eric H, Bahr, Ben A, Bai, Xue-Yuan, Bailly, Yannick, Baiocchi, Robert, Baldini, Giulia, Balduini, Walter, Ballabio, Andrea, Bamber, Bruce A, Bampton, Edward TW, Bánhegyi, Gábor, Bartholomew, Clinton R, Bassham, Diane C, Bast, Robert C, Batoko, Henri, Bay, Boon-Huat, Beau, Isabelle, Béchet, Daniel M, Begley, Thomas J, Behl, Christian, Behrends, Christian, Bekri, Soumeya, Bellaire, Bryan, Bendall, Linda J, Benetti, Luca, Berliocchi, Laura, Bernardi, Henri, Bernassola, Francesca, Besteiro, Sébastien, Bhatia-Kissova, Ingrid, Bi, Xiaoning, Biard-Piechaczyk, Martine, Blum, Janice S, Boise, Lawrence H, Bonaldo, Paolo, Boone, David L, Bornhauser, Beat C, Bortoluci, Karina R, Bossis, Ioannis, Bost, Frédéric, Bourquin, Jean-Pierre, Boya, Patricia, Boyer-Guittaut, Michaël, Bozhkov, Peter V, Brady, Nathan R, Brancolini, Claudio, Brech, Andreas, Brenman, Jay E, Brennand, Ana, Bresnick, Emery H, Brest, Patrick, Bridges, Dave, Bristol, Molly L, Brookes, Paul S, Brown, Eric J, and Brumell, John H

Subjects
Animals, Humans, Biological Assay, Models, Biological, Autophagy, Generic health relevance, autolysosome, autophagosome, flux, LC3, lysosome, phagophore, stress, vacuole, Biochemistry and Cell Biology, Biochemistry & Molecular Biology
Abstract

In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. A key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process vs. those that measure flux through the autophagy pathway (i.e., the complete process); thus, a block in macroautophagy that results in autophagosome accumulation needs to be differentiated from stimuli that result in increased autophagic activity, defined as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (in most higher eukaryotes and some protists such as Dictyostelium) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the field understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused on these processes. These guidelines are not meant to be a formulaic set of rules, because the appropriate assays depend in part on the question being asked and the system being used. In addition, we emphasize that no individual assay is guaranteed to be the most appropriate one in every situation, and we strongly recommend the use of multiple assays to monitor autophagy. In these guidelines, we consider these various methods of assessing autophagy and what information can, or cannot, be obtained from them. Finally, by discussing the merits and limits of particular autophagy assays, we hope to encourage technical innovation in the field.

Published
2012

28. Impact of Plaque Rupture Detected by Optical Coherence Tomography on Transmural Extent of Infarction After Successful Stenting in ST-Segment Elevation Acute Myocardial Infarction

Author

Satogami, Keisuke, Ino, Yasushi, Kubo, Takashi, Tanimoto, Takashi, Orii, Makoto, Matsuo, Yoshiki, Ota, Shingo, Yamaguchi, Tomoyuki, Shiono, Yasutsugu, Shimamura, Kunihiro, Katayama, Yosuke, Aoki, Hiroshi, Nishiguchi, Tsuyoshi, Ozaki, Yuichi, Yamano, Takashi, Kameyama, Takeyoshi, Kuroi, Akio, Kitabata, Hironori, Tanaka, Atsushi, Hozumi, Takeshi, and Akasaka, Takashi

Published
2017
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29. Prostate‐specific antigen follow‐up and management for patients undergoing holmium laser enucleation of the prostate.

Author

Kimura, Shingo, Katayama, Hiromichi, Ohara, Eiichiro, Aoki, Hiroshi, Shibuya, Rie, Naganuma, Hiroshi, Ishidoya, Shigeto, and Ito, Akihiro

Subjects
PROSTATE-specific antigen, SURGICAL enucleation, HOLMIUM, PROSTATE, WATCHFUL waiting
Abstract

Objectives: To investigate who needs a careful postoperative monitoring for prostate cancer (PCa) after holmium laser enucleation of the prostate (HoLEP). We examined characteristics and oncological outcomes of HoLEP‐related PCa. Methods: Patients who underwent HoLEP during 2002–2017 in a Japanese tertiary center were retrospectively analyzed. Patients were divided into non‐PCa, PCa with HoLEP specimen (PCa‐Ope), and PCa diagnosed during follow‐up (PCa‐Post). Outcomes of all HoLEP‐related PCa were monitored. Results: Of the total 758, 60 (7.9%) were diagnosed with PCa from resected specimen of HoLEP and 9 (1.2%) were diagnosed postoperatively. Preoperative prostate‐specific antigen (iPSA), postoperative PSA (pPSA), and PSA density were significantly higher in both PCa groups than those in non‐PCa group. While iPSA significantly correlated to prostate volume (PV), pPSA was not associated with PV. A receiver‐operating‐characteristics curve demonstrated that pPSA 1.2 ng/mL achieved the optimal cut‐off (AUC 0.95) for the incidence of PCa‐Post. In addition to the incidence of PCa and iPSA, lower enucleation efficiency (enucleated volume /PV) was significantly associated with pPSA >1.2 ng/mL. Among PCa‐Ope, 51 were Grade Group (GG) ≤2 and 42 were followed‐up with active surveillance, whereas 8 of 9 PCa‐Post were GG ≥3 and 2 progressed to death. Conclusions: Patients undergoing HoLEP are associated with some risk of potential PCa. While oncological outcomes were favorable among PCa‐Ope, postoperative PSA should be carefully monitored even if not diagnosed with PCa with HoLEP specimen. Enucleation efficiency should be also considered not to misread pPSA value. [ABSTRACT FROM AUTHOR]

Published
2024
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30. Enumerating Eulerian Trails via Hamiltonian Path Enumeration

Author

Hanada, Hiroyuki, Denzumi, Shuhei, Inoue, Yuma, Aoki, Hiroshi, Yasuda, Norihito, Takeuchi, Shogo, Minato, Shin-ichi, Hutchison, David, Series editor, Kanade, Takeo, Series editor, Kittler, Josef, Series editor, Kleinberg, Jon M., Series editor, Kobsa, Alfred, 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, Terzopoulos, Demetri, Series editor, Tygar, Doug, Series editor, Weikum, Gerhard, Series editor, Rahman, M. Sohel, editor, and Tomita, Etsuji, editor

Published
2015
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31. The relationship between timing of prasugrel pretreatment and in-stent thrombus immediately after percutaneous coronary intervention for acute coronary syndrome: an optical coherence tomography study

Author

Katayama, Yosuke, Kubo, Takashi, Ino, Yasushi, Kameyama, Takeyoshi, Matsuo, Yoshiki, Kitabata, Hironori, Terada, Kosei, Emori, Hiroki, Aoki, Hiroshi, Taruya, Akira, Shimamura, Kunihiro, Ota, Shingo, Tanaka, Atsushi, Hozumi, Takeshi, and Akasaka, Takashi

Published
2018
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34. Supplementary Figure 2 from Gene Expression Signature–Based Prognostic Risk Score in Patients with Primary Central Nervous System Lymphoma

Author

Kawaguchi, Atsushi, primary, Iwadate, Yasuo, primary, Komohara, Yoshihiro, primary, Sano, Masakazu, primary, Kajiwara, Koji, primary, Yajima, Naoki, primary, Tsuchiya, Naoto, primary, Homma, Jumpei, primary, Aoki, Hiroshi, primary, Kobayashi, Tsutomu, primary, Sakai, Yuko, primary, Hondoh, Hiroaki, primary, Fujii, Yukihiko, primary, Kakuma, Tatsuyuki, primary, and Yamanaka, Ryuya, primary

Published
2023
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35. Supplementary Table 1 from Gene Expression Signature–Based Prognostic Risk Score in Patients with Primary Central Nervous System Lymphoma

Author

Kawaguchi, Atsushi, primary, Iwadate, Yasuo, primary, Komohara, Yoshihiro, primary, Sano, Masakazu, primary, Kajiwara, Koji, primary, Yajima, Naoki, primary, Tsuchiya, Naoto, primary, Homma, Jumpei, primary, Aoki, Hiroshi, primary, Kobayashi, Tsutomu, primary, Sakai, Yuko, primary, Hondoh, Hiroaki, primary, Fujii, Yukihiko, primary, Kakuma, Tatsuyuki, primary, and Yamanaka, Ryuya, primary

Published
2023
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36. Supplementary Figure 1 from Gene Expression Signature–Based Prognostic Risk Score in Patients with Primary Central Nervous System Lymphoma

Author

Kawaguchi, Atsushi, primary, Iwadate, Yasuo, primary, Komohara, Yoshihiro, primary, Sano, Masakazu, primary, Kajiwara, Koji, primary, Yajima, Naoki, primary, Tsuchiya, Naoto, primary, Homma, Jumpei, primary, Aoki, Hiroshi, primary, Kobayashi, Tsutomu, primary, Sakai, Yuko, primary, Hondoh, Hiroaki, primary, Fujii, Yukihiko, primary, Kakuma, Tatsuyuki, primary, and Yamanaka, Ryuya, primary

Published
2023
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37. Supplementary Figure Legend from Gene Expression Signature–Based Prognostic Risk Score in Patients with Primary Central Nervous System Lymphoma

Author

Kawaguchi, Atsushi, primary, Iwadate, Yasuo, primary, Komohara, Yoshihiro, primary, Sano, Masakazu, primary, Kajiwara, Koji, primary, Yajima, Naoki, primary, Tsuchiya, Naoto, primary, Homma, Jumpei, primary, Aoki, Hiroshi, primary, Kobayashi, Tsutomu, primary, Sakai, Yuko, primary, Hondoh, Hiroaki, primary, Fujii, Yukihiko, primary, Kakuma, Tatsuyuki, primary, and Yamanaka, Ryuya, primary

Published
2023
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40. Impact of functional focal versus diffuse coronary artery disease on bypass graft patency

Author

Shiono, Yasutsugu, Kubo, Takashi, Honda, Kentaro, Katayama, Yosuke, Aoki, Hiroshi, Satogami, Keisuke, Kashiyama, Kuninobu, Taruya, Akira, Nishiguchi, Tsuyoshi, Kuroi, Akio, Orii, Makoto, Kameyama, Takeyoshi, Yamano, Takashi, Yamaguchi, Tomoyuki, Matsuo, Yoshiki, Ino, Yasushi, Tanaka, Atsushi, Hozumi, Takeshi, Nishimura, Yoshiharu, Okamura, Yoshitaka, and Akasaka, Takashi

Published
2016
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42. Three-way Indexing ZDDs for Large-Scale Sparse Datasets

Author

Aoki, Hiroshi, Toda, Takahisa, Minato, Shin-ichi, Goebel, Randy, Series editor, Tanaka, Yuzuru, Series editor, Wahlster, Wolfgang, Series editor, Peng, Wen-Chih, editor, Wang, Haixun, editor, Bailey, James, editor, Tseng, Vincent S., editor, Ho, Tu Bao, editor, Zhou, Zhi-Hua, editor, and Chen, Arbee L.P., editor

Published
2014
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44. Urine protein quantification in human urine on boron-doped diamond electrodes based on the electrochemical reaction of Coomassie brilliant blue.

Author

Aoki, Hiroshi, Miyazaki, Risa, Ohama, Miho, Murata, Michio, Asai, Kai, Ogata, Genki, and Einaga, Yasuaki

Subjects
*ELECTROCHEMICAL electrodes, *RAPID diagnostic tests, *DOPING agents (Chemistry), *URINE, *COLORIMETRIC analysis
Abstract

Urinalysis is attracting interest in personal healthcare management as part of a general move to improve quality of life. Urine contains various metabolites and the protein level in urine is an indicator of kidney function. In this study, a novel electrochemical sensing system based on boron-doped diamond (BDD) electrodes was developed for the detection of protein concentrations in human urine. BDD electrodes have the advantages of a wide electrochemical potential window and low non-specific adsorption, making them ideal for simple, rapid, and compact devices for home detection of bio-relevant substances. Coomassie brilliant blue (CBB), a dye that selectively and strongly binds to urine proteins, was found to be a redox-active indicator to show a decrease in its redox currents in relation to the concentration of protein in urine samples. Our detailed studies of BDD electrodes showed their limit of detection to be 2.57 μg mL−1 and that they have a linear response that ranges from 0 to 400 μg mL−1 in urine samples. We also investigated the detection of urine protein in different urine samples. Our results agreed with those obtained using conventional colorimetric analysis. We believe this to be the first study of electrochemical detection of urine protein in urine samples on BDD electrodes, which is of great significance to be able to obtain results with electrical signals rapidly compared to conventional colorimetric analysis. This CBB–BDD technique has the potential to assist healthcare management in the form of a rapid daily diagnostic test to judge whether a more detailed examination is needed. [ABSTRACT FROM AUTHOR]

Published
2023
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