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  1. Article ; Online: Designing a multilayer film via machine learning of scientific literature.

    Fukada, Kenta / Seyama, Michiko

    Scientific reports

    2022  Volume 12, Issue 1, Page(s) 930

    Abstract: ... approach with either computer simulation or artificial intelligence (AI). MI is a valuable technique ... techniques use atomic or molecular simulations, which are limited to small areas. Some AI approaches have ... knowledge through ML enables us to predict untrained film structures. This suggests that AI imitates ...

    Abstract Scientists who design chemical substances often use materials informatics (MI), a data-driven approach with either computer simulation or artificial intelligence (AI). MI is a valuable technique, but applying it to layered structures is difficult. Most of the proposed computer-aided material search techniques use atomic or molecular simulations, which are limited to small areas. Some AI approaches have planned layered structures, but they require a physical theory or abundant experimental results. There is no universal design tool for multilayer films in MI. Here, we show a multilayer film can be designed through machine learning (ML) of experimental procedures extracted from chemical-coating articles. We converted material names according to International Union of Pure and Applied Chemistry rules and stored them in databases for each fabrication step without any physicochemical theory. Compared with experimental results which depend on authors, experimental protocol is superiority at almost unified and less data loss. Connecting scientific knowledge through ML enables us to predict untrained film structures. This suggests that AI imitates research activity, which is normally inspired by other scientific achievements and can thus be used as a general design technique.
    Language English
    Publishing date 2022-01-18
    Publishing country England
    Document type Journal Article
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-022-05010-7
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Designing a multilayer film via machine learning of scientific literature

    Kenta Fukada / Michiko Seyama

    Scientific Reports, Vol 12, Iss 1, Pp 1-

    2022  Volume 7

    Abstract: ... driven approach with either computer simulation or artificial intelligence (AI). MI is a valuable ... search techniques use atomic or molecular simulations, which are limited to small areas. Some AI ... This suggests that AI imitates research activity, which is normally inspired by other scientific achievements ...

    Abstract Abstract Scientists who design chemical substances often use materials informatics (MI), a data-driven approach with either computer simulation or artificial intelligence (AI). MI is a valuable technique, but applying it to layered structures is difficult. Most of the proposed computer-aided material search techniques use atomic or molecular simulations, which are limited to small areas. Some AI approaches have planned layered structures, but they require a physical theory or abundant experimental results. There is no universal design tool for multilayer films in MI. Here, we show a multilayer film can be designed through machine learning (ML) of experimental procedures extracted from chemical-coating articles. We converted material names according to International Union of Pure and Applied Chemistry rules and stored them in databases for each fabrication step without any physicochemical theory. Compared with experimental results which depend on authors, experimental protocol is superiority at almost unified and less data loss. Connecting scientific knowledge through ML enables us to predict untrained film structures. This suggests that AI imitates research activity, which is normally inspired by other scientific achievements and can thus be used as a general design technique.
    Keywords Medicine ; R ; Science ; Q
    Subject code 006
    Language English
    Publishing date 2022-01-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  3. Article ; Online: Live-cell imaging of HP1α throughout the cell cycle of mouse C3H10T1/2 cells and rhythmical flickering of heterochromatin dots in interphase.

    Nakagawa, Chika / Kawakita, Ai / Fukada, Takashi / Sugimoto, Kenji

    Bioscience, biotechnology, and biochemistry

    2014  Volume 78, Issue 4, Page(s) 556–564

    Abstract: Heterochromatin protein 1 alpha (HP1α) localizes to heterochromatin in interphase and shows dynamic molecular behavior in living cells. We previously reported that during mitosis, the majority of HP1α diffused into the cytoplasm but some remained in ... ...

    Abstract Heterochromatin protein 1 alpha (HP1α) localizes to heterochromatin in interphase and shows dynamic molecular behavior in living cells. We previously reported that during mitosis, the majority of HP1α diffused into the cytoplasm but some remained in centromere heterochromatin. Here, we further characterize the molecular behavior of HP1α throughout the cell cycle. Time-lapse imaging of DsRed-HP1α through two successive cell divisions indicated that interphase can be divided into four phases. HP1α forms heterochromatin dots in early G1, which are maintained without any apparent changes (Phase 1). However, the HP1α dots begin to diffuse into the nucleoplasm and start flickering with a rhythmical cycle (Phase 2). Then, the HP1α dots diffuse further towards the periphery of the nucleus (Phase 3), and uniformly diffuse throughout the entire nucleus (Phase 4). Rhythmical flickering of HP1α dots in the middle of interphase may be useful for following cell cycle progression in mouse living cells.
    MeSH term(s) Animals ; Cell Division ; Cell Line ; Cell Nucleus/metabolism ; Cell Survival ; Chromosomal Proteins, Non-Histone/metabolism ; Heterochromatin/metabolism ; Interphase ; Luminescent Proteins/metabolism ; Mice ; Molecular Imaging ; Protein Transport ; Time Factors
    Chemical Substances Chromosomal Proteins, Non-Histone ; Heterochromatin ; Luminescent Proteins ; fluorescent protein 583 ; heterochromatin-specific nonhistone chromosomal protein HP-1 (107283-02-3)
    Language English
    Publishing date 2014
    Publishing country England
    Document type Journal Article
    ZDB-ID 1106450-x
    ISSN 1347-6947 ; 0916-8451
    ISSN (online) 1347-6947
    ISSN 0916-8451
    DOI 10.1080/09168451.2014.893184
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: The Small GTPase OsRac1 Forms Two Distinct Immune Receptor Complexes Containing the PRR OsCERK1 and the NLR Pit.

    Akamatsu, Akira / Fujiwara, Masayuki / Hamada, Satoshi / Wakabayashi, Megumi / Yao, Ai / Wang, Qiong / Kosami, Ken-Ichi / Dang, Thu Thi / Kaneko-Kawano, Takako / Fukada, Fumi / Shimamoto, Ko / Kawano, Yoji

    Plant & cell physiology

    2021  Volume 62, Issue 11, Page(s) 1662–1675

    Abstract: Plants employ two different types of immune receptors, cell surface pattern recognition receptors (PRRs) and intracellular nucleotide-binding and leucine-rich repeat-containing proteins (NLRs), to cope with pathogen invasion. Both immune receptors often ... ...

    Abstract Plants employ two different types of immune receptors, cell surface pattern recognition receptors (PRRs) and intracellular nucleotide-binding and leucine-rich repeat-containing proteins (NLRs), to cope with pathogen invasion. Both immune receptors often share similar downstream components and responses but it remains unknown whether a PRR and an NLR assemble into the same protein complex or two distinct receptor complexes. We have previously found that the small GTPase OsRac1 plays key roles in the signaling of OsCERK1, a PRR for fungal chitin, and of Pit, an NLR for rice blast fungus, and associates directly and indirectly with both of these immune receptors. In this study, using biochemical and bioimaging approaches, we revealed that OsRac1 formed two distinct receptor complexes with OsCERK1 and with Pit. Supporting this result, OsCERK1 and Pit utilized different transport systems for anchorage to the plasma membrane (PM). Activation of OsCERK1 and Pit led to OsRac1 activation and, concomitantly, OsRac1 shifted from a small to a large protein complex fraction. We also found that the chaperone Hsp90 contributed to the proper transport of Pit to the PM and the immune induction of Pit. These findings illuminate how the PRR OsCERK1 and the NLR Pit orchestrate rice immunity through the small GTPase OsRac1.
    MeSH term(s) GTP Phosphohydrolases/genetics ; GTP Phosphohydrolases/metabolism ; NLR Proteins/genetics ; NLR Proteins/metabolism ; Oryza/genetics ; Oryza/metabolism ; Plant Immunity/genetics ; Plant Proteins/genetics ; Plant Proteins/metabolism ; Receptors, Pattern Recognition/genetics ; Receptors, Pattern Recognition/metabolism
    Chemical Substances NLR Proteins ; Plant Proteins ; Receptors, Pattern Recognition ; GTP Phosphohydrolases (EC 3.6.1.-)
    Language English
    Publishing date 2021-07-30
    Publishing country Japan
    Document type Journal Article
    ZDB-ID 208907-5
    ISSN 1471-9053 ; 0032-0781
    ISSN (online) 1471-9053
    ISSN 0032-0781
    DOI 10.1093/pcp/pcab121
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Cross-reactive humoral immune responses against seasonal human coronaviruses in COVID-19 patients with different disease severities.

    Imai, Kazuo / Matsuoka, Masaru / Tabata, Sakiko / Kitagawa, Yutaro / Nagura-Ikeda, Mayu / Kubota, Katsumi / Fukada, Ai / Takada, Tomohito / Sato, Momoko / Noguchi, Sakiko / Takeuchi, Shinichi / Arakawa, Noriaki / Miyoshi, Kazuyasu / Saito, Yoshiro / Maeda, Takuya

    International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases

    2021  Volume 111, Page(s) 68–75

    Abstract: Background: The cross-reactive antibody response against seasonal human coronaviruses (HCoVs) was evaluated according to disease severity in patients with COVID-19 in Japan.: Methods: In total, 194 paired serum samples collected from 97 patients with ...

    Abstract Background: The cross-reactive antibody response against seasonal human coronaviruses (HCoVs) was evaluated according to disease severity in patients with COVID-19 in Japan.
    Methods: In total, 194 paired serum samples collected from 97 patients with COVID-19 (mild, 35; severe, 62) were analyzed on admission and during convalescence. IgG antibodies against the nucleocapsid (N) and spike (S) proteins of SARS-CoV-2 and four seasonal HCoVs (HCoV-NL63, -229E, -OC43, and -HKU1) were detected by enzyme-linked immunosorbent assays.
    Results: There was no difference in optical density (OD) values for seasonal HCoVs on admission between the severe and mild cases. In addition, a specific pattern of disease severity-associated OD values for HCoVs was not identified. Significant increases in OD values from admission to convalescence for HCoV-HKU1and -OC43 IgG-S, and for HCoV-NL63 and -229E IgG-N were observed in the severe cases. Significant differences were observed between the mild and severe cases for HCoV-HKU1 and -OC43 IgG-S OD values during convalescence. Correlations were found between the fold changes for HCoV-OC43 IgG-S OD values, and for SARS-CoV-2 IgG-S OD values, and C-reactive protein, lactate dehydrogenase, and lymphocyte levels.
    Conclusion: There was no association between the antibody titer for seasonal HCoVs in the early phase of COVID-19 and disease severity.
    MeSH term(s) COVID-19 ; Humans ; Immunity, Humoral ; SARS-CoV-2 ; Seasons ; Severity of Illness Index ; Spike Glycoprotein, Coronavirus
    Chemical Substances Spike Glycoprotein, Coronavirus
    Language English
    Publishing date 2021-08-15
    Publishing country Canada
    Document type Journal Article
    ZDB-ID 1331197-9
    ISSN 1878-3511 ; 1201-9712
    ISSN (online) 1878-3511
    ISSN 1201-9712
    DOI 10.1016/j.ijid.2021.08.026
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Evaluation of the correlation between the access SARS-CoV-2 IgM and IgG II antibody tests with the SARS-CoV-2 surrogate virus neutralization test.

    Kitagawa, Yutaro / Imai, Kazuo / Matsuoka, Masaru / Fukada, Ai / Kubota, Katsumi / Sato, Momoko / Takada, Tomohito / Noguchi, Sakiko / Tarumoto, Norihito / Maesaki, Shigefumi / Takeuchi, Shinichi / Maeda, Takuya

    Journal of medical virology

    2021  Volume 94, Issue 1, Page(s) 335–341

    Abstract: Fully automated immunoassays for detecting severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) antibodies that are strongly correlated with neutralization antibodies (nAbs) are clinically important because they enable the assessment of humoral ... ...

    Abstract Fully automated immunoassays for detecting severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) antibodies that are strongly correlated with neutralization antibodies (nAbs) are clinically important because they enable the assessment of humoral immunity after infection and vaccination. Access SARS-CoV-2 immunoglobulin M (IgM) and immunoglobulin G (IgG) II antibody tests are semi-quantitative, fully automated immunoassays that detect anti-receptor-binding domain (RBD) antibodies and might reflect nAb levels in coronavirus disease 2019 (COVID-19). However, no studies have investigated the clinical utility of these tests in association with nAbs to date. To evaluate the clinical utility of Access SARS-CoV-2 IgM and IgG II antibody tests and their correlation with the SARS-CoV-2 surrogate virus neutralization test (sVNT) that measures nAbs in patients with COVID-19, we analyzed 54 convalescent serum samples from COVID-19 patients and 89 serum samples from non-COVID-19 patients. The presence of anti-RBD antibodies was detected using Access SARS-CoV-2 IgM and IgG II antibody tests, while nAbs were measured by sVNT. The sensitivity and specificity of sVNT were 94.4% and 98.9%, respectively. There were strong positive correlations between the inhibition values of sVNT and the results of the Access SARS-CoV-2 IgM (R = 0.95, R
    MeSH term(s) Adult ; Aged ; Aged, 80 and over ; Antibodies, Neutralizing/blood ; Antibodies, Viral/blood ; COVID-19/diagnosis ; Female ; Humans ; Immunoassay/methods ; Immunoglobulin G/blood ; Immunoglobulin M/blood ; Male ; Middle Aged ; Neutralization Tests/methods ; SARS-CoV-2/immunology ; Sensitivity and Specificity
    Chemical Substances Antibodies, Neutralizing ; Antibodies, Viral ; Immunoglobulin G ; Immunoglobulin M
    Language English
    Publishing date 2021-10-05
    Publishing country United States
    Document type Evaluation Study ; Journal Article
    ZDB-ID 752392-0
    ISSN 1096-9071 ; 0146-6615
    ISSN (online) 1096-9071
    ISSN 0146-6615
    DOI 10.1002/jmv.27338
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Presepsin as a predictive biomarker of severity in COVID-19: A case series.

    Fukada, Ai / Kitagawa, Yutaro / Matsuoka, Masaru / Sakai, Jun / Imai, Kazuo / Tarumoto, Norihito / Orihara, Yuta / Kawamura, Rieko / Takeuchi, Shinichi / Maesaki, Shigefumi / Maeda, Takuya

    Journal of medical virology

    2020  Volume 93, Issue 1, Page(s) 99–101

    MeSH term(s) Biomarkers/blood ; C-Reactive Protein/metabolism ; COVID-19/blood ; COVID-19/pathology ; Humans ; Lipopolysaccharide Receptors/blood ; Lipopolysaccharide Receptors/genetics ; Lipopolysaccharide Receptors/metabolism ; Mucin-1/blood ; Mucin-1/metabolism ; Peptide Fragments/blood ; Peptide Fragments/genetics ; Peptide Fragments/metabolism ; Retrospective Studies ; SARS-CoV-2
    Chemical Substances Biomarkers ; Lipopolysaccharide Receptors ; MUC1 protein, human ; Mucin-1 ; Peptide Fragments ; presepsin protein, human ; C-Reactive Protein (9007-41-4)
    Keywords covid19
    Language English
    Publishing date 2020-06-24
    Publishing country United States
    Document type Letter
    ZDB-ID 752392-0
    ISSN 1096-9071 ; 0146-6615
    ISSN (online) 1096-9071
    ISSN 0146-6615
    DOI 10.1002/jmv.26164
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article: Presepsin as a predictive biomarker of severity in COVID-19: A case series

    Fukada, Ai / Kitagawa, Yutaro / Matsuoka, Masaru / Sakai, Jun / Imai, Kazuo / Tarumoto, Norihito / Orihara, Yuta / Kawamura, Rieko / Takeuchi, Shinichi / Maesaki, Shigefumi / Maeda, Takuya

    J. med. virol

    Keywords covid19
    Publisher WHO
    Document type Article
    Note WHO #Covidence: #595668
    Database COVID19

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  9. Article: Live-cell imaging of HP1α throughout the cell cycle of mouse C3H10T1/2 cells and rhythmical flickering of heterochromatin dots in interphase

    Nakagawa, Chika / Kawakita, Ai / Fukada, Takashi / Sugimoto, Kenji

    Bioscience, biotechnology, and biochemistry. 2014 Apr. 3, v. 78, no. 4

    2014  

    Abstract: Heterochromatin protein 1 alpha (HP1α) localizes to heterochromatin in interphase and shows dynamic molecular behavior in living cells. We previously reported that during mitosis, the majority of HP1α diffused into the cytoplasm but some remained in ... ...

    Abstract Heterochromatin protein 1 alpha (HP1α) localizes to heterochromatin in interphase and shows dynamic molecular behavior in living cells. We previously reported that during mitosis, the majority of HP1α diffused into the cytoplasm but some remained in centromere heterochromatin. Here, we further characterize the molecular behavior of HP1α throughout the cell cycle. Time-lapse imaging of DsRed-HP1α through two successive cell divisions indicated that interphase can be divided into four phases. HP1α forms heterochromatin dots in early G1, which are maintained without any apparent changes (Phase 1). However, the HP1α dots begin to diffuse into the nucleoplasm and start flickering with a rhythmical cycle (Phase 2). Then, the HP1α dots diffuse further towards the periphery of the nucleus (Phase 3), and uniformly diffuse throughout the entire nucleus (Phase 4). Rhythmical flickering of HP1α dots in the middle of interphase may be useful for following cell cycle progression in mouse living cells.
    Keywords biotechnology ; centromeres ; cytoplasm ; heterochromatin ; interphase ; mice ; mitosis
    Language English
    Dates of publication 2014-0403
    Size p. 556-564.
    Publishing place Taylor & Francis
    Document type Article
    Note NAL-light
    ZDB-ID 1106450-x
    ISSN 1347-6947 ; 0916-8451
    ISSN (online) 1347-6947
    ISSN 0916-8451
    DOI 10.1080/09168451.2014.893184
    Database NAL-Catalogue (AGRICOLA)

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  10. Article ; Online: Presepsin as a predictive biomarker of severity in COVID‐19

    Fukada, Ai / Kitagawa, Yutaro / Matsuoka, Masaru / Sakai, Jun / Imai, Kazuo / Tarumoto, Norihito / Orihara, Yuta / Kawamura, Rieko / Takeuchi, Shinichi / Maesaki, Shigefumi / Maeda, Takuya

    Journal of Medical Virology ; ISSN 0146-6615 1096-9071

    A case series

    2020  

    Keywords Virology ; Infectious Diseases ; covid19
    Language English
    Publisher Wiley
    Publishing country us
    Document type Article ; Online
    DOI 10.1002/jmv.26164
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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