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  1. Article ; Online: Fe K-edge x-ray absorption spectroscopy of corrosion phases of archaeological iron: results, limitations, and the need for complementary techniques.

    Simon, Hayley / Cibin, Giannantonio / Freestone, Ian / Schofield, Eleanor

    Journal of physics. Condensed matter : an Institute of Physics journal

    2021  Volume 33, Issue 34

    Abstract: Data analysis methods for iron x-ray absorption spectroscopy can provide extensive information about the oxidation state and co-ordination of an Fe-species. However, the extent to which techniques developed using a single-phase iron sample may be applied ...

    Abstract Data analysis methods for iron x-ray absorption spectroscopy can provide extensive information about the oxidation state and co-ordination of an Fe-species. However, the extent to which techniques developed using a single-phase iron sample may be applied to complex, mixed-phase samples formed under real-world conditions is not clear. This work uses a combination of pre-edge fitting and linear combination analysis to characterise the near edge region of the x-ray absorption spectrum (XANES) for a set of archaeological iron corrosion samples from a collection of cast iron cannon shot excavated from the
    Language English
    Publishing date 2021-07-01
    Publishing country England
    Document type Journal Article
    ZDB-ID 1472968-4
    ISSN 1361-648X ; 0953-8984
    ISSN (online) 1361-648X
    ISSN 0953-8984
    DOI 10.1088/1361-648X/ac08b6
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  2. Article ; Online: JAML immunotherapy targets recently activated tumor-infiltrating CD8

    Eschweiler, Simon / Wang, Alice / Ramírez-Suástegui, Ciro / von Witzleben, Adrian / Li, Yingcong / Chee, Serena J / Simon, Hayley / Mondal, Monalisa / Ellis, Matthew / Thomas, Gareth J / Chandra, Vivek / Ottensmeier, Christian H / Vijayanand, Pandurangan

    Cell reports

    2023  Volume 42, Issue 2, Page(s) 112040

    Abstract: Junctional adhesion molecule-like protein (JAML) serves as a co-stimulatory molecule in γδ T cells. While it has recently been described as a cancer immunotherapy target in mice, its potential to cause toxicity, specific mode of action with regard to its ...

    Abstract Junctional adhesion molecule-like protein (JAML) serves as a co-stimulatory molecule in γδ T cells. While it has recently been described as a cancer immunotherapy target in mice, its potential to cause toxicity, specific mode of action with regard to its cellular targets, and whether it can be targeted in humans remain unknown. Here, we show that JAML is induced by T cell receptor engagement, reveal that this induction is linked to cis-regulatory interactions between the CD3D and JAML gene loci. When compared with other immunotherapy targets plagued by low target specificity and end-organ toxicity, we find JAML to be mostly restricted to and highly expressed by tissue-resident memory CD8
    MeSH term(s) Humans ; Animals ; Mice ; Junctional Adhesion Molecules ; Cell Adhesion Molecules/metabolism ; CD8-Positive T-Lymphocytes/metabolism ; Neoplasms ; Immunotherapy ; Lymphocytes, Tumor-Infiltrating/metabolism
    Chemical Substances Junctional Adhesion Molecules ; Cell Adhesion Molecules
    Language English
    Publishing date 2023-01-25
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2649101-1
    ISSN 2211-1247 ; 2211-1247
    ISSN (online) 2211-1247
    ISSN 2211-1247
    DOI 10.1016/j.celrep.2023.112040
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  3. Article ; Online: Cytotoxic CD4

    Herrera-De La Mata, Sara / Ramírez-Suástegui, Ciro / Mistry, Heena / Castañeda-Castro, Francisco Emmanuel / Kyyaly, Mohammad A / Simon, Hayley / Liang, Shu / Lau, Laurie / Barber, Clair / Mondal, Monalisa / Zhang, Hongmei / Arshad, Syed Hasan / Kurukulaaratchy, Ramesh J / Vijayanand, Pandurangan / Seumois, Grégory

    Med (New York, N.Y.)

    2023  Volume 4, Issue 12, Page(s) 875–897.e8

    Abstract: Background: Patients with severe uncontrolled asthma represent a distinct endotype with persistent airway inflammation and remodeling that is refractory to corticosteroid treatment. CD4: Methods: We performed single-cell transcriptome analysis of >50, ...

    Abstract Background: Patients with severe uncontrolled asthma represent a distinct endotype with persistent airway inflammation and remodeling that is refractory to corticosteroid treatment. CD4
    Methods: We performed single-cell transcriptome analysis of >50,000 airway CD4
    Findings: We observed striking heterogeneity in the nature of CD4
    Conclusions: Our findings indicate the need to look beyond the traditional T2 model of severe asthma to better understand the heterogeneity of this disease.
    Funding: This research was funded by the NIH.
    MeSH term(s) Humans ; Male ; Memory T Cells ; Asthma/metabolism ; Cytokines/metabolism ; CD4-Positive T-Lymphocytes/metabolism ; Inflammation/metabolism
    Chemical Substances Cytokines
    Language English
    Publishing date 2023-10-20
    Publishing country United States
    Document type Journal Article
    ISSN 2666-6340
    ISSN (online) 2666-6340
    DOI 10.1016/j.medj.2023.09.003
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  4. Article ; Online: Single-cell eQTL analysis of activated T cell subsets reveals activation and cell type-dependent effects of disease-risk variants.

    Schmiedel, Benjamin J / Gonzalez-Colin, Cristian / Fajardo, Vicente / Rocha, Job / Madrigal, Ariel / Ramírez-Suástegui, Ciro / Bhattacharyya, Sourya / Simon, Hayley / Greenbaum, Jason A / Peters, Bjoern / Seumois, Grégory / Ay, Ferhat / Chandra, Vivek / Vijayanand, Pandurangan

    Science immunology

    2022  Volume 7, Issue 68, Page(s) eabm2508

    Abstract: The impact of genetic variants on cells challenged in biologically relevant contexts has not been fully explored. Here, we activated ... ...

    Abstract The impact of genetic variants on cells challenged in biologically relevant contexts has not been fully explored. Here, we activated CD4
    MeSH term(s) Adolescent ; Adult ; CD4-Positive T-Lymphocytes/immunology ; Female ; Humans ; Male ; Middle Aged ; Polymorphism, Genetic/genetics ; Quantitative Trait Loci ; Single-Cell Analysis ; T-Lymphocyte Subsets/immunology ; Young Adult
    Language English
    Publishing date 2022-02-25
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ISSN 2470-9468
    ISSN (online) 2470-9468
    DOI 10.1126/sciimmunol.abm2508
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: A Synchrotron-Based Study of the Mary Rose Iron Cannonballs.

    Simon, Hayley / Cibin, Giannantonio / Robbins, Phil / Day, Sarah / Tang, Chiu / Freestone, Ian / Schofield, Eleanor

    Angewandte Chemie (International ed. in English)

    2018  Volume 57, Issue 25, Page(s) 7390–7395

    Abstract: Post-excavation iron corrosion may be accelerated by the presence of ... ...

    Abstract Post-excavation iron corrosion may be accelerated by the presence of Cl
    Language English
    Publishing date 2018-03-08
    Publishing country Germany
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2011836-3
    ISSN 1521-3773 ; 1433-7851
    ISSN (online) 1521-3773
    ISSN 1433-7851
    DOI 10.1002/anie.201713120
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  6. Article ; Online: Ustekinumab in Pediatric Crohn Disease Patients.

    Bishop, Casey / Simon, Hayley / Suskind, David / Lee, Dale / Wahbeh, Ghassan

    Journal of pediatric gastroenterology and nutrition

    2016  Volume 63, Issue 3, Page(s) 348–351

    Abstract: Objectives: We describe the use of ustekinumab for 4 patients with pediatric Crohn disease treated at the Seattle Children's Hospital Inflammatory Bowel Disease Center.: Methods: A retrospective chart review was done to identify patients' clinical ... ...

    Abstract Objectives: We describe the use of ustekinumab for 4 patients with pediatric Crohn disease treated at the Seattle Children's Hospital Inflammatory Bowel Disease Center.
    Methods: A retrospective chart review was done to identify patients' clinical data, disease phenotype, treatment history, and laboratory and growth parameters before treatment with ustekinumab and at last follow-up. Adverse events while on ustekinumab were also recorded.
    Results: Four adolescent patients with Crohn disease at our center received ustekinumab. All had previously received corticosteroids, methotrexate, azathioprine/6-mercaptopurine, and both infliximab and adalimumab. Patients had varying disease phenotypes. Ages at ustekinumab initiation were 12, 13, 16, and 17 years. Weight ranged from 40.5 to 57.8 kg, mean 49.5 kg. Two patients showed clinical response and remain on ustekinumab. Two patients discontinued therapy because of continued symptoms and disease complications and required multiple hospitalizations.
    Conclusions: Ustekinumab was used in 4 children with pediatric Crohn disease with 2 of 4 patients showing clinical response (1 with persistently elevated C-reactive protein). A prospective study is needed to define its efficacy, safety, and placement in managing pediatric Crohn disease in the future.
    Language English
    Publishing date 2016-09
    Publishing country United States
    Document type Journal Article
    ZDB-ID 603201-1
    ISSN 1536-4801 ; 0277-2116
    ISSN (online) 1536-4801
    ISSN 0277-2116
    DOI 10.1097/MPG.0000000000001146
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    In stock of ZB MED Cologne/Königswinter

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  7. Article ; Online: Severely ill COVID-19 patients display impaired exhaustion features in SARS-CoV-2-reactive CD8

    Kusnadi, Anthony / Ramírez-Suástegui, Ciro / Fajardo, Vicente / Chee, Serena J / Meckiff, Benjamin J / Simon, Hayley / Pelosi, Emanuela / Seumois, Grégory / Ay, Ferhat / Vijayanand, Pandurangan / Ottensmeier, Christian H

    Science immunology

    2021  Volume 6, Issue 55

    Abstract: The molecular properties of ... ...

    Abstract The molecular properties of CD8
    MeSH term(s) Adult ; Aged ; Aged, 80 and over ; CD8-Positive T-Lymphocytes/immunology ; COVID-19/immunology ; Female ; Glycolysis/immunology ; Humans ; Immunologic Memory/immunology ; Male ; Middle Aged ; NF-kappa B/immunology ; SARS-CoV-2/immunology ; Signal Transduction/immunology ; Single-Cell Analysis/methods ; Young Adult
    Chemical Substances NF-kappa B
    Language English
    Publishing date 2021-01-21
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ISSN 2470-9468
    ISSN (online) 2470-9468
    DOI 10.1126/sciimmunol.abe4782
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  8. Article ; Online: Transcriptomes and metabolism define mouse and human MAIT cell populations.

    Chandra, Shilpi / Ascui, Gabriel / Riffelmacher, Thomas / Chawla, Ashu / Ramírez-Suástegui, Ciro / Castelan, Viankail C / Seumois, Gregory / Simon, Hayley / Murray, Mallory P / Seo, Goo-Young / Premlal, Ashmitaa L R / Schmiedel, Benjamin / Verstichel, Greet / Li, Yingcong / Lin, Chia-Hao / Greenbaum, Jason / Lamberti, John / Murthy, Raghav / Nigro, John /
    Cheroutre, Hilde / Ottensmeier, Christian H / Hedrick, Stephen M / Lu, Li-Fan / Vijayanand, Pandurangan / Kronenberg, Mitchell

    Science immunology

    2023  Volume 8, Issue 89, Page(s) eabn8531

    Abstract: Mucosal-associated invariant T (MAIT) cells are a subset of T lymphocytes that respond to microbial metabolites. We defined MAIT cell populations in different organs and characterized the developmental pathway of mouse and human MAIT cells in the thymus ... ...

    Abstract Mucosal-associated invariant T (MAIT) cells are a subset of T lymphocytes that respond to microbial metabolites. We defined MAIT cell populations in different organs and characterized the developmental pathway of mouse and human MAIT cells in the thymus using single-cell RNA sequencing and phenotypic and metabolic analyses. We showed that the predominant mouse subset, which produced IL-17 (MAIT17), and the subset that produced IFN-γ (MAIT1) had not only greatly different transcriptomes but also different metabolic states. MAIT17 cells in different organs exhibited increased lipid uptake, lipid storage, and mitochondrial potential compared with MAIT1 cells. All these properties were similar in the thymus and likely acquired there. Human MAIT cells in lung and blood were more homogeneous but still differed between tissues. Human MAIT cells had increased fatty acid uptake and lipid storage in blood and lung, similar to human CD8 T resident memory cells, but unlike mouse MAIT17 cells, they lacked increased mitochondrial potential. Although mouse and human MAIT cell transcriptomes showed similarities for immature cells in the thymus, they diverged more strikingly in the periphery. Analysis of pet store mice demonstrated decreased lung MAIT17 cells in these so-called "dirty" mice, indicative of an environmental influence on MAIT cell subsets and function.
    MeSH term(s) Humans ; Mucosal-Associated Invariant T Cells ; Transcriptome ; CD8-Positive T-Lymphocytes ; Thymus Gland ; Lipids
    Chemical Substances Lipids
    Language English
    Publishing date 2023-11-10
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural
    ISSN 2470-9468
    ISSN (online) 2470-9468
    DOI 10.1126/sciimmunol.abn8531
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  9. Article: Imbalance of Regulatory and Cytotoxic SARS-CoV-2-Reactive CD4+ T Cells in COVID-19

    Meckiff, Benjamin J / Ramírez-Suástegui, Ciro / Fajardo, Vicente / Chee, Serena J / Kusnadi, Anthony / Simon, Hayley / Eschweiler, Simon / Grifoni, Alba / Pelosi, Emanuela / Weiskopf, Daniela / Sette, Alessandro / Ay, Ferhat / Seumois, Grégory / Ottensmeier, Christian H / Vijayanand, Pandurangan

    Cell. 2020 Nov. 25, v. 183, no. 5

    2020  

    Abstract: The contribution of CD4⁺ T cells to protective or pathogenic immune responses to SARS-CoV-2 infection remains unknown. Here, we present single-cell transcriptomic analysis of >100,000 viral antigen-reactive CD4⁺ T cells from 40 COVID-19 patients. In ... ...

    Abstract The contribution of CD4⁺ T cells to protective or pathogenic immune responses to SARS-CoV-2 infection remains unknown. Here, we present single-cell transcriptomic analysis of >100,000 viral antigen-reactive CD4⁺ T cells from 40 COVID-19 patients. In hospitalized patients compared to non-hospitalized patients, we found increased proportions of cytotoxic follicular helper cells and cytotoxic T helper (TH) cells (CD4-CTLs) responding to SARS-CoV-2 and reduced proportion of SARS-CoV-2-reactive regulatory T cells (TREG). Importantly, in hospitalized COVID-19 patients, a strong cytotoxic TFH response was observed early in the illness, which correlated negatively with antibody levels to SARS-CoV-2 spike protein. Polyfunctional TH1 and TH17 cell subsets were underrepresented in the repertoire of SARS-CoV-2-reactive CD4⁺ T cells compared to influenza-reactive CD4⁺ T cells. Together, our analyses provide insights into the gene expression patterns of SARS-CoV-2-reactive CD4⁺ T cells in distinct disease severities.
    Keywords CD4-positive T-lymphocytes ; COVID-19 infection ; Severe acute respiratory syndrome coronavirus 2 ; antibodies ; cytotoxicity ; gene expression ; transcriptomics
    Language English
    Dates of publication 2020-1125
    Size p. 1340-1353.e16.
    Publishing place Elsevier Inc.
    Document type Article
    Note NAL-AP-2-clean
    ZDB-ID 187009-9
    ISSN 1097-4172 ; 0092-8674
    ISSN (online) 1097-4172
    ISSN 0092-8674
    DOI 10.1016/j.cell.2020.10.001
    Database NAL-Catalogue (AGRICOLA)

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    In stock of ZB MED Bonn / Germany

    Z 75/702: Show issues
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  10. Article: Single-cell transcriptomic analysis of SARS-CoV-2 reactive CD4

    Meckiff, Benjamin J / Ramírez-Suástegui, Ciro / Fajardo, Vicente / Chee, Serena J / Kusnadi, Anthony / Simon, Hayley / Grifoni, Alba / Pelosi, Emanuela / Weiskopf, Daniela / Sette, Alessandro / Ay, Ferhat / Seumois, Grégory / Ottensmeier, Christian H / Vijayanand, Pandurangan

    bioRxiv : the preprint server for biology

    2020  

    Abstract: The contribution of ... ...

    Abstract The contribution of CD4
    Keywords covid19
    Language English
    Publishing date 2020-06-13
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2020.06.12.148916
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