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  1. Article: Exit strategies from the COVID-19 lockdown for children and young people receiving home parenteral nutrition (HPN): lessons from the BSPGHAN Intestinal Failure Working Group experience.

    Barclay, Andrew Robert / McGuckin, Christina / Hill, Susan / Protheroe, Sue / Batra, Akshay

    Frontline gastroenterology

    2020  Volume 12, Issue 4, Page(s) 348–353

    Language English
    Publishing date 2020-10-27
    Publishing country England
    Document type Editorial
    ZDB-ID 2521857-8
    ISSN 2041-4137
    ISSN 2041-4137
    DOI 10.1136/flgastro-2020-101598
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  2. Article ; Online: Wheeze in the time of COVID-19: overcoming obstacles to an unusual diagnosis.

    Barclay, Mhairi / Buderi, Silviu / Bush, Andrew / Daniel, Mat / Jordan, Simon / Rice, Alexandra / Ruggins, Nigel / Semple, Thomas / Smyth, Alan Robert

    Thorax

    2022  Volume 77, Issue 10, Page(s) 1050–1053

    Abstract: This case is an example of a rare cause of a common clinical presentation (persistent lobar collapse with wheeze). We describe patient management from primary care through to a national thoracic referral centre. We highlight the importance of objective ... ...

    Abstract This case is an example of a rare cause of a common clinical presentation (persistent lobar collapse with wheeze). We describe patient management from primary care through to a national thoracic referral centre. We highlight the importance of objective testing to support an asthma diagnosis and the need to consider alternative or additional diagnoses if a patient does not respond to treatment or the clinical course is unexpected. We highlight the importance of follow-up X-ray to determine whether atelectasis has resolved, which was significantly delayed in this case due to COVID-19 restrictions. Though rare, an endobronchial tumour should be considered if atelectasis persists and when planning endoscopy for a presumed foreign body, especially if the clinical history and patient factors make a foreign body less likely. Greater awareness of this as a differential may expedite diagnoses for patients in future. We show how virtual, multicentre, multidisciplinary meetings can aid rapid diagnosis, surgical planning and coordination of follow-up across centres.
    MeSH term(s) Humans ; Tomography, X-Ray Computed ; COVID-19/diagnosis ; Asthma/diagnosis ; Bronchoscopy ; Pulmonary Atelectasis ; Diagnosis, Differential ; Foreign Bodies/diagnosis ; COVID-19 Testing
    Language English
    Publishing date 2022-06-29
    Publishing country England
    Document type Journal Article
    ZDB-ID 204353-1
    ISSN 1468-3296 ; 0040-6376
    ISSN (online) 1468-3296
    ISSN 0040-6376
    DOI 10.1136/thoraxjnl-2021-218526
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  3. Article ; Online: Exit strategies from the COVID-19 lockdown for children and young people receiving home parenteral nutrition (HPN)

    Barclay, Andrew Robert / McGuckin, Christina / Hill, Susan / Protheroe, Sue / Batra, Akshay

    Frontline Gastroenterology

    lessons from the BSPGHAN Intestinal Failure Working Group experience

    2020  , Page(s) flgastro–2020–101598

    Keywords covid19
    Language English
    Publisher BMJ
    Publishing country uk
    Document type Article ; Online
    ZDB-ID 2521857-8
    ISSN 2041-4137
    ISSN 2041-4137
    DOI 10.1136/flgastro-2020-101598
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  4. Article ; Online: Computational Derivation of Core, Dynamic Human Blunt Trauma Inflammatory Endotypes.

    Schimunek, Lukas / Lindberg, Haley / Cohen, Maria / Namas, Rami A / Mi, Qi / Yin, Jinling / Barclay, Derek / El-Dehaibi, Fayten / Abboud, Andrew / Zamora, Ruben / Billiar, Timothy Robert / Vodovotz, Yoram

    Frontiers in immunology

    2021  Volume 11, Page(s) 589304

    Abstract: Systemic inflammation ensues following traumatic injury, driving immune dysregulation and multiple organ dysfunction (MOD). While a balanced immune/inflammatory response is ideal for promoting tissue regeneration, most trauma patients exhibit variable ... ...

    Abstract Systemic inflammation ensues following traumatic injury, driving immune dysregulation and multiple organ dysfunction (MOD). While a balanced immune/inflammatory response is ideal for promoting tissue regeneration, most trauma patients exhibit variable and either overly exuberant or overly damped responses that likely drive adverse clinical outcomes. We hypothesized that these inflammatory phenotypes occur in the context of severe injury, and therefore sought to define clinically distinct endotypes of trauma patients based on their systemic inflammatory responses. Using Patient-Specific Principal Component Analysis followed by unsupervised hierarchical clustering of circulating inflammatory mediators obtained in the first 24 h after injury, we segregated a cohort of 227 blunt trauma survivors into three core endotypes exhibiting significant differences in requirement for mechanical ventilation, duration of ventilation, and MOD over 7 days. Nine non-survivors co-segregated with survivors. Dynamic network inference, Fisher Score analysis, and correlations of IL-17A with GM-CSF, IL-10, and IL-22 in the three survivor sub-groups suggested a role for type 3 immunity, in part regulated by Th17 and γδ 17 cells, and related tissue-protective cytokines as a key feature of systemic inflammation following injury. These endotypes may represent archetypal adaptive, over-exuberant, and overly damped inflammatory responses.
    MeSH term(s) Adolescent ; Adult ; Aged ; Aged, 80 and over ; Cytokines/immunology ; Female ; Humans ; Inflammation/immunology ; Male ; Middle Aged ; Phenotype ; Principal Component Analysis ; T-Lymphocytes/immunology ; Wounds and Injuries/immunology ; Young Adult
    Chemical Substances Cytokines
    Language English
    Publishing date 2021-01-18
    Publishing country Switzerland
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, Non-P.H.S.
    ZDB-ID 2606827-8
    ISSN 1664-3224 ; 1664-3224
    ISSN (online) 1664-3224
    ISSN 1664-3224
    DOI 10.3389/fimmu.2020.589304
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  5. Article ; Online: Computational Derivation of Core, Dynamic Human Blunt Trauma Inflammatory Endotypes

    Lukas Schimunek / Haley Lindberg / Maria Cohen / Rami A. Namas / Qi Mi / Jinling Yin / Derek Barclay / Fayten El-Dehaibi / Andrew Abboud / Ruben Zamora / Timothy Robert Billiar / Yoram Vodovotz

    Frontiers in Immunology, Vol

    2021  Volume 11

    Abstract: Systemic inflammation ensues following traumatic injury, driving immune dysregulation and multiple organ dysfunction (MOD). While a balanced immune/inflammatory response is ideal for promoting tissue regeneration, most trauma patients exhibit variable ... ...

    Abstract Systemic inflammation ensues following traumatic injury, driving immune dysregulation and multiple organ dysfunction (MOD). While a balanced immune/inflammatory response is ideal for promoting tissue regeneration, most trauma patients exhibit variable and either overly exuberant or overly damped responses that likely drive adverse clinical outcomes. We hypothesized that these inflammatory phenotypes occur in the context of severe injury, and therefore sought to define clinically distinct endotypes of trauma patients based on their systemic inflammatory responses. Using Patient-Specific Principal Component Analysis followed by unsupervised hierarchical clustering of circulating inflammatory mediators obtained in the first 24 h after injury, we segregated a cohort of 227 blunt trauma survivors into three core endotypes exhibiting significant differences in requirement for mechanical ventilation, duration of ventilation, and MOD over 7 days. Nine non-survivors co-segregated with survivors. Dynamic network inference, Fisher Score analysis, and correlations of IL-17A with GM-CSF, IL-10, and IL-22 in the three survivor sub-groups suggested a role for type 3 immunity, in part regulated by Th17 and γδ 17 cells, and related tissue-protective cytokines as a key feature of systemic inflammation following injury. These endotypes may represent archetypal adaptive, over-exuberant, and overly damped inflammatory responses.
    Keywords systems biology ; inflammation ; biomarker ; critical illness ; network analysis ; Immunologic diseases. Allergy ; RC581-607
    Subject code 610
    Language English
    Publishing date 2021-01-01T00:00:00Z
    Publisher Frontiers Media S.A.
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Article ; Online: Rapid emergence of transmissible SARS-CoV-2 variants in mild community cases

    Crone, Michael Andrew / Hakki, Seran / Zhou, Jie / Rosadas de Oliveira, Carolina / Madon, Kieran J / Koycheva, Aleksandra V / Badhan, Anjna / Jonnerby, Jakob / Fenn, Joe / Kundu, Rhia / Barnett, Jack L / Nevin, Sean / Conibear, Emily / Derqui-Fernandez, Nieves / Pillay, Timesh D / Varro, Robert / Luca, Constanta / Quinn, Valerie / Shazaad, Ahmad /
    Zambon, Maria / Barclay, Wendy / Dunning, Jake / Freemont, Paul S / Taylor, Graham P / Lalvani, Ajit

    medRxiv

    Abstract: SARS-CoV-2 immune-escape variants have only been observed to arise in immunosuppressed COVID-19 cases, during prolonged viral shedding. Through daily longitudinal RT-qPCR, quantitative viral culture and sequencing, we observe for the first time the ... ...

    Abstract SARS-CoV-2 immune-escape variants have only been observed to arise in immunosuppressed COVID-19 cases, during prolonged viral shedding. Through daily longitudinal RT-qPCR, quantitative viral culture and sequencing, we observe for the first time the evolution of transmissible variants harbouring mutations consistent with immune-escape in mild community cases within 2 weeks of infection.
    Keywords covid19
    Language English
    Publishing date 2023-02-23
    Publisher Cold Spring Harbor Laboratory Press
    Document type Article ; Online
    DOI 10.1101/2023.02.15.23285923
    Database COVID19

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  7. Article ; Online: Probiotics for preterm infants: confounding features warrant caution.

    Beattie, Lynne M / Hansen, Richard / Barclay, Andrew Robert

    Pediatrics

    2010  Volume 126, Issue 3, Page(s) e742–3; author reply e743–5

    MeSH term(s) Enterocolitis, Necrotizing/therapy ; Humans ; Infant, Newborn ; Infant, Premature, Diseases/therapy ; Probiotics/therapeutic use
    Language English
    Publishing date 2010-09
    Publishing country United States
    Document type Comment ; Letter
    ZDB-ID 207677-9
    ISSN 1098-4275 ; 0031-4005
    ISSN (online) 1098-4275
    ISSN 0031-4005
    DOI 10.1542/peds.2010-1949C
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  8. Article ; Online: The origins of SARS-CoV-2: A critical review.

    Holmes, Edward C / Goldstein, Stephen A / Rasmussen, Angela L / Robertson, David L / Crits-Christoph, Alexander / Wertheim, Joel O / Anthony, Simon J / Barclay, Wendy S / Boni, Maciej F / Doherty, Peter C / Farrar, Jeremy / Geoghegan, Jemma L / Jiang, Xiaowei / Leibowitz, Julian L / Neil, Stuart J D / Skern, Tim / Weiss, Susan R / Worobey, Michael / Andersen, Kristian G /
    Garry, Robert F / Rambaut, Andrew

    Cell

    2021  Volume 184, Issue 19, Page(s) 4848–4856

    Abstract: Since the first reports of a novel severe acute respiratory syndrome (SARS)-like coronavirus in December 2019 in Wuhan, China, there has been intense interest in understanding how severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) emerged in ... ...

    Abstract Since the first reports of a novel severe acute respiratory syndrome (SARS)-like coronavirus in December 2019 in Wuhan, China, there has been intense interest in understanding how severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) emerged in the human population. Recent debate has coalesced around two competing ideas: a "laboratory escape" scenario and zoonotic emergence. Here, we critically review the current scientific evidence that may help clarify the origin of SARS-CoV-2.
    MeSH term(s) Animals ; Biological Evolution ; COVID-19/virology ; Humans ; Laboratories ; SARS-CoV-2/genetics ; SARS-CoV-2/physiology ; Zoonoses/virology
    Language English
    Publishing date 2021-08-19
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 187009-9
    ISSN 1097-4172 ; 0092-8674
    ISSN (online) 1097-4172
    ISSN 0092-8674
    DOI 10.1016/j.cell.2021.08.017
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  9. Article ; Online: Safety, tolerability and viral kinetics during SARS-CoV-2 human challenge in young adults.

    Killingley, Ben / Mann, Alex J / Kalinova, Mariya / Boyers, Alison / Goonawardane, Niluka / Zhou, Jie / Lindsell, Kate / Hare, Samanjit S / Brown, Jonathan / Frise, Rebecca / Smith, Emma / Hopkins, Claire / Noulin, Nicolas / Löndt, Brandon / Wilkinson, Tom / Harden, Stephen / McShane, Helen / Baillet, Mark / Gilbert, Anthony /
    Jacobs, Michael / Charman, Christine / Mande, Priya / Nguyen-Van-Tam, Jonathan S / Semple, Malcolm G / Read, Robert C / Ferguson, Neil M / Openshaw, Peter J / Rapeport, Garth / Barclay, Wendy S / Catchpole, Andrew P / Chiu, Christopher

    Nature medicine

    2022  Volume 28, Issue 5, Page(s) 1031–1041

    Abstract: Since its emergence in 2019, severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has caused hundreds of millions of cases and continues to circulate globally. To establish a novel SARS-CoV-2 human challenge model that enables controlled ... ...

    Abstract Since its emergence in 2019, severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has caused hundreds of millions of cases and continues to circulate globally. To establish a novel SARS-CoV-2 human challenge model that enables controlled investigation of pathogenesis, correlates of protection and efficacy testing of forthcoming interventions, 36 volunteers aged 18-29 years without evidence of previous infection or vaccination were inoculated with 10 TCID
    MeSH term(s) Antibodies, Viral ; COVID-19 ; Humans ; Kinetics ; SARS-CoV-2 ; Treatment Outcome ; Viral Load ; Young Adult
    Chemical Substances Antibodies, Viral
    Language English
    Publishing date 2022-03-31
    Publishing country United States
    Document type Controlled Clinical Trial ; Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1220066-9
    ISSN 1546-170X ; 1078-8956
    ISSN (online) 1546-170X
    ISSN 1078-8956
    DOI 10.1038/s41591-022-01780-9
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  10. Article ; Online: SARS-CoV-2 human challenge reveals single-gene blood transcriptional biomarkers that discriminate early and late phases of acute respiratory viral infections

    Rosenheim, Joshua / Gupta, Rishi K / Thakker, Clare / Mann, Tiffeney / Bell, Lucy CK / Broderick, Claire M / Madon, Kieran / Papargyris, Loukas / Dayananda, Pete / Kwok, Andrew J / Greenan-Barrett, James / Wagstaffe, Helen R / Conibear, Emily / Fenn, Joe / Hakki, Seran / Lindeboom, Rik GH / Dratva, Lisa M / Lemetais, Briac / Weight, Caroline M /
    Venturini, Cristina / Kaforou, Myrsini / Levin, Michael / Kalinova, Mariya / Mann, Alex / Catchpole, Andrew / Knight, Julian C / Nikolić, Marko Z. / Teichmann, Sarah A. / Killingley, Ben / Barclay, Wendy / Chain, Benjamin M / Lalvani, Ajit / Heyderman, Robert S / Chiu, Christopher / Noursadeghi, Mahdad

    medRxiv

    Abstract: Evaluation of host-response blood transcriptional signatures of viral infection have so far failed to test whether these biomarkers reflect different biological processes that may be leveraged for distinct translational applications. We addressed this ... ...

    Abstract Evaluation of host-response blood transcriptional signatures of viral infection have so far failed to test whether these biomarkers reflect different biological processes that may be leveraged for distinct translational applications. We addressed this question in the SARS-CoV-2 human challenge model. We found differential time profiles for interferon (IFN) stimulated blood transcriptional responses represented by measurement of single genes. MX1 transcripts correlated with a rapid and transient wave of type 1 IFN stimulated genes (ISG) across all cell types, which may precede PCR detection of replicative infection. Another ISG, IFI27, showed a delayed but sustained response restricted to myeloid peripheral blood mononuclear cells, attributable to gene and cell-specific epigenetic regulation. These findings were reproducible in diverse respiratory virus challenges, and in natural infection with SARS-CoV-2 or unselected respiratory viruses. The MX1 response achieved superior diagnostic accuracy in early infection, correlation with viral load and identification of virus culture positivity, with potential to stratify patients for time sensitive antiviral treatment. IFI27 achieved superior diagnostic accuracy across the time course of symptomatic infection. Compared to blood, measurement of these responses in nasal mucosal samples was less sensitive and did not discriminate between early and late phases of infection.
    Keywords covid19
    Language English
    Publishing date 2023-06-05
    Publisher Cold Spring Harbor Laboratory Press
    Document type Article ; Online
    DOI 10.1101/2023.06.01.23290819
    Database COVID19

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