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  1. Article ; Online: Using Families to Study Pulmonary Fibrosis Genetics.

    Allen, Richard J

    American journal of respiratory and critical care medicine

    2023  Volume 207, Issue 10, Page(s) 1264–1266

    MeSH term(s) Humans ; Idiopathic Pulmonary Fibrosis/genetics ; Mutation
    Language English
    Publishing date 2023-02-15
    Publishing country United States
    Document type Editorial ; Comment
    ZDB-ID 1180953-x
    ISSN 1535-4970 ; 0003-0805 ; 1073-449X
    ISSN (online) 1535-4970
    ISSN 0003-0805 ; 1073-449X
    DOI 10.1164/rccm.202301-0098ED
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Untangling 11p15.5 for Chronic Hypersensitivity Pneumonitis.

    Allen, Richard J

    Chest

    2022  Volume 161, Issue 2, Page(s) 307–308

    MeSH term(s) Alveolitis, Extrinsic Allergic/diagnosis ; Humans ; Lung
    Language English
    Publishing date 2022-02-07
    Publishing country United States
    Document type Editorial ; Comment
    ZDB-ID 1032552-9
    ISSN 1931-3543 ; 0012-3692
    ISSN (online) 1931-3543
    ISSN 0012-3692
    DOI 10.1016/j.chest.2021.08.055
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: In Memorium: Calvin (Herb) Ward.

    Wenning, Richard J / Burton, G Allen

    Environmental toxicology and chemistry

    2024  

    Language English
    Publishing date 2024-04-24
    Publishing country United States
    Document type Journal Article
    ZDB-ID 46234-2
    ISSN 1552-8618 ; 0730-7268
    ISSN (online) 1552-8618
    ISSN 0730-7268
    DOI 10.1002/etc.5870
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Does phenology influence predation rate on Salmo trutta parr during lake migration?

    Kennedy, Richard J / Barry, James / Boyd, Adele / Allen, Michelle

    Journal of fish biology

    2024  

    Abstract: Acoustic tags fitted with predation sensors, which trigger following ingestion by piscivorous predators, were used to compare direct predation rates during downstream migration (out-migration) of potamodromous (freshwater) brown trout (Salmo trutta L.) ... ...

    Abstract Acoustic tags fitted with predation sensors, which trigger following ingestion by piscivorous predators, were used to compare direct predation rates during downstream migration (out-migration) of potamodromous (freshwater) brown trout (Salmo trutta L.) parr from their natal river into a large freshwater lake system during spring and autumn. Thirty-eight spring migrants were tagged across two study years (2021 and 2022) of which 13 individuals (34%) were predated. By contrast 40 autumn migrants were tagged (2020 and 2021) of which three individuals (7.5%) experienced predation. The overall predation loss rate for spring migrants was 0.342% day
    Language English
    Publishing date 2024-03-16
    Publishing country England
    Document type Journal Article
    ZDB-ID 410564-3
    ISSN 1095-8649 ; 0022-1112
    ISSN (online) 1095-8649
    ISSN 0022-1112
    DOI 10.1111/jfb.15719
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Intentional and incidental odour-colour binding in working memory.

    Johnson, Andrew J / Allen, Richard J

    Memory (Hove, England)

    2022  Volume 31, Issue 1, Page(s) 92–107

    Abstract: The question of how features are bound together in working memory has become a topic of much research in recent years. However, this is typically focused on visual and/or auditory stimuli. The purpose of this study is to apply established feature binding ...

    Abstract The question of how features are bound together in working memory has become a topic of much research in recent years. However, this is typically focused on visual and/or auditory stimuli. The purpose of this study is to apply established feature binding procedures to investigate odour binding in working memory. Across three experiments, memory for intentionally and incidentally formed odour-colour pairings was tested. Experiment 1 showed that following explicit instruction to remember the odour-colour combinations, young adults can recall lists of 3-pairings at levels above that of chance and exhibit a recency advantage for the last pairing. In Experiment 2 participants were asked to prioritise the first pairing in the list or treat all pairings equally. We observed only limited evidence of prioritisation affecting the serial position function. Experiment 3 explored incidental odour-colour binding. Using a yes/no recognition procedure, accuracy did not differ for positive test probes presented in the same (bound) or different (unbound) colour to encoding. This study is one of the first to examine odour-colour binding in working memory and, taking the evidence together, suggests that odour-colour bindings can be formed in working memory; however, functionality may be limited compared to that of visual feature binding.
    MeSH term(s) Young Adult ; Humans ; Memory, Short-Term ; Odorants ; Color ; Mental Recall ; Recognition, Psychology
    Language English
    Publishing date 2022-09-21
    Publishing country England
    Document type Journal Article
    ZDB-ID 1147478-6
    ISSN 1464-0686 ; 0965-8211
    ISSN (online) 1464-0686
    ISSN 0965-8211
    DOI 10.1080/09658211.2022.2124273
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article: A continuous-time Markov chain model of fibrosis progression in NAFLD and NASH.

    Meyer, Lyndsey F / Musante, Cynthia J / Allen, Richard

    Frontiers in medicine

    2023  Volume 10, Page(s) 1130890

    Abstract: The specific pathways, timescales, and dynamics driving the progression of fibrosis in NAFLD and NASH are not yet fully understood. Hence, a mechanistic model of the pathogenesis and treatment of fibrosis in NASH will necessarily have significant ... ...

    Abstract The specific pathways, timescales, and dynamics driving the progression of fibrosis in NAFLD and NASH are not yet fully understood. Hence, a mechanistic model of the pathogenesis and treatment of fibrosis in NASH will necessarily have significant uncertainties. The rate of fibrosis progression and the heterogeneity of pathogenesis across patients are not thoroughly quantified. To address this problem, we have developed a continuous-time Markov chain model that is able to capture the heterogeneity of fibrosis progression observed in the clinic. We estimated the average time of disease progression through various stages of fibrosis using seven published clinical studies involving paired liver biopsies. Sensitivity analysis revealed therapeutic intervention at stage F1 or stage F2 results in greatest potential improvement in the average fibrosis scores for a typical patient cohort distribution. These results were in good agreement with a retrospective analysis of placebo-controlled pioglitazone clinical trials for the treatment of NAFLD and NASH. This model provides support for determining patient populations, duration, and potential successful endpoints for clinical trial design in the area of NAFLD and NASH.
    Language English
    Publishing date 2023-05-30
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2775999-4
    ISSN 2296-858X
    ISSN 2296-858X
    DOI 10.3389/fmed.2023.1130890
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: An Atypical Case of Optic Neuropathy.

    Williams, Katherine J / Allen, Richard C

    JAMA ophthalmology

    2021  Volume 140, Issue 1, Page(s) 88–89

    MeSH term(s) Humans ; Optic Nerve ; Optic Nerve Diseases/diagnosis ; Optic Nerve Diseases/etiology
    Language English
    Publishing date 2021-11-18
    Publishing country United States
    Document type Case Reports ; Journal Article
    ZDB-ID 2701705-9
    ISSN 2168-6173 ; 2168-6165
    ISSN (online) 2168-6173
    ISSN 2168-6165
    DOI 10.1001/jamaophthalmol.2021.1466
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Prioritizing Targets and Minimizing Distraction Within Limited Capacity Working Memory: Commentary on 'Working memory and attention; a conceptual analysis and review' by Klaus Oberauer.

    Allen, Richard J

    Journal of cognition

    2019  Volume 2, Issue 1, Page(s) 32

    Abstract: Oberauer (2019) maps out different perspectives that have emerged in exploring working memory and attention, and suggests particular ways in which these key aspects of cognition might operate in the service of successful goal completion. One question ... ...

    Abstract Oberauer (2019) maps out different perspectives that have emerged in exploring working memory and attention, and suggests particular ways in which these key aspects of cognition might operate in the service of successful goal completion. One question that is central to Oberauer's review and to the field more generally concerns how automatic and controlled attention interact with each other and with working memory. In line with this, recent research indicates that both forms of attention can operate within the same task to determine whether information is maintained in working memory. Perceptual attention can be automatically captured by environmental input, resulting in superior recall for the most recent stimulus, along with unwanted disruption by distracting stimuli. Effortful top-down control, powered by executive resources, operates within this context to create and maintain task goals, and to support the maintenance of target information in an accessible state, particularly if it is of greater value/goal relevance.
    Language English
    Publishing date 2019-08-08
    Publishing country England
    Document type Journal Article
    ISSN 2514-4820
    ISSN (online) 2514-4820
    DOI 10.5334/joc.75
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: Working memory prioritisation effects in tactile immediate serial recall.

    Roe, Daisy / Allen, Richard J / Elsley, Jane / Miles, Christopher / Johnson, Andrew J

    Quarterly journal of experimental psychology (2006)

    2024  , Page(s) 17470218241231283

    Abstract: There is a growing body of evidence that higher-value information can be prioritised for both visual and auditory working memory. The present study examines whether valuable items can similarly be prioritised for the tactile domain. Employing an ... ...

    Abstract There is a growing body of evidence that higher-value information can be prioritised for both visual and auditory working memory. The present study examines whether valuable items can similarly be prioritised for the tactile domain. Employing an immediate serial recall procedure (ISR), participants reconstructed a 6-item tactile sequence by moving their fingers in the order of original stimulation. Participants were informed either that one serial position was worth notionally more points (prioritisation condition) or that all items were of equal value (control condition). For Experiment 1 (
    Language English
    Publishing date 2024-02-27
    Publishing country England
    Document type Journal Article
    ZDB-ID 219170-2
    ISSN 1747-0226 ; 0033-555X ; 1747-0218
    ISSN (online) 1747-0226
    ISSN 0033-555X ; 1747-0218
    DOI 10.1177/17470218241231283
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: A quantitative systems pharmacology model of the pathophysiology and treatment of COVID-19 predicts optimal timing of pharmacological interventions.

    Rao, Rohit / Musante, Cynthia J / Allen, Richard

    NPJ systems biology and applications

    2023  Volume 9, Issue 1, Page(s) 13

    Abstract: A quantitative systems pharmacology (QSP) model of the pathogenesis and treatment of SARS-CoV-2 infection can streamline and accelerate the development of novel medicines to treat COVID-19. Simulation of clinical trials allows in silico exploration of ... ...

    Abstract A quantitative systems pharmacology (QSP) model of the pathogenesis and treatment of SARS-CoV-2 infection can streamline and accelerate the development of novel medicines to treat COVID-19. Simulation of clinical trials allows in silico exploration of the uncertainties of clinical trial design and can rapidly inform their protocols. We previously published a preliminary model of the immune response to SARS-CoV-2 infection. To further our understanding of COVID-19 and treatment, we significantly updated the model by matching a curated dataset spanning viral load and immune responses in plasma and lung. We identified a population of parameter sets to generate heterogeneity in pathophysiology and treatment and tested this model against published reports from interventional SARS-CoV-2 targeting mAb and antiviral trials. Upon generation and selection of a virtual population, we match both the placebo and treated responses in viral load in these trials. We extended the model to predict the rate of hospitalization or death within a population. Via comparison of the in silico predictions with clinical data, we hypothesize that the immune response to virus is log-linear over a wide range of viral load. To validate this approach, we show the model matches a published subgroup analysis, sorted by baseline viral load, of patients treated with neutralizing Abs. By simulating intervention at different time points post infection, the model predicts efficacy is not sensitive to interventions within five days of symptom onset, but efficacy is dramatically reduced if more than five days pass post symptom onset prior to treatment.
    MeSH term(s) Humans ; COVID-19 ; SARS-CoV-2 ; Network Pharmacology
    Language English
    Publishing date 2023-04-14
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ISSN 2056-7189
    ISSN (online) 2056-7189
    DOI 10.1038/s41540-023-00269-6
    Database MEDical Literature Analysis and Retrieval System OnLINE

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