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  1. Article ; Online: What does cognitive screening reveal about early cognitive performance following endovascular clot retrieval and intravenous thrombolysis in acute ischaemic stroke?

    Humphrey, Sam / Pike, Kerryn E / Long, Brian / Ma, Henry / Bourke, Robert / Byrne, Danielle / Wright, Bradley / Wong, Dana

    Brain impairment : a multidisciplinary journal of the Australian Society for the Study of Brain Impairment

    2024  Volume 25

    Abstract: Background Little is known regarding cognitive outcomes following treatment with endovascular clot retrieval (ECR) and intravenous tissue plasminogen activator (t-PA). We aimed to determine if there were any differences on a measure of cognitive ... ...

    Abstract Background Little is known regarding cognitive outcomes following treatment with endovascular clot retrieval (ECR) and intravenous tissue plasminogen activator (t-PA). We aimed to determine if there were any differences on a measure of cognitive screening between patients treated with ECR, t-PA, and those who were managed conservatively. Methods The medical records of ischaemic stroke patients admitted to Monash Medical Centre between January 2019 and December 2019 were retrospectively reviewed. Information extracted from medical records included age, sex, National Institutes of Health Stroke Scale at presentation, location of occlusion, treatment type, medical history, and cognitive screening performance measured by the Montreal Cognitive Assessment (MoCA). Results Eighty-two patients met the inclusion criteria (mean age = 66.5 ± 13.9; 49 male, 33 female). Patients treated with ECR performed significantly better on the MoCA (n  = 36, 24.1 ± 4.3) compared to those who were managed conservatively (n  = 26, 20.7 ± 5.5). Performance for patients treated with t-PA (n  = 20, 23.9 ± 3.5) fell between the ECR and conservative management groups, but they did not significantly differ from either. Conclusion Our retrospective chart review found that ischaemic stroke patients treated with ECR appear to perform better on cognitive screening compared to patients who are managed conservatively. We also found that patients treated with ECR and t-PA appear to have similar cognitive screening performances in the acute stages following ischaemic stroke, although this finding is likely to have been impacted by group differences in stroke characteristics and may reflect the possibility that the ECR group performed better than expected based on their stroke severity.
    MeSH term(s) Humans ; Male ; Female ; Middle Aged ; Aged ; Aged, 80 and over ; Tissue Plasminogen Activator/therapeutic use ; Stroke/drug therapy ; Brain Ischemia/drug therapy ; Fibrinolytic Agents/therapeutic use ; Retrospective Studies ; Ischemic Stroke/drug therapy ; Thrombosis/drug therapy ; Thrombolytic Therapy/methods ; Cognition
    Chemical Substances Tissue Plasminogen Activator (EC 3.4.21.68) ; Fibrinolytic Agents
    Language English
    Publishing date 2024-04-02
    Publishing country Australia
    Document type Journal Article
    ZDB-ID 2180113-7
    ISSN 1839-5252 ; 1443-9646
    ISSN (online) 1839-5252
    ISSN 1443-9646
    DOI 10.1071/IB23066
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: The Relationship Between Cognitive Functioning and Symptoms of Depression, Anxiety, and Post-Traumatic Stress Disorder in Adults with a Traumatic Brain Injury: a Meta-Analysis.

    Uiterwijk, Daniel / Stargatt, Robyn / Humphrey, Sam / Crowe, Simon F

    Neuropsychology review

    2021  Volume 32, Issue 4, Page(s) 758–806

    Abstract: A thorough understanding of the relationship between cognitive test performance and symptoms of depression, anxiety, or post-traumatic stress disorder (PTSD) in people with traumatic brain injury (TBI) is important given the high prevalence of these ... ...

    Abstract A thorough understanding of the relationship between cognitive test performance and symptoms of depression, anxiety, or post-traumatic stress disorder (PTSD) in people with traumatic brain injury (TBI) is important given the high prevalence of these emotional symptoms following injury. It is also important to understand whether these relationships are affected by TBI severity, and the validity of test performance and symptom report. This meta-analysis was conducted to investigate whether these symptoms are associated with cognitive test performance alterations in adults with a TBI. This meta-analysis was prospectively registered on the PROSPERO International Prospective Register of Systematic Reviews website (registration number: CRD42018089194). The electronic databases Medline, PsycINFO, and CINAHL were searched for journal articles published up until May 2020. In total, 61 studies were included, which enabled calculation of pooled effect sizes for the cognitive domains of immediate memory (verbal and visual), recent memory (verbal and visual), attention, executive function, processing speed, and language. Depression had a small, negative relationship with most cognitive domains. These relationships remained, for the most part, when samples with mild TBI (mTBI)-only were analysed separately, but not for samples with more severe TBI (sTBI)-only. A similar pattern of results was found in the anxiety analysis. PTSD had a small, negative relationship with verbal memory, in samples with mTBI-only. No data were available for the PTSD analysis with sTBI samples. Moderator analyses indicated that the relationships between emotional symptoms and cognitive test performance may be impacted to some degree by exclusion of participants with atypical performance on performance validity tests (PVTs) or symptom validity tests (SVTs), however there were small study numbers and changes in effect size were not statistically significant. These findings are useful in synthesising what is currently known about the relationship between cognitive test performance and emotional symptoms in adults with TBI, demonstrating significant, albeit small, relationships between emotional symptoms and cognitive test performance in multiple domains, in non-military samples. Some of these relationships appeared to be mildly impacted by controlling for performance validity or symptom validity, however this was based on the relatively few studies using validity tests. More research including PVTs and SVTs whilst examining the relationship between emotional symptoms and cognitive outcomes is needed.
    MeSH term(s) Adult ; Humans ; Stress Disorders, Post-Traumatic/epidemiology ; Depression/etiology ; Systematic Reviews as Topic ; Brain Injuries, Traumatic/complications ; Brain Injuries, Traumatic/psychology ; Cognition ; Neuropsychological Tests ; Anxiety/etiology
    Language English
    Publishing date 2021-10-25
    Publishing country United States
    Document type Meta-Analysis ; Journal Article ; Review
    ZDB-ID 1062572-0
    ISSN 1573-6660 ; 1040-7308
    ISSN (online) 1573-6660
    ISSN 1040-7308
    DOI 10.1007/s11065-021-09524-1
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article: A model of

    Humphrey, Sam / Kerr, Alastair / Rattray, Magnus / Dive, Caroline / Miller, Crispin J

    PeerJ

    2020  Volume 8, Page(s) e10063

    Abstract: Molecular sequences carry information. Analysis of sequence conservation between homologous loci is a proven approach with which to explore the information content of molecular sequences. This is often done using multiple sequence alignments to support ... ...

    Abstract Molecular sequences carry information. Analysis of sequence conservation between homologous loci is a proven approach with which to explore the information content of molecular sequences. This is often done using multiple sequence alignments to support comparisons between homologous loci. These methods therefore rely on sufficient underlying sequence similarity with which to construct a representative alignment. Here we describe a method using a formal metric of information, surprisal, to analyse biological sub-sequences without alignment constraints. We applied our model to the genomes of five different species to reveal similar patterns across a panel of eukaryotes. As the surprisal of a sub-sequence is inversely proportional to its occurrence within the genome, the optimal size of the sub-sequences was selected for each species under consideration. With the model optimized, we found a strong correlation between surprisal and CG dinucleotide usage. The utility of our model was tested by examining the sequences of genes known to undergo splicing. We demonstrate that our model can identify biological features of interest such as known donor and acceptor sites. Analysis across all annotated coding exon junctions in
    Language English
    Publishing date 2020-11-04
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2703241-3
    ISSN 2167-8359
    ISSN 2167-8359
    DOI 10.7717/peerj.10063
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article: Functional Characterisation of the ATOH1 Molecular Subtype Indicates a Pro-Metastatic Role in Small Cell Lung Cancer.

    Catozzi, Alessia / Peiris-Pagès, Maria / Humphrey, Sam / Revill, Mitchell / Morgan, Derrick / Roebuck, Jordan / Chen, Yitao / Davies-Williams, Bethan / Lallo, Alice / Galvin, Melanie / Pearce, Simon P / Kerr, Alastair / Priest, Lynsey / Foy, Victoria / Carter, Mathew / Caeser, Rebecca / Chan, Joseph / Rudin, Charles M / Blackhall, Fiona /
    Frese, Kristopher K / Dive, Caroline / Simpson, Kathryn L

    bioRxiv : the preprint server for biology

    2024  

    Abstract: Molecular subtypes of Small Cell Lung Cancer (SCLC) have been described based on differential expression of transcription factors (TFs) ...

    Abstract Molecular subtypes of Small Cell Lung Cancer (SCLC) have been described based on differential expression of transcription factors (TFs)
    Language English
    Publishing date 2024-02-17
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2024.02.16.580247
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: The Rare YAP1 Subtype of SCLC Revisited in a Biobank of 39 Circulating Tumor Cell Patient Derived Explant Models: A Brief Report.

    Pearsall, Sarah M / Humphrey, Sam / Revill, Mitchell / Morgan, Derrick / Frese, Kristopher K / Galvin, Melanie / Kerr, Alastair / Carter, Mathew / Priest, Lynsey / Blackhall, Fiona / Simpson, Kathryn L / Dive, Caroline

    Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer

    2020  Volume 15, Issue 12, Page(s) 1836–1843

    Abstract: Introduction: Recent consensus defines four SCLC subtypes on the basis of transcription factor expression: ASCL1, NEUROD1, POU2F3, and YAP1. The rare YAP1 subtype is associated with "neuroendocrine (NE)-low" cells among SCLC cell lines and patient ... ...

    Abstract Introduction: Recent consensus defines four SCLC subtypes on the basis of transcription factor expression: ASCL1, NEUROD1, POU2F3, and YAP1. The rare YAP1 subtype is associated with "neuroendocrine (NE)-low" cells among SCLC cell lines and patient samples. We evaluated YAP1 in 39 patients with phenotypically diverse circulating tumor cell-derived explant (CDX) models and revisited YAP1 in terms of prevalence, cell phenotype, and intertumor and intratumor heterogeneity.
    Methods: YAP1 transcript and protein expression were assessed by RNA sequencing and immunohistochemistry or multiplexed immunofluorescence of NE and non-NE CDX subpopulations. Physically separated NE and non-NE CDX ex vivo culture lysates were Western blotted for YAP1, NE marker SYP, and AXL.
    Results: RNA sequencing normalized for the four subtype transcription factors identified YAP1 expression in 14 of 39 CDX. A total of 10 CDX expressed YAP1 protein, and eight had strong YAP1 expression confined to rare non-NE cell clusters. This was confirmed in ex vivo CDX cultures in which adherent non-NE cells lacking SYP expression expressed YAP1. However, in two CDX, weaker cellular YAP1 expression was observed, widely dispersed in SYP-positive NE cells.
    Conclusions: YAP1 was predominantly expressed in non-NE cell clusters in SCLC CDX, but two of 39 CDX expressed YAP1 in NE cells. CDX22P, with relatively high YAP1 expression, is an ASCL1 NE subtype with a low NE score and an outlier within this subtype in our CDX biobank. These descriptive data reveal subtly different YAP1 expression profiles, paving the way for functional studies to compare YAP1 signaling in non-NE and low NE cell contexts for potentially personalized therapeutic approaches.
    MeSH term(s) Adaptor Proteins, Signal Transducing/genetics ; Biological Specimen Banks ; Cell Line, Tumor ; Gene Expression Regulation, Neoplastic ; Humans ; Lung Neoplasms/genetics ; Neoplastic Cells, Circulating ; Transcription Factors/genetics ; YAP-Signaling Proteins
    Chemical Substances Adaptor Proteins, Signal Transducing ; Transcription Factors ; YAP-Signaling Proteins ; YAP1 protein, human
    Language English
    Publishing date 2020-07-25
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2432037-7
    ISSN 1556-1380 ; 1556-0864
    ISSN (online) 1556-1380
    ISSN 1556-0864
    DOI 10.1016/j.jtho.2020.07.008
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Soluble guanylate cyclase signalling mediates etoposide resistance in progressing small cell lung cancer.

    Schenk, Maximilian W / Humphrey, Sam / Hossain, A S Md Mukarram / Revill, Mitchell / Pearsall, Sarah / Lallo, Alice / Brown, Stewart / Bratt, Samuel / Galvin, Melanie / Descamps, Tine / Zhou, Cong / Pearce, Simon P / Priest, Lynsey / Greenhalgh, Michelle / Chaturvedi, Anshuman / Kerr, Alastair / Blackhall, Fiona / Dive, Caroline / Frese, Kristopher K

    Nature communications

    2021  Volume 12, Issue 1, Page(s) 6652

    Abstract: Small cell lung cancer (SCLC) has a 5-year survival rate of <7%. Rapid emergence of acquired resistance to standard platinum-etoposide chemotherapy is common and improved therapies are required for this recalcitrant tumour. We exploit six paired pre- ... ...

    Abstract Small cell lung cancer (SCLC) has a 5-year survival rate of <7%. Rapid emergence of acquired resistance to standard platinum-etoposide chemotherapy is common and improved therapies are required for this recalcitrant tumour. We exploit six paired pre-treatment and post-chemotherapy circulating tumour cell patient-derived explant (CDX) models from donors with extensive stage SCLC to investigate changes at disease progression after chemotherapy. Soluble guanylate cyclase (sGC) is recurrently upregulated in post-chemotherapy progression CDX models, which correlates with acquired chemoresistance. Expression and activation of sGC is regulated by Notch and nitric oxide (NO) signalling with downstream activation of protein kinase G. Genetic targeting of sGC or pharmacological inhibition of NO synthase re-sensitizes a chemoresistant CDX progression model in vivo, revealing this pathway as a mediator of chemoresistance and potential vulnerability of relapsed SCLC.
    MeSH term(s) Animals ; Cyclic GMP-Dependent Protein Kinases/metabolism ; Disease Models, Animal ; Disease Progression ; Drug Resistance, Neoplasm/drug effects ; Drug Resistance, Neoplasm/genetics ; Enzyme Inhibitors/therapeutic use ; Etoposide/therapeutic use ; Gene Expression Regulation, Neoplastic ; Humans ; Lung Neoplasms/drug therapy ; Lung Neoplasms/genetics ; Lung Neoplasms/metabolism ; Lung Neoplasms/pathology ; Mice ; Neoplastic Cells, Circulating/metabolism ; Nitric Oxide/metabolism ; Nitric Oxide Synthase Type II/antagonists & inhibitors ; Receptors, Notch/metabolism ; Signal Transduction/genetics ; Small Cell Lung Carcinoma/drug therapy ; Small Cell Lung Carcinoma/metabolism ; Small Cell Lung Carcinoma/pathology ; Soluble Guanylyl Cyclase/genetics ; Soluble Guanylyl Cyclase/metabolism
    Chemical Substances Enzyme Inhibitors ; Receptors, Notch ; Nitric Oxide (31C4KY9ESH) ; Etoposide (6PLQ3CP4P3) ; Nitric Oxide Synthase Type II (EC 1.14.13.39) ; Cyclic GMP-Dependent Protein Kinases (EC 2.7.11.12) ; Soluble Guanylyl Cyclase (EC 4.6.1.2)
    Language English
    Publishing date 2021-11-17
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2553671-0
    ISSN 2041-1723 ; 2041-1723
    ISSN (online) 2041-1723
    ISSN 2041-1723
    DOI 10.1038/s41467-021-26823-6
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Lineage Plasticity in SCLC Generates Non-Neuroendocrine Cells Primed for Vasculogenic Mimicry.

    Pearsall, Sarah M / Williamson, Stuart C / Humphrey, Sam / Hughes, Ellyn / Morgan, Derrick / García Marqués, Fernando J / Awanis, Griselda / Carroll, Rebecca / Burks, Laura / Shue, Yan Ting / Bermudez, Abel / Frese, Kristopher K / Galvin, Melanie / Carter, Mathew / Priest, Lynsey / Kerr, Alastair / Zhou, Cong / Oliver, Trudy G / Humphries, Jonathan D /
    Humphries, Martin J / Blackhall, Fiona / Cannell, Ian G / Pitteri, Sharon J / Hannon, Gregory J / Sage, Julien / Dive, Caroline / Simpson, Kathryn L

    Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer

    2023  Volume 18, Issue 10, Page(s) 1362–1385

    Abstract: Introduction: Vasculogenic mimicry (VM), the process of tumor cell transdifferentiation to endow endothelial-like characteristics supporting de novo vessel formation, is associated with poor prognosis in several tumor types, including SCLC. In ... ...

    Abstract Introduction: Vasculogenic mimicry (VM), the process of tumor cell transdifferentiation to endow endothelial-like characteristics supporting de novo vessel formation, is associated with poor prognosis in several tumor types, including SCLC. In genetically engineered mouse models (GEMMs) of SCLC, NOTCH, and MYC co-operate to drive a neuroendocrine (NE) to non-NE phenotypic switch, and co-operation between NE and non-NE cells is required for metastasis. Here, we define the phenotype of VM-competent cells and molecular mechanisms underpinning SCLC VM using circulating tumor cell-derived explant (CDX) models and GEMMs.
    Methods: We analyzed perfusion within VM vessels and their association with NE and non-NE phenotypes using multiplex immunohistochemistry in CDX, GEMMs, and patient biopsies. We evaluated their three-dimensional structure and defined collagen-integrin interactions.
    Results: We found that VM vessels are present in 23/25 CDX models, 2 GEMMs, and in 20 patient biopsies of SCLC. Perfused VM vessels support tumor growth and only NOTCH-active non-NE cells are VM-competent in vivo and ex vivo, expressing pseudohypoxia, blood vessel development, and extracellular matrix organization signatures. On Matrigel, VM-primed non-NE cells remodel extracellular matrix into hollow tubules in an integrin β1-dependent process.
    Conclusions: We identified VM as an exemplar of functional heterogeneity and plasticity in SCLC and these findings take considerable steps toward understanding the molecular events that enable VM. These results support therapeutic co-targeting of both NE and non-NE cells to curtail SCLC progression and to improve the outcomes of patients with SCLC in the future.
    MeSH term(s) Animals ; Mice ; Humans ; Lung Neoplasms/pathology ; Neovascularization, Pathologic/genetics ; Cell Transdifferentiation ; Cell Line, Tumor
    Language English
    Publishing date 2023-07-16
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2432037-7
    ISSN 1556-1380 ; 1556-0864
    ISSN (online) 1556-1380
    ISSN 1556-0864
    DOI 10.1016/j.jtho.2023.07.012
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: A biobank of small cell lung cancer CDX models elucidates inter- and intratumoral phenotypic heterogeneity.

    Simpson, Kathryn L / Stoney, Ruth / Frese, Kristopher K / Simms, Nicole / Rowe, William / Pearce, Simon P / Humphrey, Sam / Booth, Laura / Morgan, Derrick / Dynowski, Marek / Trapani, Francesca / Catozzi, Alessia / Revill, Mitchell / Helps, Thomas / Galvin, Melanie / Girard, Luc / Nonaka, Daisuke / Carter, Louise / Krebs, Matthew G /
    Cook, Natalie / Carter, Mathew / Priest, Lynsey / Kerr, Alastair / Gazdar, Adi F / Blackhall, Fiona / Dive, Caroline

    Nature cancer

    2020  Volume 1, Issue 4, Page(s) 437–451

    Abstract: Although small cell lung cancer (SCLC) is treated as a homogeneous disease, biopsies and preclinical models reveal heterogeneity in transcriptomes and morphology. SCLC subtypes were recently defined by neuroendocrine transcription factor (NETF) ... ...

    Abstract Although small cell lung cancer (SCLC) is treated as a homogeneous disease, biopsies and preclinical models reveal heterogeneity in transcriptomes and morphology. SCLC subtypes were recently defined by neuroendocrine transcription factor (NETF) expression. Circulating-tumor-cell-derived explant models (CDX) recapitulate donor patients' tumor morphology, diagnostic NE marker expression and chemotherapy responses. We describe a biobank of 38 CDX models, including six CDX pairs generated pretreatment and at disease progression revealing complex intra- and intertumoral heterogeneity. Transcriptomic analysis confirmed three of four previously described subtypes based on ASCL1, NEUROD1 and POU2F3 expression and identified a previously unreported subtype based on another NETF, ATOH1. We document evolution during disease progression exemplified by altered MYC and NOTCH gene expression, increased 'variant' cell morphology, and metastasis without strong evidence of epithelial to mesenchymal transition. This CDX biobank provides a research resource to facilitate SCLC personalized medicine.
    MeSH term(s) Biological Specimen Banks ; Disease Progression ; Epithelial-Mesenchymal Transition ; Gene Expression Regulation, Neoplastic ; Humans ; Lung Neoplasms/genetics ; Small Cell Lung Carcinoma/genetics
    Language English
    Publishing date 2020-04-13
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ISSN 2662-1347
    ISSN (online) 2662-1347
    DOI 10.1038/s43018-020-0046-2
    Database MEDical Literature Analysis and Retrieval System OnLINE

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