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  1. Article ; Online: Developmental Dysregulation of Childhood Cancer.

    Oliver, Thomas R W / Behjati, Sam

    Cold Spring Harbor perspectives in medicine

    2024  

    Abstract: Most childhood cancers possess distinct clinicopathological profiles from those seen in adulthood, reflecting their divergent mechanisms of carcinogenesis. Rather than depending on the decades-long, stepwise accumulation of changes within a mature cell ... ...

    Abstract Most childhood cancers possess distinct clinicopathological profiles from those seen in adulthood, reflecting their divergent mechanisms of carcinogenesis. Rather than depending on the decades-long, stepwise accumulation of changes within a mature cell that defines adult carcinomas, many pediatric malignancies emerge rapidly as the consequence of random errors during development. These errors-whether they be genetic, epigenetic, or microenvironmental-characteristically block maturation, resulting in phenotypically primitive neoplasms. Only an event that falls within a narrow set of spatiotemporal parameters will forge a malignant clone; if it occurs too soon then the event might be lethal, or negatively selected against, while if it is too late or in an incorrectly primed precursor cell then the necessary intracellular conditions for transformation will not be met. The precise characterization of these changes, through the study of normal tissues and tumors from patients and model systems, will be essential if we are to develop new strategies to diagnose, treat, and perhaps even prevent childhood cancer.
    Language English
    Publishing date 2024-05-01
    Publishing country United States
    Document type Journal Article
    ISSN 2157-1422
    ISSN (online) 2157-1422
    DOI 10.1101/cshperspect.a041580
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Childhood Cancer Treatment and Clonal Hematopoiesis.

    Collord, Grace / Behjati, Sam

    Cancer discovery

    2023  Volume 13, Issue 4, Page(s) 811–813

    Abstract: Summary: Hagiwara and colleagues investigated the effects of childhood cancer treatment on the clonal composition of blood. Their findings provide strong evidence that treatment promotes clonal outgrowths (clonal hematopoiesis) in childhood cancer ... ...

    Abstract Summary: Hagiwara and colleagues investigated the effects of childhood cancer treatment on the clonal composition of blood. Their findings provide strong evidence that treatment promotes clonal outgrowths (clonal hematopoiesis) in childhood cancer survivors. See related article by Hagiwara et al., p. 844 (4).
    MeSH term(s) Humans ; Child ; Neoplasms/genetics ; Neoplasms/therapy ; Clonal Hematopoiesis ; Hematopoiesis/genetics ; Cancer Survivors
    Language English
    Publishing date 2023-04-03
    Publishing country United States
    Document type Editorial ; Comment
    ZDB-ID 2625242-9
    ISSN 2159-8290 ; 2159-8274
    ISSN (online) 2159-8290
    ISSN 2159-8274
    DOI 10.1158/2159-8290.CD-23-0090
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  3. Article ; Online: Putting bacteria on the cancer map.

    Anderson, Nathaniel D / Behjati, Sam

    Immunity

    2022  Volume 56, Issue 1, Page(s) 11–13

    Abstract: In a study recently in Nature, Galeano Niño et al. use spatial profiling and single-cell RNA sequencing to delineate the spatial organization of microbiota in cancer. Their findings demonstrate that tumor-associated microbiota coalesce in micro-niches ... ...

    Abstract In a study recently in Nature, Galeano Niño et al. use spatial profiling and single-cell RNA sequencing to delineate the spatial organization of microbiota in cancer. Their findings demonstrate that tumor-associated microbiota coalesce in micro-niches where they may mediate immune and epithelial oncogenic roles.
    MeSH term(s) Humans ; Bacteria/genetics ; Microbiota ; Neoplasms
    Language English
    Publishing date 2022-12-19
    Publishing country United States
    Document type Journal Article ; Comment
    ZDB-ID 1217235-2
    ISSN 1097-4180 ; 1074-7613
    ISSN (online) 1097-4180
    ISSN 1074-7613
    DOI 10.1016/j.immuni.2022.12.016
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  4. Article ; Online: Retracing embryological fate.

    Behjati, Sam

    Science (New York, N.Y.)

    2016  Volume 354, Issue 6316, Page(s) 1109

    MeSH term(s) Animals ; Cell Lineage/genetics ; Cloning, Organism ; DNA Replication/genetics ; Embryonic Development/genetics ; Genomics ; Mice ; Mosaicism ; Mutation ; Organoids/growth & development
    Language English
    Publishing date 2016-12-02
    Publishing country United States
    Document type Journal Article
    ZDB-ID 128410-1
    ISSN 1095-9203 ; 0036-8075
    ISSN (online) 1095-9203
    ISSN 0036-8075
    DOI 10.1126/science.aal2189
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  5. Article ; Online: SoupX removes ambient RNA contamination from droplet-based single-cell RNA sequencing data.

    Young, Matthew D / Behjati, Sam

    GigaScience

    2020  Volume 9, Issue 12

    Abstract: Background: Droplet-based single-cell RNA sequence analyses assume that all acquired RNAs are endogenous to cells. However, any cell-free RNAs contained within the input solution are also captured by these assays. This sequencing of cell-free RNA ... ...

    Abstract Background: Droplet-based single-cell RNA sequence analyses assume that all acquired RNAs are endogenous to cells. However, any cell-free RNAs contained within the input solution are also captured by these assays. This sequencing of cell-free RNA constitutes a background contamination that confounds the biological interpretation of single-cell transcriptomic data.
    Results: We demonstrate that contamination from this "soup" of cell-free RNAs is ubiquitous, with experiment-specific variations in composition and magnitude. We present a method, SoupX, for quantifying the extent of the contamination and estimating "background-corrected" cell expression profiles that seamlessly integrate with existing downstream analysis tools. Applying this method to several datasets using multiple droplet sequencing technologies, we demonstrate that its application improves biological interpretation of otherwise misleading data, as well as improving quality control metrics.
    Conclusions: We present SoupX, a tool for removing ambient RNA contamination from droplet-based single-cell RNA sequencing experiments. This tool has broad applicability, and its application can improve the biological utility of existing and future datasets.
    MeSH term(s) Base Sequence ; Gene Expression Profiling ; RNA/genetics ; Sequence Analysis, RNA ; Single-Cell Analysis ; Transcriptome
    Chemical Substances RNA (63231-63-0)
    Language English
    Publishing date 2020-09-01
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2708999-X
    ISSN 2047-217X ; 2047-217X
    ISSN (online) 2047-217X
    ISSN 2047-217X
    DOI 10.1093/gigascience/giaa151
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  6. Article ; Online: Wiping versus suction to clear neonatal airways at birth.

    Behjati, Sam

    Lancet (London, England)

    2014  Volume 383, Issue 9918, Page(s) 695

    MeSH term(s) Female ; Humans ; Male ; Perinatal Care/methods ; Respiratory Rate/physiology ; Suction/methods
    Language English
    Publishing date 2014-02-22
    Publishing country England
    Document type Comment ; Letter
    ZDB-ID 3306-6
    ISSN 1474-547X ; 0023-7507 ; 0140-6736
    ISSN (online) 1474-547X
    ISSN 0023-7507 ; 0140-6736
    DOI 10.1016/S0140-6736(14)60257-9
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  7. Article ; Online: Maturation Block in Childhood Cancer.

    Behjati, Sam / Gilbertson, Richard J / Pfister, Stefan M

    Cancer discovery

    2021  Volume 11, Issue 3, Page(s) 542–544

    Abstract: The key differences between tumors arising in children and those in adults stem from the cellular origin of cancer at different ages, with adult cancers arising within aging cell hierarchies, as a consequence of accumulated damage and mutagenesis, in ... ...

    Abstract The key differences between tumors arising in children and those in adults stem from the cellular origin of cancer at different ages, with adult cancers arising within aging cell hierarchies, as a consequence of accumulated damage and mutagenesis, in contrast to childhood tumors that are born in aberrantly developing tissues. A distinct biological property of childhood tumor cells-a block of developmental maturation-may hold the key to advancing the treatment of childhood cancer beyond cytotoxic strategies.
    MeSH term(s) Biomarkers, Tumor ; Cell Differentiation ; Cell Transformation, Neoplastic/genetics ; Cell Transformation, Neoplastic/metabolism ; Child ; Disease Susceptibility ; Gene Flow ; Genetic Predisposition to Disease ; Humans ; Mutation ; Neoplasms/epidemiology ; Neoplasms/etiology ; Neoplasms/pathology ; Neoplasms/therapy
    Chemical Substances Biomarkers, Tumor
    Language English
    Publishing date 2021-02-15
    Publishing country United States
    Document type Letter ; Research Support, Non-U.S. Gov't
    ZDB-ID 2625242-9
    ISSN 2159-8290 ; 2159-8274
    ISSN (online) 2159-8290
    ISSN 2159-8274
    DOI 10.1158/2159-8290.CD-20-0926
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  8. Article ; Online: Impact of the COVID-19 pandemic on time to diagnosis and treatment in children with cancer at tertiary care level.

    Dufour, Lionel / Simon, Ashly / Murray, Matthew J / Behjati, Sam

    Archives of disease in childhood

    2022  Volume 107, Issue 9, Page(s) 851

    MeSH term(s) COVID-19/epidemiology ; COVID-19 Testing ; Child ; Emergency Service, Hospital ; Humans ; Neoplasms/diagnosis ; Neoplasms/epidemiology ; Neoplasms/therapy ; Pandemics ; SARS-CoV-2 ; Tertiary Healthcare
    Language English
    Publishing date 2022-08-02
    Publishing country England
    Document type Letter ; Research Support, Non-U.S. Gov't
    ZDB-ID 524-1
    ISSN 1468-2044 ; 0003-9888 ; 1359-2998
    ISSN (online) 1468-2044
    ISSN 0003-9888 ; 1359-2998
    DOI 10.1136/archdischild-2022-324246
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  9. Article ; Online: How to write an interpretation.

    Behjati, Sam

    Archives of disease in childhood. Education and practice edition

    2013  Volume 98, Issue 2, Page(s) 49–51

    MeSH term(s) Decision Making ; Diagnostic Tests, Routine ; Humans ; Pediatrics ; Periodicals as Topic ; Writing/standards
    Language English
    Publishing date 2013-04
    Publishing country England
    Document type Journal Article
    ZDB-ID 2148818-6
    ISSN 1743-0593 ; 1743-0585
    ISSN (online) 1743-0593
    ISSN 1743-0585
    DOI 10.1136/archdischild-2012-303452
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  10. Article ; Online: How to write an Interpretation.

    Waterfield, Thomas / Behjati, Sam

    Archives of disease in childhood. Education and practice edition

    2018  Volume 104, Issue 5, Page(s) 272–273

    Abstract: Every day we interpret examination findings and clinical tests with the aim of coming to a diagnosis. But how well do we interpret these tests? Whether it is a traditional examination technique used by doctors for centuries or a new cutting edge ... ...

    Abstract Every day we interpret examination findings and clinical tests with the aim of coming to a diagnosis. But how well do we interpret these tests? Whether it is a traditional examination technique used by doctors for centuries or a new cutting edge biomarker, the diagnostic landscape shifts over time. The aim of interpretations is to produce a library of evidence-based resources directing the use of clinical tests including examination techniques. In this article we discuss how best to tackle writing an interpretation. Interpretations are succinct evidence-based summaries that draw together research findings to provide practical answers for clinicians.
    MeSH term(s) Data Interpretation, Statistical ; Humans ; Writing
    Language English
    Publishing date 2018-08-10
    Publishing country England
    Document type Journal Article
    ZDB-ID 2148818-6
    ISSN 1743-0593 ; 1743-0585
    ISSN (online) 1743-0593
    ISSN 1743-0585
    DOI 10.1136/archdischild-2018-315861
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