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http://hdl.handle.net/2445/206667
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DC Field | Value | Language |
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dc.contributor.author | Amirkhah, Raheleh | - |
dc.contributor.author | Gilroy, Kathryn | - |
dc.contributor.author | Malla, Sudhir B. | - |
dc.contributor.author | Lannagan, Tamsin R. M. | - |
dc.contributor.author | Byrne, Ryan M, | - |
dc.contributor.author | Fisher, Natalie C. | - |
dc.contributor.author | Corry, Shania M. | - |
dc.contributor.author | Mohamed, Noha-Ehssan | - |
dc.contributor.author | Naderi-Meshkin, Hojjat | - |
dc.contributor.author | Mills, Megan L. | - |
dc.contributor.author | Campbell, Andrew D. | - |
dc.contributor.author | Ridgeway, Rachel A. | - |
dc.contributor.author | Ahmaderaghi, Baharak | - |
dc.contributor.author | Murray, Richard | - |
dc.contributor.author | Berenguer Llergo, Antoni | - |
dc.contributor.author | Sanz Pamplona, Rebeca | - |
dc.contributor.author | Villanueva Garatachea, Alberto | - |
dc.contributor.author | Batlle, Eduard | - |
dc.contributor.author | Salazar Soler, Ramón | - |
dc.contributor.author | Lawler, Mark | - |
dc.contributor.author | Sansom, Owen J. | - |
dc.contributor.author | Dunne, Philip D. | - |
dc.date.accessioned | 2024-01-30T13:35:09Z | - |
dc.date.available | 2024-01-30T13:35:09Z | - |
dc.date.issued | 2023-01-30 | - |
dc.identifier.issn | 0007-0920 | - |
dc.identifier.uri | http://hdl.handle.net/2445/206667 | - |
dc.description.abstract | Background: Colorectal cancer (CRC) primary tumours are molecularly classified into four consensus molecular subtypes (CMS1-4). Genetically engineered mouse models aim to faithfully mimic the complexity of human cancers and, when appropriately aligned, represent ideal pre-clinical systems to test new drug treatments. Despite its importance, dual-species classification has been limited by the lack of a reliable approach. Here we utilise, develop and test a set of options for human-to-mouse CMS classifications of CRC tissue. Methods: Using transcriptional data from established collections of CRC tumours, including human (TCGA cohort; n = 577) and mouse (n = 57 across n = 8 genotypes) tumours with combinations of random forest and nearest template prediction algorithms, alongside gene ontology collections, we comprehensively assess the performance of a suite of new dual-species classifiers. Results: We developed three approaches: MmCMS-A; a gene-level classifier, MmCMS-B; an ontology-level approach and MmCMS-C; a combined pathway system encompassing multiple biological and histological signalling cascades. Although all options could identify tumours associated with stromal-rich CMS4-like biology, MmCMS-A was unable to accurately classify the biology underpinning epithelial-like subtypes (CMS2/3) in mouse tumours. Conclusions: When applying human-based transcriptional classifiers to mouse tumour data, a pathway-level classifier, rather than an individual gene-level system, is optimal. Our R package enables researchers to select suitable mouse models of human CRC subtype for their experimental testing. | - |
dc.format.extent | 11 p. | - |
dc.format.mimetype | application/pdf | - |
dc.language.iso | eng | - |
dc.publisher | Cancer Research UK | - |
dc.relation.isformatof | Versió postprint del document publicat a: https://doi.org/10.1038/s41416-023-02157-6 | - |
dc.relation.ispartof | British Journal of Cancer, 2023, vol. 128, p. 1333-1343 | - |
dc.relation.uri | https://doi.org/10.1038/s41416-023-02157-6 | - |
dc.rights | (c) Raheleh Amirkhah et al., 2023 | - |
dc.source | Articles publicats en revistes (Ciències Clíniques) | - |
dc.subject.classification | Càncer colorectal | - |
dc.subject.classification | Biologia molecular | - |
dc.subject.classification | Ratolins (Animals de laboratori) | - |
dc.subject.other | Colorectal cancer | - |
dc.subject.other | Molecular biology | - |
dc.subject.other | Mice (Laboratory animals) | - |
dc.title | MmCMS: mouse models' consensus molecular subtypes of colorectal cancer | - |
dc.type | info:eu-repo/semantics/article | - |
dc.type | info:eu-repo/semantics/acceptedVersion | - |
dc.identifier.idgrec | 728843 | - |
dc.date.updated | 2024-01-30T13:35:09Z | - |
dc.rights.accessRights | info:eu-repo/semantics/openAccess | - |
dc.identifier.idimarina | 6575480 | - |
Appears in Collections: | Articles publicats en revistes (Ciències Clíniques) Articles publicats en revistes (Institut d'lnvestigació Biomèdica de Bellvitge (IDIBELL)) Articles publicats en revistes (Institut de Recerca Biomèdica (IRB Barcelona)) |
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255860.pdf | 2.51 MB | Adobe PDF | View/Open |
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