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| Status |
Public on Dec 01, 2017 |
| Title |
Consensus Molecular Subtypes of colorectal cancer are recapitulated in in vitro and in vivo models [primary cell lines AMC/Palermo] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
Colorectal cancer (CRC) is a highly heterogeneous disease both from a molecular and clinical perspective. Several distinct molecular entities, such as microsatellite instability (MSI), have been defined that make up biologically distinct subgroups with their own clinical course. Recent data indicated that CRC can be best segregated into four groups called Consensus Molecular Subtypes (CMS1-4), which each have a unique biology and gene expression pattern. In order to develop improved, subtype-specific therapies and to gain insight into the molecular wiring and origin of these subtypes, reliable models are needed. This study was designed to determine the heterogeneity and identify the presence of CMSs in a large panel of CRC cell lines, primary cultures and patient-derived xenografts (PDX). We provide a repository encompassing this heterogeneity and moreover describe that a large part of the models can be robustly assigned to one of the four CMSs, independent of the stromal contribution. We subsequently validate our CMS stratification by functional analysis which for instance shows mesenchymal enrichment in CMS4 and metabolic dysregulation in CMS3. Finally, we observe a clear difference in sensitivity to chemotherapy-induced apoptosis, specifically between CMS2 and CMS4. This relates to the in vivo efficacy of chemotherapy, which delays outgrowth of CMS2, but not CMS4 xenografts. This indicates that molecular subtypes are faithfully modelled in the CRC cell cultures and PDXs, representing tumour cell intrinsic and stable features. This repository provides researchers with a platform to study CRC using the existing heterogeneity.
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| Overall design |
Gene expression analysis of 15 CRC primary cell lines grown as spheroids
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| Contributor(s) |
Linnekamp JF, van Hooff SR, Prasetyanti PR, Kandimalla R, de Jong JH, Cameron K, van Leersum R, Rodermond H, van Bochove GG, Buikhuisen J, Fessler E, Vermeulen L, Wang X, Stassi G, Mangiapane LR, Nürnberg FM, Clevers H, Medema JP |
| Citation(s) |
29305587 |
| Submission date |
Jun 27, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Sander Roeland van Hooff |
| Organization name |
AUMC
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| Department |
Center for Experimental and Molecular Medicine (CEMM),
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| Lab |
Laboratory for Experimental Oncology and Radiobiology (LEXOR)
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| Street address |
Meibergdreef 9
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| City |
Amsterdam |
| ZIP/Postal code |
1105 AZ |
| Country |
Netherlands |
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| Platforms (1) |
| GPL13158 |
[HT_HG-U133_Plus_PM] Affymetrix HT HG-U133+ PM Array Plate |
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| Samples (15)
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| This SubSeries is part of SuperSeries: |
| GSE100550 |
Consensus Molecular Subtypes of colorectal cancer are recapitulated in in vitro and in vivo models |
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| Relations |
| BioProject |
PRJNA392102 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE100549_RAW.tar |
30.3 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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