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Series GSE42742 Query DataSets for GSE42742
Status Public on Apr 04, 2013
Title Murine microenvironment metaprofiles associate with human cancer etiology and intrinsic subtypes
Organism Mus musculus
Experiment type Expression profiling by array
Summary We developed a mouse model that captures radiation effects on host biology by transplanting unirradiated Trp53 null mammary tissue to sham or irradiated hosts. Gene expression profiles of tumors that arose in irradiated mice are distinct from those that arose in naïve hosts.
Host irradiation induces a metaprofile consisting of gene modules representing stem cells, cell motility, macrophages and autophagy. Human orthologs of the host irradiation metaprofile discriminated between radiation-preceded and sporadic human thyroid cancers. An irradiated host centroid was strongly associated with estrogen receptor negative breast cancer. When applied to sporadic human breast cancers, the irradiated host metaprofile strongly associated with basal-like and claudin-low breast cancer intrinsic subtypes. Comparing host irradiation in the context of TGFβ levels showed that inflammation was robustly associated with claudin-low tumors. The association of the irradiated host metaprofiles with estrogen receptor negative status and claudin-low subtype suggests that host processes similar to those induced by radiation underlie sporadic cancers.
Overall design Total RNA was extracted from mammary tumors derived from transplantations of non-irradiated p53null mammary fragments into irradiated hosts. We analyized a total of 32 p53null tumors from irradiated wild type mice: 9 from sham-irradiated hosts, and 23 from irradiated hosts. We also analyzed 24 tumors from irradiated TGFb1 heterozygote hosts: 6 from sham-irradiated hosts, and 18 from irradiated hosts.
Contributor(s) Nguyen DH, Fredlund E, Zhao W, Perou CM, Balmain A, Mao J, Barcellos-Hoff MH
Citation(s) 23339125
Submission date Dec 05, 2012
Last update date Feb 11, 2019
Contact name David H Nguyen
Organization name Lawrence Berkeley National Laboratory
Department Cancer & DNA Damage Response
Street address 1 Cyclotron Road, MS-977
City Berkeley
State/province CA
ZIP/Postal code 94720
Country USA
Platforms (1)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
Samples (56)
GSM1049023 WT Sham-IR-host_3
GSM1049024 WT Sham-IR-host_8
GSM1049025 WT Sham-IR-host_17
BioProject PRJNA182988

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Supplementary file Size Download File type/resource
GSE42742_RAW.tar 207.1 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

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