GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE38791 Query DataSets for GSE38791
Status Public on Jun 10, 2015
Title Somatic cell fusions reveal extensive heterogeneity in basal-like breast cancer [methylation27]
Organism Homo sapiens
Experiment type Methylation profiling by array
Summary Basal-like and luminal breast tumors have distinct clinical behavior and molecular profiles, yet the underlying mechanisms are poorly defined. To interrogate processes that determine these distinct phenotypes and their inheritance pattern, we generated somatic cell fusions and performed integrated genetic and epigenetic (DNA methylation and chromatin) profiling. We found that the basal-like trait is generally dominant and it is largely defined by epigenetic repression of luminal transcription factors. Definition of super-enhancers highlighted a core program common in luminal cells but high degree of heterogeneity in basal-like breast cancers that correlates with clinical outcome. We also found that protein extracts of basal-like cells is sufficient to induce luminal-to-basal phenotypic switch implying a trigger of basal-like autoregulatory circuits. We determined that KDM6A might be required for luminal-basal fusions, and identified EN1, TBX18, and TCF4 as candidate transcriptional regulators of luminal-to-basal switch. Our findings highlight the remarkable epigenetic plasticity of breast cancer cells.
Overall design Bisulphite converted DNA from the 9 samples were hybridised to the Illumina Infinium 27k Human Methylation Beadchip.
Contributor(s) Polyak K, Maruyama R, Fackler MJ
Citation(s) 26051943
Submission date Jun 18, 2012
Last update date Sep 08, 2015
Contact name Kornelia Polyak
Phone 617-632-2106
Organization name Dana-Farber Cancer Institute
Department Medical Oncology
Lab Polyak
Street address 450 Brookline Ave
City Boston
State/province MA
ZIP/Postal code 02215
Country USA
Platforms (1)
GPL8490 Illumina HumanMethylation27 BeadChip (HumanMethylation27_270596_v.1.2)
Samples (9)
GSM949592 SUM159PT_AVG_Beta
GSM949593 SUM159PT_T47D_AVG_Beta
GSM949594 SUM159PT_MCF7_AVG_Beta
This SubSeries is part of SuperSeries:
GSE38548 Somatic cell fusions reveal extensive heterogeneity in basal-like breast cancer
BioProject PRJNA170833

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE38791_RAW.tar 5.8 Mb (http)(custom) TAR
GSE38791_non_normalized.txt.gz 1.3 Mb (ftp)(http) TXT
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap