E-GEOD-17945 - tRNA Over-Expression in Breast Cancer

Status
Submitted on 1 September 2009, released on 22 May 2010, last updated on 2 May 2014
Organism
Homo sapiens
Samples (88)
Array (1)
Protocols (9)
Description
Increased proliferation and elevated levels of protein synthesis are characteristic of transformed and tumor cells. Though components of the translation machinery are often misregulated in cancers, how tRNA plays a role in cancer cells has not been explored. We compare genome-wide tRNA expression in tumorigenic versus non-tumorigenic breast cell lines, as well as tRNA expression in breast tumors versus normal breast tissues. In tumorigenic versus non-tumorigenic cell lines, nuclear-encoded tRNAs increase by up to 3-fold and mitochondrial-encoded tRNAs increase by up to 5-fold. In tumors versus normal breast tissues, both nuclear and mitochondrial-encoded tRNAs increase by up to 10-fold. This tRNA over-expression is selective and coordinates with the properties of cognate amino acids. Nuclear- and mitochondrial-encoded tRNAs exhibit distinct expression patterns, indicating that tRNAs can be used as biomarkers for breast cancer. We analyzed tRNA expression levels in 2 non-tumorigenic breast cell lines, 6 tumorigenic breast cancer cell lines, 3 normal breast tissue samples, and 9 breast tumor samples. We used a non-tumorigenic breast cell line (MCF10A) as a reference sample in all hybridizations. All data is dye-swapped.
Experiment type
transcription profiling by array 
Contacts
Tao Pan <taopan@uchicago.edu>, Mariana Pavon, Marsha Rich Rosner, Qing Dai, Renaud Geslain, Suzanna Gomes
Citation
tRNA over-expression in breast cancer and functional consequences. Pavon-Eternod, Mariana; Gomes, Suzanna; Geslain, Renaud; Dai, Qing; Rosner, Marsha Rich; Pan, Tao. Nucleic Acids Res 37(21):7268 (2009), Europe PMC 19783824
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-17945.idf.txt
Sample and data relationshipE-GEOD-17945.sdrf.txt
Raw data (1)E-GEOD-17945.raw.1.zip
Processed data (1)E-GEOD-17945.processed.1.zip
Array designA-GEOD-9143.adf.txt
R ExpressionSetE-GEOD-17945.eSet.r
Links