Abstract 135: Integrated analysis of cell signaling pathway-associated miRNAs using protein expression array data in NCI-60 cells

• Published in: Cancer research (Chicago, Ill.) Ill.), 2012-04, Vol.72 (8_Supplement), p.135-135
• Main Authors: Kim, Sang-Bae, Park, Yun-Yong, Sohn, Bo-Hwa, Jeong, Woojin, Lee, Sung Sook, Kim, Ji Hoon, Davies, Micheal A., Mills, Gordon B.
• Format: Article
• Language: English
• ISSN: 0008-5472; 1538-7445
• DOI: 10.1158/1538-7445.AM2012-135

MicroRNAs (miRNAs) are single-stranded, non-coding RNA molecules and on average only 22 nucleotides long that regulate gene expression at the post-transcriptional level. The current approaches with miRNA-mRNA association were not enough to verify real functional targets at protein level, which could affect on biological signaling pathway. In this study, we developed a correlation based approach (sequence-independence) to predict potential miRNA targets with genomic and proteomic data including the expression of phosphorylated proteins in NCI-60 cells. To do this we calculated the number of correlated probe-pairs between miRNA(439)-mRNA(22k) and protein(222)-mRNA probe pairs. Then, two significant output pair sets were combined by mRNA probes and then counted the number of common probes. With these count numbers, finally we generated Association score matrix between miRNA and protein probes. Using those score matrix, we evaluated the highly associated miRNAs with 36 biological pathways, which play critical roles in cell cycle, proliferation and metastasis. Among these associations, we found that miR-500 cluster is highly associated with ERK/MAPK signaling pathway through activating MEK1/2 phosphorylation in Melanoma and breast cancer cells. In conclusion, we developed a novel expression profile based approach to systematically predict potential miRNA functional targets which play critical roles in cell signaling pathways from the NCI-60 genomic and proteomic data at whole genomic scale. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 103rd Annual Meeting of the American Association for Cancer Research; 2012 Mar 31-Apr 4; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2012;72(8 Suppl):Abstract nr 135. doi:1538-7445.AM2012-135