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. 2014 Jan;18(1):54-64.
doi: 10.1089/omi.2012.0132. Epub 2013 Nov 16.

miR-429 identified by dynamic transcriptome analysis is a new candidate biomarker for colorectal cancer prognosis

Yingnan Sun  1 , Shourong Shen, Hailin Tang, Juanjuan Xiang, Ya Peng, Anliu Tang, Nan Li, Weiwei Zhou, Zeyou Wang, Decai Zhang, Bo Xiang, Jie Ge, Guiyuan Li, Minghua Wu, Xiayu Li
Affiliations

miR-429 identified by dynamic transcriptome analysis is a new candidate biomarker for colorectal cancer prognosis

Yingnan Sun et al. OMICS. 2014 Jan.

Abstract

Colorectal cancer (CRC) is a common malignant gastrointestinal cancer. Efforts for preventive and personalized medicine have intensified in the last decade with attention to novel forms of biomarkers. In the present study, microRNA and genetic analyses were performed in tandem for differential transcriptome profiling between primary tumors with or without nodes or distant metastases. Serial Test Cluster (STC) analysis demonstrated that 20 genes and two microRNAs showed distinctive expression patterns associated with the tumor, node, and metastasis (TNM) stage. The selected target genes were characterized by GO and Pathway analysis. A microRNA-target gene network analysis showed that miR-429 resided in the center of the network, indicating that miR-429 might serve important roles in the development of CRC. Real-time PCR and tissue microarrays showed that miR-429 had a dynamic expression pattern during the CRC progression stage, and was significantly downregulated in stage II and stage III clinical progression. The low expression of miR-429 was correlated with poor prognosis for CRC. Taken together, miR-429 warrant further clinical translation research as a candidate biomarker for CRC prognosis. Additional downstream targets and attendant gene function also need to be discerned to design a sound critical path to personalized medicine for persons susceptible to, or diagnosed with CRC.

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Figures

<b>FIG. 1.</b>
FIG. 1.
Twenty dynamic gene expression models with histogram of significant GO and Pathway analyses. (A) Twenty significant dynamic gene expression models. (B) Significant dynamic gene expression model of No. 67. (C) Significant GO of model No. 67. (D) Significant pathway of model No. 67. (E) Significant dynamic gene expression model of No. 41. (F) Significant GO of model No.41. (G) Significant pathway of model No.41. (A, B, E) Abscissa: 0: normal; I, II, III, IV: TNM stage I-IV; Ordinate: normalized expression. (C, F) Abscissa: -lg (p value) of significant GO; Ordinate: significant GO (p<0.01 and FDR<0.05). D, G, J Abscissa: -lg (p value) of significant pathway; Ordinate: significant pathway (p<0.01 and FDR<0.05).
<b>FIG. 2.</b>
FIG. 2.
Two significant dynamic miRNA expression models and expression validation of miR-429. (A) Significant dynamic miRNA expression model of No.18. Abscissa: 0: normal; I, II, III, IV: TNM stage I–IV; Ordinate: normalized (relative) expression. (B) Significant dynamic miRNA expression model of No.59. Abscissa: 0: normal; I, II, III, IV: TNM stage I–IV; Ordinate: normalized expression. (C) Real-time PCR assay indicates the expression of miR-429 in CRC different TNM stages.
<b>FIG. 3.</b>
FIG. 3.
miRNA-GO Network and miRNA-Gene Network. (A) Significant GO of differentially expressed target genes regulated by miRNAs. Abscissa: -lg (p value) of significant GO; Ordinate: significant GO (p<0.01 and FDR<0.05). (B) miRNA-GO Network. Red box represents differentially expressed miRNAs; Blue circle represents significant GO; Straight line represents interaction between miRNA and GO; the area of box and circle are positively related to the number of interaction (degree).
<b>FIG. 4.</b>
FIG. 4.
ISH assay indicates the expression of miR-429 in CRC different TNM stages. (A, B, C and D) represent normal distant mucosa of patient of TNM stage I, II, III, and IV, respectively. (E, F, G and H) represent cancer of TNM stage I, II, III, and IV, respectively. Cancer and distant normal mucosa in the same column of the figure is pair matched from the same patient. (I and J) represent the lymphatic metastasis cancer of stage III and IV, respectively.
<b>FIG. 5.</b>
FIG. 5.
Kaplan–Meier survival curves according to expression levels of miR-429 in CRC.
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References

    1. The Gene Ontology (GO) project (2006) Nucleic Acids Res 34, D322–326 - PMC - PubMed
    1. Global Cancer Facts and Figures (2007). American Cancer Society, 12–13
    1. Albert R. (2005). Scale-free networks in cell biology. J Cell Sci 118, 4947–4957 - PubMed
    1. Ashburner M, Ball CA, Blake JA, et al. (2000). Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25, 25–29 - PMC - PubMed
    1. Barabasi AL, and Oltvai ZN. (2004). Network biology: Understanding the cell's functional organization. Nat Rev Genet 5, 101–113 - PubMed

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