Correlation of clinical features and genetic profiles of stromal interaction molecule 1 (STIM1) in colorectal cancers

Oncotarget

Volumn 6, Issue 39, 2015, Pages 42169-42182

  Wong, Henry Sung Ching ^a   Chang, Wei Chiao ^a,b,c  

^a TAIPEI MEDICAL UNIVERSITY   (Taiwan)

^b TAIPEI MEDICAL UNIVERSITY   (Taiwan)

^c KAOHSIUNG MEDICAL UNIVERSITY   (Taiwan)

Author keywords

Bioinformatics; Colorectal cancer; Data mining; Stored operated calcium entry pathway; Stromal interaction molecule 1

Indexed keywords

MESSENGER RNA; MICRORNA; STROMAL INTERACTION MOLECULE 1; TUMOR MARKER; MEMBRANE PROTEIN; STIM1 PROTEIN, HUMAN; TUMOR PROTEIN;

ADULT; AGED; ARTICLE; CANCER PROGNOSIS; CANCER SURVIVAL; CELL MIGRATION; CELL MOTILITY; CLINICAL FEATURE; COLON ADENOCARCINOMA; COLORECTAL CANCER; CONTROLLED STUDY; DOWN REGULATION; FEMALE; GENE INTERACTION; GENETIC ASSOCIATION; GENETIC VARIABILITY; GENOME ANALYSIS; HUMAN; MAJOR CLINICAL STUDY; MALE; OVERALL SURVIVAL; PREDICTION; PROTEIN EXPRESSION; RECTUM CARCINOMA; TRANSCRIPTION REGULATION; UPREGULATION; ADENOCARCINOMA; CANCER STAGING; COLON TUMOR; COLORECTAL TUMOR; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENETICS; METABOLISM; MIDDLE AGED; PATHOLOGY; PROCEDURES; PROGNOSIS; RECTUM TUMOR; SEQUENCE ANALYSIS; SIGNAL TRANSDUCTION; VERY ELDERLY;

ADENOCARCINOMA; ADULT; AGED; AGED, 80 AND OVER; COLONIC NEOPLASMS; COLORECTAL NEOPLASMS; FEMALE; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, NEOPLASTIC; HUMANS; MALE; MEMBRANE PROTEINS; MICRORNAS; MIDDLE AGED; NEOPLASM PROTEINS; NEOPLASM STAGING; PROGNOSIS; RECTAL NEOPLASMS; SEQUENCE ANALYSIS, RNA; SIGNAL TRANSDUCTION; STROMAL INTERACTION MOLECULE 1;

EID: 84951824689     PISSN: None     EISSN: 19492553     Source Type: Journal    
DOI: 10.18632/oncotarget.5888     Document Type: Article

References (38)

1. Siegel, R., J. Ma, Z. Zou, A. Jemal. Cancer statistics, 2014. CA Cancer J Clin. 2014; 64:9-29.
2. Hanahan, D., R.A. Weinberg. Hallmarks of cancer: the next generation. Cell. 2011; 144:646-74.
3. Li, J.N., L. Zhao, J. Wu, B. Wu, H. Yang, H.H. Zhang, J.M. Qian. Differences in gene expression profiles and carcinogenesis pathways between colon and rectal cancer. J Dig Dis. 2012; 13:24-32.
4. Sun, J., F. Lu, H. He, J. Shen, J. Messina, R. Mathew, D. Wang, A.A. Sarnaik, W.C. Chang, M. Kim, H. Cheng, S. Yang. STIM1-and Orai1-mediated Ca(2+) oscillation orchestrates invadopodium formation and melanoma invasion. J Cell Biol. 2014; 207:535-48.
5. Yang, S., J.J. Zhang, X.Y. Huang. Orai1 and STIM1 are critical for breast tumor cell migration and metastasis. Cancer Cell. 2009; 15:124-34.
6. Wang JY, Chen BK, Wang YS, Tsai YT, Chen WC, Chang WC, Hou MF, Wu YC, Chang WC. Involvement of store-operated calcium signaling in EGF-mediated COX-2 gene activation in cancer cells. Cell Signal. 2012; 24:162-9.
7. Cancer Genome Atlas, N. Comprehensive molecular characterization of human colon and rectal cancer. Nature. 2012; 487:330-7.
8. Brunet, J.P., P. Tamayo, T.R. Golub, J.P. Mesirov. Metagenes and molecular pattern discovery using matrix factorization. Proc Natl Acad Sci U S A. 2004; 101:4164-9.
9. Tarca, A.L., S. Draghici, P. Khatri, S.S. Hassan, P. Mittal, J.S. Kim, C.J. Kim, J.P. Kusanovic, R. Romero. A novel signaling pathway impact analysis. Bioinformatics. 2009; 25:75-82.
10. Kanehisa, M., S. Goto. KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 2000; 28:27-30.
11. Zohrabian, V.M., H. Nandu, N. Gulati, G. Khitrov, C. Zhao, A. Mohan, J. Demattia, A. Braun, K. Das, R. Murali, M. Jhanwar-Uniyal. Gene expression profiling of metastatic brain cancer. Oncol Rep. 2007; 18:321-8.
12. Love, M.I., W. Huber, S. Anders. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 2014; 15:550.
13. Volinia, S., C.M. Croce. Prognostic microRNA/mRNA signature from the integrated analysis of patients with invasive breast cancer. Proc Natl Acad Sci U S A. 2013; 110:7413-7.
14. Wang, J.Y., J. Sun, M.Y. Huang, Y.S. Wang, M.F. Hou, Y. Sun, H. He, N. Krishna, S.J. Chiu, S. Lin, S. Yang, W.C. Chang. STIM1 overexpression promotes colorectal cancer progression, cell motility and COX-2 expression. Oncogene. 2015; 34:4358-67.
15. Samakai, E., R. Hooper, J. Soboloff. The critical role of STIM1-dependent Ca2+ signalling during T-cell development and activation. Int J Biochem Cell Biol. 2013; 45:2491-5.
16. Shaw, P.J., S. Feske. Physiological and pathophysiological functions of SOCE in the immune system. Front Biosci (Elite Ed). 2012; 4:2253-68.
17. Wang, D., R.N. DuBois. The role of anti-inflammatory drugs in colorectal cancer. Annu Rev Med. 2013; 64:131-44.
18. Fan, L., A. Li, W. Li, P. Cai, B. Yang, M. Zhang, Y. Gu, Y. Shu, Y. Sun, Y. Shen, X. Wu, G. Hu, X. Wu, et al. Novel role of Sarco/endoplasmic reticulum calcium ATPase 2 in development of colorectal cancer and its regulation by F36, a curcumin analog. Biomed Pharmacother. 2014; 68:1141-8.
19. Craig, D.H., B. Haimovich, M.D. Basson. Alpha-actinin-1 phosphorylation modulates pressureinduced colon cancer cell adhesion through regulation of focal adhesion kinase-Src interaction. Am J Physiol Cell Physiol. 2007; 293:C1862-74.
20. Liu, L., K. Ishihara, T. Ichimura, N. Fujita, S. Hino, S. Tomita, S. Watanabe, N. Saitoh, T. Ito, M. Nakao. MCAF1/AM is involved in Sp1-mediated maintenance of cancer-associated telomerase activity. J Biol Chem. 2009; 284:5165-74.
21. Stadthagen, G., D. Tehler, N.M. Hoyland-Kroghsbo, J. Wen, A. Krogh, K.T. Jensen, E. Santoni-Rugiu, L.H. Engelholm, A.H. Lund. Loss of miR-10a activates lpo and collaborates with activated Wnt signaling in inducing intestinal neoplasia in female mice. PLoS Genet. 2013; 9:e1003913.
22. Zhao, Y., G. Miao, Y. Li, T. Isaji, J. Gu, J. Li, R. Qi. MicroRNA-130b suppresses migration and invasion of colorectal cancer cells through downregulation of integrin beta1 [corrected]. PLoS One. 2014; 9:e87938.
23. Humphreys, K.J., R.A. McKinnon, M.Z. Michael. miR-18a inhibits CDC42 and plays a tumour suppressor role in colorectal cancer cells. PLoS One. 2014; 9:e112288.
24. Lu, Y.X., L. Yuan, X.L. Xue, M. Zhou, Y. Liu, C. Zhang, J.P. Li, L. Zheng, M. Hong, X.N. Li. Regulation of colorectal carcinoma stemness, growth, and metastasis by an miR-200c-Sox2-negative feedback loop mechanism. Clin Cancer Res. 2014; 20:2631-42.
25. Zhou, J., J. Wang, S. Wu, S. Zhu, S. Wang, H. Zhou, X. Tian, N. Tang, S. Nie. Angiopoietin-like protein 2 negatively regulated by microRNA-25 contributes to the malignant progression of colorectal cancer. Int J Mol Med. 2014; 34:1286-92.
26. Tang, Q., Z. Zou, C. Zou, Q. Zhang, R. Huang, X. Guan, Q. Li, Z. Han, D. Wang, H. Wei, X. Gao, X. Wang. MicroRNA-93 suppress colorectal cancer development via Wnt/beta-catenin pathway downregulating. Tumour Biol. 2015; 36:1701-10
27. Ju, S.Y., S.H. Chiou, Y. Su. Maintenance of the stemness in CD44(+) HCT-15 and HCT-116 human colon cancer cells requires miR-203 suppression. Stem Cell Res. 2014; 12:86-100.
28. Tell, R.W., C.M. Horvath. Bioinformatic analysis reveals a pattern of STAT3-associated gene expression specific to basal-like breast cancers in human tumors. Proc Natl Acad Sci U S A. 2014; 111:12787-92.
29. Wettenhall, J.M., G.K. Smyth. limmaGUI: a graphical user interface for linear modeling of microarray data. Bioinformatics. 2004; 20:3705-6.
30. Gaujoux, R., C. Seoighe. A flexible R package for nonnegative matrix factorization. BMC Bioinformatics. 2010; 11:367.
31. Warden, C.D., N. Kanaya, S. Chen, Y.C. Yuan. BD-Func: a streamlined algorithm for predicting activation and inhibition of pathways. PeerJ. 2013; 1:e159.
32. Yu, G., L.G. Wang, Y. Han, Q.Y. He. clusterProfiler: an R package for comparing biological themes among gene clusters. OMICS. 2012; 16:284-7.
33. Subramanian, A., P. Tamayo, V.K. Mootha, S. Mukherjee, B.L. Ebert, M.A. Gillette, A. Paulovich, S.L. Pomeroy, T.R. Golub, E.S. Lander, J.P. Mesirov. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A. 2005; 102:15545-50.
34. Beisser, D., G.W. Klau, T. Dandekar, T. Muller, M.T. Dittrich. BioNet: an R-Package for the functional analysis of biological networks. Bioinformatics. 2010; 26:1129-30.
35. Keshava Prasad, T.S., R. Goel, K. Kandasamy, S. Keerthikumar, S. Kumar, S. Mathivanan, D. Telikicherla, R. Raju, B. Shafreen, A. Venugopal, L. Balakrishnan, A. Marimuthu, S. Banerjee, et al. Human Protein Reference Database- update. Nucleic Acids Res. 2009; 37:D767-72.
36. Castro, M.A., X. Wang, M.N. Fletcher, K.B. Meyer, F. Markowetz. RedeR: R/Bioconductor package for representing modular structures, nested networks and multiple levels of hierarchical associations. Genome Biol. 2012; 13:R29.
37. Luo, W., C. Brouwer. Pathview: an R/Bioconductor package for pathway-based data integration and visualization. Bioinformatics. 2013; 29:1830-1.
38. Robin, X., N. Turck, A. Hainard, N. Tiberti, F. Lisacek, J.C. Sanchez, M. Muller. pROC: an open-source package for R and S+ to analyze and compare ROC curves. BMC Bioinformatics. 2011; 12:77.