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Article

Regulatory network analysis of genes and microRNAs in human hepatoblastoma

  • Authors:
    • Jimin He
    • Xiaoxin Guo
    • Linlin Sun
    • Ning Wang
    • Jiwei Bao
  • View Affiliations / Copyright

    Affiliations: College of Computer Science and Technology, Jilin University, Changchun, Jilin 130012, P.R. China, College of Software, Jilin University, Changchun, Jilin 130012, P.R. China
  • Pages: 4099-4106
    |
    Published online on: September 27, 2016
       https://doi.org/10.3892/ol.2016.5196
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Abstract

Hepatoblastoma (HB) is a common type of primary tumor in children. Previous studies have examined the expression of genes, including transcription factors (TFs), target genes, host genes and microRNAs (miRNAs or miRs) associated with HB. However, the regulatory pathways of miRNAs and genes remain unclear. In the present study, a novel perspective is proposed, which focuses on HB and the associated regulatory pathways, to construct three networks at various levels, including a differentially expressed network, an associated network and a global network. Genes and miRNAs are considered as key factors in the network. In the three networks, the associations between each pair of factors, including TFs that regulate miRNAs, miRNAs that interact with target genes and miRNAs that are located at host genes, were analyzed. The differentially expressed network is considered to be the most crucial of the three networks. All factors in the differentially expressed network were mutated or differentially expressed, which indicated that the majority of the factors were cancerogenic factors that may lead to HB. In addition, the network contained numerous abnormal linkages that may trigger HB. If the expression of each factor was corrected to a normal level, HB may be successfully treated. The associated network included more HB‑associated genes and miRNAs, and was useful for analyzing the pathogenesis of HB. By analyzing these close associations, the first and the last factor of the regulatory pathways were revealed to have important roles in HB. For example, v‑myc avian myelocytomatosis viral oncogene neuroblastoma derived homolog (MYCN) was observed to regulate Homo sapiens (hsa)‑miR‑221, hsa‑miR‑18a and hsa‑miR‑17‑5p, but no miRNAs targeted MYCN. In conclusion, the pathways and mechanisms underlying HB were expounded in the present study, which proposed a fundamental hypothesis for additional studies.
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1 

De Ioris M, Brugieres L, Zimmermann A, Keeling J, Brock P, Maibach R, Pritchard J, Shafford L, Zsiros J, Czaudzerna P and Perilongo G: Hepatoblastoma with a low serum alpha-fetoprotein level at diagnosis: The SIOPEL group experience. Eur J Cancer. 44:545–550. 2008. View Article : Google Scholar : PubMed/NCBI

2 

Lack EE, Neave C and Vawter GF: Hepatoblastoma. A clinical and pathologic study of 54 cases. Am J Surg Pathol. 6:693–705. 1982. View Article : Google Scholar : PubMed/NCBI

3 

Herzog CE, Andrassy RJ and Eftekhari F: Childhood cancers: Hepatoblastoma. Oncologist. 5:445–453. 2000. View Article : Google Scholar : PubMed/NCBI

4 

Shin E, Lee KB, Park SY, Kim SH, Ryu HS, Park YN, Yu E and Jang JJ: Gene expression profiling of human hepatoblastoma using archived formalin-fixed and paraffin-embedded tissues. Virchows Arch. 458:453–465. 2011. View Article : Google Scholar : PubMed/NCBI

5 

Baynam GS and Goldblatt J: A child with an FGFR3 mutation, a laterality disorder and an hepatoblastoma: Novel associations and possible gene-environment interactions. Twin Res Hum Genet. 13:297–300. 2010. View Article : Google Scholar : PubMed/NCBI

6 

Zimmermann A: The emerging family of hepatoblastoma tumours: From ontogenesis to oncogenesis. Eur J Cancer. 41:1503–1514. 2005. View Article : Google Scholar : PubMed/NCBI

7 

Hobert O: Gene regulation by transcription factors and microRNAs. Science. 319:1785–1786. 2008. View Article : Google Scholar : PubMed/NCBI

8 

Latchman DS: Transcription factors: An overview. Int J Biochem Cell Biol. 29:1305–1312. 1997. View Article : Google Scholar : PubMed/NCBI

9 

Bartel DP: MicroRNAs: Target recognition and regulatory functions. Cell. 136:215–233. 2009. View Article : Google Scholar : PubMed/NCBI

10 

Magrelli A, Azzalin G, Salvatore M, Viganotti M, Tosto F, Colombo T, Devito R, Di Masi A, Antoccia A, Lorenzetti S, et al: Altered microRNA expression patterns in hepatoblastoma patients. Transl Oncol. 2:157–163. 2009. View Article : Google Scholar : PubMed/NCBI

11 

Hobert O: Common logic of transcription factor and microRNA action. Trends Biochem Sci. 29:462–468. 2004. View Article : Google Scholar : PubMed/NCBI

12 

Wang J, Lu M, Qiu C and Cui Q: TransmiR: A transcription factor-microRNA regulation database. Nucleic Acids Res. 38:D119–D122. 2010. View Article : Google Scholar : PubMed/NCBI

13 

Griffiths-Jones S, Grocock RJ, van Dongen S, Bateman A and Enright AJ: miRBase: MicroRNA sequences, targets and gene nomenclature. Nucleic Acids Res. 34:D140–D144. 2006. View Article : Google Scholar : PubMed/NCBI

14 

Naeem H, Küffner R and Zimmer R: MIRTFnet: Analysis of miRNA regulated transcription factors. PLoS One. 6:e225192011. View Article : Google Scholar : PubMed/NCBI

15 

Volinia S, Calin GA, Liu CG, Ambs S, Cimmino A, Petrocca F, Visone R, Iorio M, Roldo C, Ferracin M, et al: A microRNA expression signature of human solid tumors defines cancer gene targets. Proc Natl Acad Sci USA. 103:2257–2261. 2006. View Article : Google Scholar : PubMed/NCBI

16 

Ishimoto K, Nakamura H, Tachibana K, Yamasaki D, Ota A, Hirano K, Tanaka T, Hamakubo T, Sakai J, Kodama T and Doi T: Sterol-mediated regulation of human lipin 1 gene expression in hepatoblastoma cells. J Biol Chem. 284:22195–22205. 2009. View Article : Google Scholar : PubMed/NCBI

17 

Brand AH and Perrimon N: Targeted gene expression as a means of altering cell fates and generating dominant phenotypes. Development. 118:401–415. 1993.PubMed/NCBI

18 

Rodriguez A, Griffiths-Jones S, Ashurst JL and Bradley A: Identification of mammalian microRNA host genes and transcription units. Genome Res. 14:1902–1910. 2004. View Article : Google Scholar : PubMed/NCBI

19 

Gennarino VA, Sardiello M, Avellino R, Meola N, Maselli V, Anand S, Cutillo L, Ballabio A and Banfi S: MicroRNA target prediction by expression analysis of host genes. Genome Res. 19:481–490. 2009. View Article : Google Scholar : PubMed/NCBI

20 

Papadopoulos GL, Reczko M, Simossis VA, Sethupathy P and Hatzigeorgiou AG: The database of experimentally supported targets: A functional update of TarBase. Nucleic Acids Res. 37:D155–D158. 2009. View Article : Google Scholar : PubMed/NCBI

21 

Kozomara A and Griffiths-Jones S: miRBase: Integrating microRNA annotation and deep-sequencing data. Nucleic Acids Res. 39:D152–D157. 2011. View Article : Google Scholar : PubMed/NCBI

22 

Garfield E: “Science Citation Index” - A new dimension in indexing. Science. 144:649–654. 1964. View Article : Google Scholar : PubMed/NCBI

23 

Chekmenev DS, Haid C and Kel AE: P-Match: Transcription factor binding site search by combining patterns and weight matrices. Nucleic Acids Res. 33:(Web Server). W432–W437. 2005. View Article : Google Scholar : PubMed/NCBI

24 

Fujita PA, Rhead B, Zweig AS, Hinrichs AS, Karolchik D, Cline MS, Goldman M, Barber GP, Clawson H, Coelho A, et al: The UCSC Genome Browser database: Update 2011. Nucleic Acids Res. 39:D876–D882. 2011. View Article : Google Scholar : PubMed/NCBI

25 

Bao J, Li D, Wang L, Wu J, Hu Y, Wang Z, Chen Y, Cao X, Jiang C, Yan W and Xu C: MicroRNA-449 and microRNA-34b/c function redundantly in murine testes by targeting E2F transcription factor-retinoblastoma protein (E2F-pRb) pathway. J Biol Chem. 287:21686–21698. 2012. View Article : Google Scholar : PubMed/NCBI

26 

Jiang Q, Wang Y, Hao Y, Juan L, Teng M, Zhang X, Li M, Wang G and Liu Y: miR2Disease: A manually curated database for microRNA deregulation in human disease. Nucleic Acids Res. 37:D98–104. 2009. View Article : Google Scholar : PubMed/NCBI

27 

Golan D, Levy C, Friedman B and Shomron N: Biased hosting of intronic microRNA genes. Bioinformatics. 26:992–995. 2010. View Article : Google Scholar : PubMed/NCBI

28 

Cairo S, Wang Y, de Reyniès A, Duroure K, Dahan J, Redon MJ, Fabre M, McClelland M, Wang XW, Croce CM and Buendia MA: Stem cell-like micro-RNA signature driven by Myc in aggressive liver cancer. Proc Natl Acad Sci USA. 107:20471–20476. 2010. View Article : Google Scholar : PubMed/NCBI

29 

López-Terrada D, Gunaratne PH, Adesina AM, Pulliam J, Hoang DM, Nguyen Y, Mistretta TA, Margolin J and Finegold MJ: Histologic subtypes of hepatoblastoma are characterized by differential canonical Wnt and Notch pathway activation in DLK+ precursors. Hum Pathol. 40:783–794. 2009. View Article : Google Scholar : PubMed/NCBI

30 

King CE, Wang L, Winograd R, Madison BB, Mongroo PS, Johnstone CN and Rustgi AK: LIN28B fosters colon cancer migration, invasion and transformation through let-7-dependent and -independent mechanisms. Oncogene. 30:4185–4193. 2011. View Article : Google Scholar : PubMed/NCBI

31 

Viswanathan SR and Daley GQ: Lin28: A microRNA regulator with a macro role. Cell. 140:445–449. 2010. View Article : Google Scholar : PubMed/NCBI

32 

Giardiello FM, Petersen GM, Brensinger JD, Luce MC, Cayouette MC, Bacon J, Booker SV and Hamilton SR: Hepatoblastoma and APC gene mutation in familial adenomatous polyposis. Gut. 39:867–9. 1996. View Article : Google Scholar : PubMed/NCBI

33 

Zirn B, Hartmann O, Samans B, Krause M, Wittmann S, Mertens F, Graf N, Eilers M and Gessler M: Expression profiling of Wilms tumors reveals new candidate genes for different clinical parameters. Int J Cancer. 118:1954–1962. 2006. View Article : Google Scholar : PubMed/NCBI

34 

Li J, Xu ZW, Wang KH, Wang N, Li DQ and Wang S: Networks of microRNAs and genes in retinoblastomas. Asian Pac J Cancer Prev. 14:6631–6636. 2014. View Article : Google Scholar : PubMed/NCBI

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Copy and paste a formatted citation
Spandidos Publications style
He J, Guo X, Sun L, Wang N and Bao J: Regulatory network analysis of genes and microRNAs in human hepatoblastoma. Oncol Lett 12: 4099-4106, 2016.
APA
He, J., Guo, X., Sun, L., Wang, N., & Bao, J. (2016). Regulatory network analysis of genes and microRNAs in human hepatoblastoma. Oncology Letters, 12, 4099-4106. https://doi.org/10.3892/ol.2016.5196
MLA
He, J., Guo, X., Sun, L., Wang, N., Bao, J."Regulatory network analysis of genes and microRNAs in human hepatoblastoma". Oncology Letters 12.5 (2016): 4099-4106.
Chicago
He, J., Guo, X., Sun, L., Wang, N., Bao, J."Regulatory network analysis of genes and microRNAs in human hepatoblastoma". Oncology Letters 12, no. 5 (2016): 4099-4106. https://doi.org/10.3892/ol.2016.5196
Copy and paste a formatted citation
x
Spandidos Publications style
He J, Guo X, Sun L, Wang N and Bao J: Regulatory network analysis of genes and microRNAs in human hepatoblastoma. Oncol Lett 12: 4099-4106, 2016.
APA
He, J., Guo, X., Sun, L., Wang, N., & Bao, J. (2016). Regulatory network analysis of genes and microRNAs in human hepatoblastoma. Oncology Letters, 12, 4099-4106. https://doi.org/10.3892/ol.2016.5196
MLA
He, J., Guo, X., Sun, L., Wang, N., Bao, J."Regulatory network analysis of genes and microRNAs in human hepatoblastoma". Oncology Letters 12.5 (2016): 4099-4106.
Chicago
He, J., Guo, X., Sun, L., Wang, N., Bao, J."Regulatory network analysis of genes and microRNAs in human hepatoblastoma". Oncology Letters 12, no. 5 (2016): 4099-4106. https://doi.org/10.3892/ol.2016.5196
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