Systematic identification of key genes and pathways in the development of invasive cervical cancer

Gene

Volumn 618, Issue , 2017, Pages 28-41

  Niu, Guoping ^a   Wang, Duping ^a   Pei, Yunfeng ^a   Sun, Li ^a  

^a MEDICAL SCHOOL OF SOUTHEAST UNIVERSITY   (China)

Author keywords

Bioinformatics; CDKN2A; Cervical cancer; IL1R2; RFC4

Indexed keywords

CYCLIN DEPENDENT KINASE INHIBITOR 2A; INTERLEUKIN 1 RECEPTOR TYPE II; PROTEIN; RFC4 PROTEIN; UNCLASSIFIED DRUG; CDKN2A PROTEIN, HUMAN; CYCLIN DEPENDENT KINASE INHIBITOR 2C; IL1R2 PROTEIN, HUMAN; REPLICATION FACTOR C; RFC4 PROTEIN, HUMAN; TUMOR MARKER;

ARTICLE; CANCER GROWTH; CANCER STAGING; CARCINOGENESIS; CELL CYCLE; CELL DIVISION; CELL PROLIFERATION; CONTROLLED STUDY; FEMALE; GENE EXPRESSION PROFILING; GENE IDENTIFICATION; HUMAN; PRIORITY JOURNAL; SQUAMOUS CELL CARCINOMA; TUMOR INVASION; UTERINE CERVIX CANCER; GENE EXPRESSION REGULATION; GENETICS; METABOLISM; PATHOLOGY; UTERINE CERVIX TUMOR;

BIOMARKERS, TUMOR; CARCINOMA, SQUAMOUS CELL; CYCLIN-DEPENDENT KINASE INHIBITOR P18; FEMALE; GENE EXPRESSION REGULATION, NEOPLASTIC; HUMANS; NEOPLASM INVASIVENESS; RECEPTORS, INTERLEUKIN-1 TYPE II; REPLICATION PROTEIN C; UTERINE CERVICAL NEOPLASMS;

EID: 85018997405     PISSN: 03781119     EISSN: 18790038     Source Type: Journal    
DOI: 10.1016/j.gene.2017.03.018     Document Type: Article

References (60)

1. Agoff, S.N., p16INK4a expression correlates with degree of cervical neoplasia: a comparison with Ki-67 expression and detection of high-risk HPV types. Mod. Pathol. 7 (2003), 665–673.
2. Almouzni G, Polo SE, Theocharis SE, Vielh P. Proliferation markers in clinical practice and their use for breast cancer prognosis or diagnosis. US Patent; 2010.
3. Amichay, K., Kidron, D., Attias-Geva, Z., Schayek, H., Sarfstein, R., Fishman, A., et al. BRCA1 is expressed in uterine serous carcinoma (USC) and controls insulin-like growth factor I receptor (IGF-IR) gene expression in USC cell lines. Int. J. Gynecol. Cancer 22:5 (2012), 748–754.
4. Arai, M., Kondoh, N., Imazeki, N., Hada, A., Hatsuse, K., Matsubara, O., et al. The knockdown of endogenous replication factor C4 decreases the growth and enhances the chemosensitivity of hepatocellular carcinoma cells. Liver Int. 29:1 (2009), 55–62.
5. Bachtiary, B., Boutros, P.C., Pintilie, M., Shi, W., Bastianutto, C., Li, J.H., et al. Gene expression profiling in cervical cancer: an exploration of intratumor heterogeneity. Clin. Cancer Res. 12:3 (2006), 5632–5640.
6. Balanda, M., Quiero, A., Vergara, N., Espinoza, G., Martín, H.S., Rojas, G., et al. Prevalence of Human Papillomavirus Infection Among Women Presenting for Cervical Cancer Screening in Chile, 2014–2015. 2016.
7. Biewenga, P., Buist, M.R., Moerland, P.D., Themaat, E.V.L.V., Kampen, A.H.C.V., Kate, F.J.W.T., et al. Gene expression in early stage cervical cancer. Gynecol. Oncol. 108:3 (2008), 520–526.
8. Bing, R., Cam, H., Takahashi, Y., Volkert, T., Terragni, J., Young, R.A., et al. E2F integrates cell cycle progression with DNA repair, replication, and G(2)/M checkpoints. Genes Dev. 16:2 (2002), 245–256.
9. Bouley, J., Pionneau, C., Varinot, J., Biard, D., Genestie, C., Antoine, M., et al. Proteomic analysis of BRCA1-depleted cell line reveals a putative role for replication protein A2 up-regulation in BRCA1 breast tumor development. Proteomics Clin. Appl. 4:5 (2010), 489–498.
10. Chansaenroj, J., Theamboonlers, A., Junyangdikul, P., Swangvaree, S., Karalak, A., Chinchai, T., et al. Polymorphisms in TP53 (rs1042522), p16 (rs11515 and rs3088440) and NQO1 (rs1800566) genes in Thai cervical cancer patients with HPV 16 infection. Asian Pac. J. Cancer Prev. 14:1 (2013), 341–346.
11. Chatr-aryamontri, A., Breitkreutz, B.-J., Heinicke, S., Boucher, L., Winter, A., Stark, C., et al. The BioGRID interaction database: 2013 update. Nucleic Acids Res., 41(D1), 2013, D816-D23.
12. Chen, W., Zheng, R., Baade, P.D., Zhang, S., Zeng, H., Bray, F., et al. Cancer statistics in China, 2015. CA Cancer J. Clin. 66:2 (2016), 115–132.
13. Choi, C.H., Lee, K.M., Choi, J.J., Kim, T.J., Kim, W.Y., Lee, J.W., et al. Hypermethylation and loss of heterozygosity of tumor suppressor genes on chromosome 3p in cervical cancer. Cancer Lett. 255:1 (2007), 26–33.
14. Cui, B., Zheng, B., Zhang, X., Stendahl, U., Andersson, S., Wallin, K.L., Mutation of PIK3CA: possible risk factor for cervical carcinogenesis in older women. Int. J. Oncol. 34:2 (2009), 409–416.
15. Deng, B., Zhang, Y., Zhang, S., Wen, F., Miao, Y., Guo, K., MicroRNA-142-3p inhibits cell proliferation and invasion of cervical cancer cells by targeting FZD7. Tumor Biol., 2015, 1–9.
16. Garnett, M.J., Edelman, E.J., Heidorn, S.J., Greenman, C.D., Dastur, A., Lau, K.W., et al. Systematic identification of genomic markers of drug sensitivity in cancer cells. Nature 483:7391 (2012), 570–575.
17. Gentleman, R., Carey, V., Huber, W., Irizarry, R., Dudoit, S., Bioinformatics and Computational Biology Solutions Using R and Bioconductor. 2006, Springer Science & Business Media.
18. Grigsby, P., Watson, M., Powell, M., Zhang, Z., Rader, J., Gene expression patterns in advanced human cervical cancer. Int. J. Gynecol. Cancer 16:2 (2006), 562–567.
19. Hamada, K., Shirakawa, T., Gotoh, A., Roth, J.A., Follen, M., Adenovirus-mediated transfer of human papillomavirus 16 < em > E6/E7 antisense RNA and induction of apoptosis in cervical cancer. Gynecol. Oncol. 103:3 (2006), 820–830.
20. Huang, L., Zheng, M., Zhou, Q.-M., Zhang, M.-Y., Yu, Y.-H., Yun, J.-P., et al. Identification of a 7-gene signature that predicts relapse and survival for early stage patients with cervical carcinoma. Med. Oncol. 29:4 (2012), 2911–2918.
21. Jemal, A., Bray, F., Center, M.M., Ferlay, J., Ward, E., Forman, D., Global cancer statistics. CA Cancer J. Clin. 61:1 (2011), 33–64 1.
22. Jiang, M., Milner, J., Selective silencing of viral gene expression in HPV-positive human cervical carcinoma cells treated with siRNA, a primer of RNA interference. Oncogene 21:39 (2002), 6041–6048.
23. Keita, M., Ainmelk, Y., Pelmus, M., Bessette, P., Aris, A., Endometrioid ovarian cancer and endometriotic cells exhibit the same alteration in the expression of interleukin-1 receptor II: to a link between endometriosis and endometrioid ovarian cancer. J. Obstet. Gynaecol. Res. 37:2 (2011), 99–107.
24. Kekeeva, T.V., Zhevlova, A.I., Podistov, Y.I., Solov'Eva, Y.V., Zaletaev, D.V., Nemtsova, M.V., Aberrant methylation of tumor suppressor genes and allelic imbalance in cervical intraepithelial neoplasia. Mol. Biol. 40:2 (2006), 224–230.
25. Khodakarami, N., Moradi, A., Mirzaei, H., Farzaneh, F., Yavari, P., Akbari, M.E., Frequency of human papillomavirus among women with high-grade squamous intraepithelial lesions and invasive cervical cancer attending Shahid Beheshti University of Medical Sciences Clinics, Tehran, Iran. Iran. J. Public Health. 43:11 (2014), 1563–1568.
26. Kibel, A.S., Ahn, J., Isikbay, M., Klim, A., Wu, W.S., Hayes, R.B., et al. Genetic variants in cell cycle control pathway confer susceptibility to aggressive prostate carcinoma. Prostate 76:5 (2015), 479–490.
27. Kitchener, H.C., Denton, K., Soldan, K., Crosbie, E.J., Developing role of HPV in cervical cancer prevention. BMJ, 347(347), 2013, f5207.
28. Kjær, S.K., Carcinogenic HPV prevalence and age-specific type distribution in 40,382 women with normal cervical cytology, ASCUS/LSIL, HSIL, or cervical cancer: what is the potential for prevention?. Cancer Causes Control 25:2 (2014), 179–189.
29. Kubota, Y., Mimura, S., Nishimoto, S., Takizawa, H., Nojima, H., Identification of the yeast MCM3-related protein as a component of Xenopus DNA replication licensing factor. Cell 81:4 (1995), 601–609.
30. Lefor, A.T., Computational oncology. Jpn. J. Clin. Oncol. 41:8 (2011), 937–947.
31. Levitus, M., Waisfisz, Q., Godthelp, B.C., de Vries, Y., Hussain, S., Wiegant, W.W., et al. The DNA helicase BRIP1 is defective in Fanconi anemia complementation group J. Nat. Genet. 37:9 (2005), 934–935.
32. Li, B., Wang, X., Chen, H., Shang, L.X., Wu, N., TP53 codon 72 polymorphism and susceptibility to cervical cancer in the Chinese population: an update meta-analysis. Int. J. Clin. Exp. Med. 8:6 (2014), 9055–9062.
33. Li, Z., Gonzalez, C.L., Wang, B., Zhang, Y., Mejia, O., Katsonis, P., et al. Cdkn2a suppresses metastasis in squamous cell carcinomas induced by the gain-of-function mutant p53 R172H. J. Pathol., 2016.
34. Liu, X., Min, L., Duan, H., Shi, R., Zhang, W., Hong, S., et al. Short hairpin RNA (shRNA) of type 2 interleukin-1 receptor (IL1R2) inhibits the proliferation of human osteosarcoma U-2 OS cells. Med. Oncol. 32:1 (2015), 1–6.
35. Lou, H., Villagran, G., Boland, J.F., Im, K.M., Polo, S., Zhou, W., et al. Genome analysis of Latin American cervical cancer: frequent activation of the PIK3CA pathway. Clin. Cancer Res., 21, 2015.
36. Márquez-Gutiérrez, M.A., Benítez-Hess, M.L., Dipaolo, J.A., Alvarez-Salas, L.M., Effect of combined antisense oligodeoxynucleotides directed against the human papillomavirus type 16 on cervical carcinoma cells. Arch. Med. Res. 38:7 (2007), 730–738.
37. McDowall, M.D., Scott, M.S., Barton, G.J., PIPs: human protein–protein interaction prediction database. Nucleic Acids Res., 37(Suppl. 1), 2009, D651-D6.
38. Narayan, G., Arias-Pulido, H., Nandula, S.V., Basso, K., Sugirtharaj, D.D., Vargas, H., et al. Promoter hypermethylation of FANCF disruption of Fanconi anemia-BRCA pathway in cervical cancer. Cancer Res. 64:9 (2004), 2994–2997.
39. Noël, J.C., Simon, P., Limitations on the detection rate of high-risk HPV by hybrid capture 2 methodology in high grade intraepithelial (HSIL) or atypical squamous cells-cannot exclude HSIL (ASC-H) cytological lesions with proved CIN2. Anal. Cell. Pathol. 2014 (2015), 1–4.
40. Ozturk, M., Umudum, H., Alanbay, I., Ulubay, M., Fidan, U., Dede, M., et al. Risk of HSIL (CIN 2–3) on colposcopic biopsy is minimal in postmenopausal women with LSIL on cytology and a negative HRHPV test. Diagn. Cytopathol., 2016.
41. Prasad, T.K., Goel, R., Kandasamy, K., Keerthikumar, S., Kumar, S., Mathivanan, S., et al. Human protein reference database—2009 update. Nucleic Acids Res., 37(Suppl. 1), 2009, D767-D72.
42. Pyeon, D., Newton, M.A., Lambert, P.F., Boon, J.A.D., Sengupta, S., Marsit, C.J., et al. Fundamental differences in cell cycle deregulation in human papillomavirus–positive and human papillomavirus–negative head/neck and cervical cancers. Cancer Res. 67:10 (2007), 4605–4619.
43. Roncati, L., Barbolini, G., Sartori, G., Siopis, E., Pusiol, T., Maiorana, A., Loss of CDKN2A promoter methylation coincides with the epigenetic transdifferentiation of uterine myosarcomatous cells. Int. J. Gynecol. Pathol., 35(4), 2016.
44. Ryckman, K.K., Williams, S.M., Krohn, M.A., Simhan, H.N., Interaction between interleukin-1 receptor 2 and Toll-like receptor 4, and cervical cytokines. J. Reprod. Immunol. 90:2 (2011), 220–226.
45. Sano, T., Oyama, T., Kashiwabara, K., Fukuda, T., Nakajima, T., Immunohistochemical overexpression of p16 protein associated with intact retinoblastoma protein expression in cervical cancer and cervical intraepithelial neoplasia. Pathol. Int. 48:8 (1998), 580–585.
46. Scotto, L., Narayan, G., Nandula, S.V., Arias-Pulido, H., Subramaniyam, S., Schneider, A., et al. Identification of copy number gain and overexpressed genes on chromosome arm 20q by an integrative genomic approach in cervical cancer: potential role in progression. Genes Chromosom. Cancer 47:47 (2008), 755–765.
47. Smoot, M.E., Ono, K., Ruscheinski, J., Wang, P.-L., Ideker, T., Cytoscape 2.8: new features for data integration and network visualization. Bioinformatics 27:3 (2011), 431–432.
48. Srihari, S., Kalimutho, M., Lal, S., Singla, J., Patel, D., Simpson, P.T., et al. Understanding the functional impact of copy number alterations in breast cancer using a network modeling approach. Mol. BioSyst. 12:3 (2016), 963–972.
49. Stiasny, A., Kuhn, C., Mayr, D., Alexiou, C., Janko, C., Wiest, I., et al. Immunohistochemical evaluation of E6/E7 HPV oncoproteins staining in cervical cancer. Anticancer Res. 36:6 (2016), 3195–3198.
50. Stone, S., Jiang, P., Dayananth, P., Tavtigian, S.V., Katcher, H., Parry, D., et al. Complex structure and regulation of the P16 (MTS1) locus. Cancer Res. 55:14 (1995), 2988–2994.
51. Tavazoie, S., Hughes, J.D., Campbell, M.J., Cho, R.J., Church, G.M., Systematic determination of genetic network architecture. Nat. Genet. 22:3 (1999), 281–285.
52. Vader, G., Pch2TRIP13: controlling cell division through regulation of HORMA domains. Chromosoma, 2015, 1–7.
53. Volgareva, G., Zavalishina, L., Andreeva, Y., Frank, G., Krutikova, E., Golovina, D., et al. Protein p16 as a marker of dysplastic and neoplastic alterations in cervical epithelial cells. BMC Cancer, 4(5), 2004, 58.
54. Wang, H.Y., Park, S., Lee, D., Kim, S., Kim, G., Park, K.H., et al. Prevalence of type-specific oncogenic human papillomavirus infection assessed by HPV E6/E7 mRNA among women with high-grade cervical lesions. Int. J. Infect. Dis., 37(1), 2015, 137.
55. Wijetunga, N.A., Belbin, T.J., Burk, R.D., Whitney, K., Abadi, M., Greally, J.M., et al. Novel epigenetic changes in CDKN2A are associated with progression of cervical intraepithelial neoplasia. Gynecol. Oncol., 2016.
56. Wina, V., Snijders, P.J.F., Van, M.M.I.H., Maaike, B., Lawrence, R., Daoud, S., et al. Somatic mutation in PIK3CA is a late event in cervical carcinogenesis. J. Pathol. Clin. Res. 1:4 (2015), 207–211.
57. Wong, Y.F., Cheung, T.H., Tsao, G.S., Lo, K.W., Yim, S.F., Wang, V.W., et al. Genome-wide gene expression profiling of cervical cancer in Hong Kong women by oligonucleotide microarray. Int. J. Cancer 118:10 (2006), 2461–2469.
58. Xiang, J., Fang, L., Luo, Y., Yang, Z., Yi, L., Ji, C., et al. Levels of human replication factor C4, a clamp loader, correlate with tumor progression and predict the prognosis for colorectal cancer. J. Transl. Med. 12:1 (2014), 1–11.
59. Xiang, L., Wei, J., Li, J., Shen, X., Yang, W., Yang, G., et al. PIK3CA mutation analysis in Chinese patients with surgically resected cervical cancer. Sci. Rep., 5, 2015.
60. Zhai, Y., Kuick, R., Nan, B., Ota, I., Weiss, S.J., Trimble, C.L., et al. Gene expression analysis of preinvasive and invasive cervical squamous cell carcinomas identifies HOXC10 as a key mediator of invasion. Cancer Res. 67:21 (2007), 10163–10172.