Abstract
Oral cancer is one of the most common malignancies worldwide with aggressive behavior. Despite the advancements in preventive measures, diagnosis, and management of oral cancer, the 5-year survival rate has been low. For the last few decades, basic and advanced molecular techniques have been used to understand the molecular process involved in transformation of normal oral epithelium into cancer. Accumulation of genetic changes due to extrinsic or intrinsic factors results in the initiation, progression, and recurrence of oral cancer. However, the recent focus has shifted to understanding the tumor microenvironment and cancer stem cells. The common genetic alterations include mutations, amplifications, silencing, and epigenetic changes. This review elaborates the transcriptional biomarkers which are expressed in the process of carcinogenesis. The use of molecular techniques for detection of these biomarkers can aid in early diagnosis and better prognosis. Brief descriptions of relevant computational techniques are given, and databases are indicated.
Oral cancer (OC) and oral squamous cell carcinoma (OSCC) are used interchangeably.
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References
Adan A, Alizada G, Kiraz Y, Baran Y, Nalbant A (2016) Flow cytometry: basic principles and applications. Crit Rev Biotechnol 37:163–176. https://doi.org/10.3109/07388551.2015.1128876
Albarts B, Bray D, Lewis J (1994) Molecular biology of the cell. Garland Publishing Inc, London
Albini A, Bruno A, Gallo C, Pajardi G, Noonan DM, Dallaglio K (2015) Cancer stem cells and the tumor microenvironment: interplay in tumor heterogeneity. Connect Tissue Res 56:414–425. https://doi.org/10.3109/03008207.2015.1066780
Al-Rawi N, Ghazi A, Merza M (2014) PIK3CB and K-ras in oral squamous cell carcinoma. A possible cross-talk! J Orofac Sci 6:99. https://doi.org/10.4103/0975-8844.143049
Anders S, Huber W (2010) Differential expression analysis for sequence count data. Genome Biol 11:R106. https://doi.org/10.1186/gb-2010-11-10-r106
Ariel IR (2011) Roles of stearoylCoA desaturase-1 in the regulation of cancer cell growth, survival and tumorigenesis. Cancers 3:2462–2477. https://doi.org/10.3390/cancers3022462
Arif M, Vedamurthy BM, Choudhari R, Ostwal YB, Mantelingu K, Kodaganur GS, Kundu TK (2010) Nitric oxide-mediated histone hyperacetylation in oral cancer: target for a water-soluble HAT inhibitor, CTK7A. Chem Biol 17:903–913. https://doi.org/10.1016/j.chembiol.2010.06.014
Asokan GS, Jeelani S, Gnanasundaram N (2014) Promoter hypermethylation profile of tumour suppressor genes in oral leukoplakia and oral squamous cell carcinoma. J Clin Diagn Res 8(10):ZC09–ZC12. https://doi.org/10.7860/JCDR/2014/9251.4949. Epub 2014 Oct 20
Bagan J, Sarrion G, Jimenez Y (2010) Oral cancer: clinical features. Oral Oncol 46:414–417. https://doi.org/10.1016/j.oraloncology.2010.03.009
Bellone M, Calcinotto A, Filipazzi P, De Milito A, Fais S, Rivoltini L (2013) The acidity of the tumor microenvironment is a mechanism of immune escape that can be overcome by proton pump inhibitors. Oncoimmunology 2:e22058. https://doi.org/10.4161/onci.22058
Beloribi-Djefaflia S, Vasseur S, Guillaumond F (2016) Lipid metabolic reprogramming in cancer cells. Oncogenesis 5:e189. https://doi.org/10.1038/oncsis.2015.49
Bertram JS (2000) The molecular biology of cancer. Mol Asp Med 21:167–223
Brennan JA, Mao L, Hruban RH, Boyle JO, Eby YJ, Koch WM, Goodman SN, Sidransky D (1995) Molecular assessment of histopathological staging in squamous-cell carcinoma of the head and neck. N Engl J Med 332:429–435. https://doi.org/10.1056/NEJM199502163320704
Cancer I, Consortium G (2013) Mutational landscape of gingivo-buccal oral squamous cell carcinoma reveals new recurrently-mutated genes and molecular subgroups. Nat Commun 4:2873. https://doi.org/10.1038/ncomms3873
Chang KY, Tsai SY, Chen SH, Tsou HH, Yen CJ, Liu KJ, Fang HL, Wu HC, Chuang BF, Chou SW, Tang CK (2013) Dissecting the EGFR-PI3K-AKT pathway in oral cancer highlights the role of the EGFR variant III and its clinical relevance. J Biomed Sci 27:20–43. https://doi.org/10.1186/1423-0127-20-43
Chaw SY, Abdul Majeed A, Dalley AJ, Chan A, Stein S, Farah CS (2012) Epithelial to mesenchymal transition (EMT) biomarkers – E-cadherin, beta-catenin, APC and Vimentin – In oral squamous cell carcinogenesis and transformation. Oral Oncol 48:997–1006. https://doi.org/10.1016/j.oraloncology.2012.05.011
Chen HM, Kuo MYP, Lin KH, Lin CY, Chiang CP (2003) Expression of cyclin A is related to progression of oral squamous cell carcinoma in Taiwan. Oral Oncol 39:476–482. https://doi.org/10.1016/S1368-8375(03)00007-1
Chen C, Zimmermann M, Tinhofer I, Kaufmann AM, Albers AE (2013) Epithelial-to-mesenchymal transition and cancer stem (−like) cells in head and neck squamous cell carcinoma. Cancer Lett 338:47–56. https://doi.org/10.1016/j.canlet.2012.06.013
Chen J, Zhou J, Lu J, Xiong H, Shi X, Gong L (2014) Significance of CD44 expression in head and neck cancer: a systemic review and meta-analysis. BMC Cancer 14:15. https://doi.org/10.1186/1471-2407-14-15
Christopoulos A, Ahn SM, Klein JD, Kim S (2011) Biology of vascular endothelial growth factor and its receptors in head and neck cancer: beyond angiogenesis. Head Neck 33:1220–1229. https://doi.org/10.1002/hed.21588
Conesa A, Madrigal P, Tarazona S, Gomez-Cabrero D, Cervera A, McPherson A, Szczesniak MW, Gaffney DJ, Elo LL, Zhang X, Mortazavi A (2016) A survey of best practices for RNA-seq data analysis. Genome Biol 17:13. https://doi.org/10.1186/s13059-016-0881-8
Curry JM, Sprandio J, Cognetti D, Luginbuhl A, Ad VB, Pribitkin E, Tuluc M (2014) Tumor microenvironment in head and neck squamous cell carcinoma. Semin Oncol 41:217–234. https://doi.org/10.1053/j.seminoncol.2014.03.003
Dai M, Thompson RC, Maher C, Contreras-Galindo R, Kaplan MH, Markovitz DM, Omenn G, Meng F (2010) NGSQC: cross-platform quality analysis pipeline for deep sequencing data. BMC Genomics 4:S7. https://doi.org/10.1186/1471-2164-11-S4-S7
Deo MG (1991) High frequency mutation in codons 12 and 61 of H-ras oncogene in chewing tobacco-related human oral carcinoma in India. Br J Cancer 63:573–578
Dodt M, Roehr JT, Ahmed R, Dieterich C (2012) FLEXBAR—flexible barcode and adapter processing for next-generation sequencing platforms. Biology 1:895–905. https://doi.org/10.3390/biology1030895
Dudoit S, Gentleman RC, Quackenbush J (2003) Microarray data. BioTechniques 34:S45–S51
Duraiyan J, Govindarajan R, Kaliyappan K, Palanisamy M (2012) Applications of immunohistochemistry. J Pharm Bioallied Sci 4:S307–S309. https://doi.org/10.4103/0975-7406.100281
Egger G, Liang G, Aparicio A, Peter AJ (2004) Epigenetics in human disease and prospects for epigenetic therapy. Nature 429:457–463. https://doi.org/10.1038/nature02625
Feller L, Lemmer J (2012) Oral squamous cell carcinoma: epidemiology, clinical presentation and treatment. J Cancer Ther 3:263–268. https://doi.org/10.4236/jct.2012.34037
Ferlay J, Soerjomataram I, Dikshit R, Eser S, Mathers C, Rebelo M, Parkin DM, Forman D, Bray F (2015) Cancer incidence and mortality worldwide: sources, methods and major patterns in GLOBOCAN 2012. Int J Cancer 136:E359–E386. https://doi.org/10.1002/ijc.29210
Field JK (1992) Oncogenes and tumour-suppressor genes in squamous cell carcinoma of the head and neck. Eur J Cancer B Oral Oncol 28:67–76. https://doi.org/10.1016/0964-1955(92)90016-T
Gadewal NS, Zingde SM (2011) Database and interaction network of genes involved in oral cancer: version II. Bioinformation 6:169–170. https://doi.org/10.6026/97320630006169
Garewal J, Garewal R, Sircar K (2014) Expression of Bcl-2 and MIB-1 markers in oral squamous cell carcinoma (OSCC)- a comparative study. J Clin Diagn Res 8:QC01–QC04. https://doi.org/10.7860/JCDR/2014/6474.4562
Grabherr MG, Haas BJ, Yassour M, Levin JZ, Thompson DA, Amit I, Adiconis X, Fan L, Raychowdhury R, Zeng Q, Chen Z, Mauceli E, Hacohen N, Gnirke A, Rhind N, Palma FD, Birren BW, Nusbaum C, Lindblad-Toh K, Friedman N, Regev A (2011) Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nature Biotechnol 29:644–652. https://doi.org/10.1038/nbt.1883
Griffith M, Griffith OL, Mwenifumbo J, Goya R, Morrissy AS, Morin RD (2010) Alternative expression analysis by RNA sequencing. Nat Methods 7:843–847. https://doi.org/10.1038/nmeth.1503
Gronroos TJ, Lehtio K, Soderstrom KO, Kronqvist P, Laine J, Eskola O, Minn H (2014) Hypoxia, blood flow and metabolism in squamous-cell carcinoma of the head and neck: correlations between multiple immunohistochemical parameters and PET. BMC Cancer 14:876. https://doi.org/10.1186/1471-2407-14-876
Guttman M, Garber M, Levin JZ, Donaghey J, Robinson J, Adiconis X, Regev A (2010) Ab initio reconstruction of transcriptomes of pluripotent and lineage committed cells reveals gene structures of thousands of lincRNAs. Nat Biotechnol 28:503–510. https://doi.org/10.1038/nbt.1633
Hanahan D, Weinberg RA (2000) The hallmarks of cancer. Cell 100:57–70. https://doi.org/10.1016/S0092-8674(00)81683-9
Harshani JM, Yeluri S, Guttikonda VR (2014) Glut-1 as a prognostic biomarker in oral squamous cell carcinoma. J Oral Maxillofac Pathol 18:372–378. https://doi.org/10.4103/0973-029X.151318
Henry NL, Hayes DF (2012) Cancer biomarkers. Mol Oncol 6:140–146. https://doi.org/10.1016/j.molonc.2012.01.010
Hsieh LL, Wang PF, Chen IH, Liao CT, Wang HM, Chen MC, Chang JT, Cheng AJ (2001) Characteristics of mutations in the p53 gene in oral squamous cell carcinoma associated with betel quid chewing and cigarette smoking in Taiwanese G: C to A: T transitions were the predominant mutations still showed an independent effect on G: C to A: Oxford University Press. Carcinogenesis 22:1497–1503. https://doi.org/10.1093/carcin/22.9.1497
Hu S, Jiang J, Wong DT (2010) Proteomic analysis of saliva: 2D gel electrophoresis, LC-MS/MS, and western blotting. Methods Mol Biol 666:31–41. https://doi.org/10.1007/978-1-60761-820-1_3
Hulka BS, Wilcosky T (1988) Biological markers in epidemiologic research. Arch Environ Health 43:83–89. https://doi.org/10.1080/00039896.1988.9935831
Hung PS, Tu HF, Kao SY, Yang CC, Liu CJ, Huang TY, Chang KW, Lin SC (2014) miR-31 is upregulated in oral premalignant epithelium and contributes to the immortalization of normal oral keratinocytes. Carcinogenesis 35:1162–1171. https://doi.org/10.1093/carcin/bgu024
Jaluria P, Konstantopoulos K, Betenbaugh M, Shiloach J (2007) A perspective on microarrays: current applications, pitfalls, and potential uses. Microb Cell Fact 6:4. https://doi.org/10.1186/1475-2859-6-4
Jones JL, Walker RA (1997) Control of matrix metalloproteinase activity in cancer. J Pathol 183:377–379. https://doi.org/10.1002/(SICI)1096-9896(199712)183:4<377::AID-PATH951>3.0.CO;2-R
Kaneko T, Dehari H, Sasaki T, Igarashi T, Ogi K, Okamoto JY, Kawata M, Kobayashi JI, Miyazaki A, Nakamori K, Hiratsuka H (2016) Hypoxia-induced epithelial-mesenchymal transition is regulated by phosphorylation of GSK3-β via PI3 K/Akt signaling in oral squamous cell carcinoma. Oral Surg Oral Med Oral Pathol Oral Radiol 122:719–730. https://doi.org/10.1016/j.oooo.2016.06.008
Khan M, Mishu M, Imam S (2012) Current molecular concept of oral carcinogenesis and invasion. Med Today 22:38–42. https://doi.org/10.3329/medtoday.v22i1.5605
Kihara D, Yang YD, Hawkins T (2006) Bioinformatics resources for cancer research with an emphasis on gene function and structure prediction tools. Cancer Inform 2:25–35
Krishna A, Singh S, Kumar V, Pal US (2015) Molecular concept in human oral cancer. Natl J Maxillofac Surg 6:9–15. https://doi.org/10.4103/0975-5950.168235
Kurokawa H, Zhang M, Matsumoto S, Yamashita Y, Tanaka T, Tomoyose T, Takano H, Funaki K, Fukuyama H, Takahashi T, Sakoda S (2005) The relationship of the histologic grade at the deep invasive front and the expression of Ki-67 antigen and p53 protein in oral squamous cell carcinoma. J Oral Pathol Med 34:602–607. https://doi.org/10.1111/j.1600-0714.2005.00358.x
Langmead B, Trapnell C, Pop M, Salzberg SL (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10:R25. https://doi.org/10.1186/gb-2009-10-3-r25
Lee SS, Tsai CH, Tsai LL, Chou MC, Chou MY, Chang YC (2012a) Β-catenin expression in areca quid chewing-associated oral squamous cell carcinomas and upregulated by Arecoline in human oral epithelial cells. J Formos Med Assoc 111:194–200. https://doi.org/10.1016/j.jfma.2010.11.002
Lee CK, Chi TT, Wu CT, Tsai MT, Chiang CP, Yang CC (2012b) Diagnosis of oral precancer with optical coherence tomography. Biomed Opt Express 3:1632–1646. https://doi.org/10.1364/BOE.3.001632
Levine AE, Steffen DL (2001) OrCGDB: a database of genes involved in oral cancer. Nucleic Acids Res 29:300–302. https://doi.org/10.1093/nar/29.1.300
Levine AJ, Finlay CA, Hinds PW (2004) P53 is a tumor suppressor gene. Cell 116:S67–S70. https://doi.org/10.1016/S0092-8674(04)00036-4
Li J, Tibshirani R (2013) Finding consistent patterns: a nonparametric approach for identifying differential expression in RNA-Seq data. Stat Methods Med Res 22:519–536. https://doi.org/10.1177/0962280211428386
Li Y, St John MA, Zhou X, Kim Y, Sinha U, Jordan RC, Eisele D, Abemayor E, Elashoff D, Park NH, Wong DT (2004) Salivary transcriptome diagnostics for oral cancer detection salivary transcriptome diagnostics for oral cancer detection. Clin Cancer Res 10:8442–8450. doi:10/24/8442[pii]\r10.1158/1078-0432.CCR-04-1167
Lichter P, Cremer T, BordenJ ML, Ward DC (1988) Delineation of individual human chromosomes in metaphase and interphase cells by in situ suppression hybridization using recombinant DNA libraries. Hum Genet 80:224–234. https://doi.org/10.1007/BF01790090
Lin PC, Chang WH, Chen YH, Lee CC, Lin YH, Chang JG (2011) Cytotoxic effects produced by arecoline correlated to epigenetic regulation in human K-562 cells. J Toxicol Environ Health A 74:737–745. https://doi.org/10.1080/15287394.2011.539123
Luscombe NM, Greenbaum D, Gerstein M (2001) What is bioinformatics? An introduction and overview. Yearb Med Inform:83–99. https://doi.org/10.1053/j.ro.2009.03.010
Macey R, Walsh T, Brocklehurst P, Kerr AR, Liu JL, Lingen MW, Ogden GR, Warnakulasuriya S, Scully C (2015) Diagnostic tests for oral cancer and potentially malignant disorders in patients presenting with clinically evident lesions. Cochrane Database Syst Rev 29:CD010276. https://doi.org/10.1002/14651858.CD010276
Macgregor PF, Squire JA (2002) Application of microarrays to the analysis of gene expression in cancer. Clin Chem 48:1170–1177
Manning FCR, Patierno SR (1996) Apoptosis: inhibitors or instigators of carcinogenesis. Cancer Invest 14:455–465. https://doi.org/10.3109/07357909609018903
Markopoulos AK (2012) Current aspects on oral squamous cell carcinoma. Open Dent J 6:126–130. https://doi.org/10.2174/1874210601206010126
Massano J, Regateiro FS, Januario G, Ferreira A (2006) Oral squamous cell carcinoma: review of prognostic and predictive factors. Oral Surg Oral Med Oral Pathol Oral Radiol Endod 102:67–76. https://doi.org/10.1016/j.tripleo.2005.07.038
Masthan KMK, Aravindha Babu N, Dash KC, Elumalai M (2012) Advanced diagnostic aids in oral cancer. Asian Pac J Cancer Prev 13:3573–3576. https://doi.org/10.7314/APJCP.2012.13.8.3573
Mayeux R (2004) Biomarkers: potential uses and limitations. NeuroRx 1:182–188. https://doi.org/10.1602/neurorx.1.2.182
Mehta JP, Rani S (2011) Software and tools for microarray data analysis. Methods Mol Biol 784:41–53. https://doi.org/10.1007/978-1-61779-289-2_4
Mehta R, Gurudath S, Dayansoor S, Pai A, Ganapathy KS (2014) Serum lipid profile in patients with oral cancer and oral precancerous conditions. Dent Res J 11:345–350. https://doi.org/10.4103/1735-3327.135889
Meldrum C, Doyle M, Tothill RW (2011) Next-generation sequencing for cancer diagnostics: a practical perspective. Clin Biochem Rev 32:177–195. https://doi.org/10.1016/j.jmoldx.2016.08.002
Mendes RA (2012) Oncogenic pathways in the development of oral cancer. J Carcinog Mutagen 3:2–3. https://doi.org/10.4172/2157-2518.1000133
Menendez JA, Lupu R (2007) Fatty acid synthase and the lipogenic phenotype in cancer pathogenesis. Nat Rev Cancer 7:763–777. https://doi.org/10.1038/nrc2222
Miyamoto R, Uzawa N, Nagaoka S, Hirata Y, Amagasa T (2003) Prognostic significance of cyclin D1 amplification and overexpression in oral squamous cell carcinomas. Oral Oncol 39:610–618. https://doi.org/10.1016/S1368-8375(03)00048-4
Nagaraj NS, Vigneswaran N, Zacharias W (2004) Hypoxia-mediated apoptosis in oral carcinoma cells occurs via two independent pathways. Mol Cancer 3:38. https://doi.org/10.1186/1476-4598-3-38
Ozsolak F, Milos PM (2011) RNA sequencing: advances, challenges and opportunities. Nat Rev Genet 12(2):87–98. https://doi.org/10.1038/nrg2934
Pande P, Mathur M, Shukla NK, Ralhan R (1998) pRB and p16 protein alterations in human oral tumorigenesis. Oral Oncol 34:396–403. https://doi.org/10.1016/S1368-8375(98)00024-4
Panta P, Venna VR (2014) Salivary RNA signatures in oral cancer detection. Anal Cell Pathol 2014:450629. https://doi.org/10.1155/2014/450629
Patil S, Rao RS, Amrutha N, Agarwal A, Sanketh DS (2013) Cancer stem cells: a revolution in cancer research. J Dent Orofac Res 9:16–20
Petti S (2009) Lifestyle risk factors for oral cancer. Oral Oncol 45:340–350. https://doi.org/10.1016/j.oraloncology.2008.05.018
Polz-Gruszka D, Morshed K, Stec A, Polz-Dacewicz M (2015) Prevalence of human papillomavirus (HPV) and Epstein-Barr virus (EBV) in oral and oropharyngeal squamous cell carcinoma in south-eastern Poland. Infect Agent Cancer 10:37. https://doi.org/10.1186/s13027-015-0031-z
Prokopczyk B, Rivenson A, Hoffmann D (1991) A study of betel quid carcinogenesis. IX. Comparative carcinogenicity of 3-(methylnitrosamino)propionitrile and 4-(methylnitrosamino)-1-(3-pyridyl)-1-butanone upon local application to mouse skin and rat oral mucosa. Cancer Lett 60:153–157. https://doi.org/10.1016/0304-3835(91)90222-4
Ramires M, David L, Leitao D, Seixas M, Sansonetty F, Sobrinho-Simoes M (1997) Ki67 labelling index in gastric carcinomas. An immunohistochemical study using double staining for the evaluation of the proliferative activity of diffuse-type carcinomas. J Pathol 182:62–67. https://doi.org/10.1002/(SICI)1096-9896(199705)182:1<62::AID-PATH849>3.0.CO;2-2
Rashid A, Warnakulasuriya S (2015) The use of light-based (optical) detection systems as adjuncts in the detection of oral cancer and oral potentially malignant disorders: a systematic review. J Oral Pathol Med 44:307–328. https://doi.org/10.1111/jop.12218
Riedmaier I, Pfaffl MW, Meyer HH (2012) The physiological way: monitoring RNA expression changes as new approach to combat illegal growth promoter application. Drug Test Anal 1:70–74. https://doi.org/10.1002/dta.1386
Robertson G, Schein J, Chiu R, Corbett R, Field M, Jackman SD (2010) De novo assembly and analysis of RNA-seq data. Nat Methods 7:909–912. https://doi.org/10.1038/nmeth.1517
Robinson MD, McCarthy DJ, Smyth GK (2010) edgeR: a bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics 26:139–140. https://doi.org/10.1093/bioinformatics/btp616
Rowley H, Sherrington P, Helliwell TR, Kinsella A, Jones AS (1998) P53 expression and P53 gene mutation in oral cancer and dysplasia. Otolaryngol Head Neck Surg 118:115–123. doi.org/S0194-5998(98)70387-0 [pii]
Saranath D, Chang SE, Bhoite LT, Panchal RG, Kerr IB, Mehta AR, Johnson NW, Deo MG (1991) High frequency mutation in codons 12 and 61 of H-ras oncogene in chewing tobacco-related human oral carcinoma in India. Br J Cancer 63:573–578
Scully C (2011) Oral cancer aetiopathogenesis; past, present and future aspects. Med Oral Patol Oral Cir Bucal 16:306–311. https://doi.org/10.4317/medoral.16.e306
Scully C, Field JK, Tanzawa H (2000) Genetic aberrations in oral or head and neck squamous cell carcinoma 2: chromosomal aberrations. Oral Oncol 36:311–327. https://doi.org/10.1016/S1368-8375(00)00021-X
Seitz HK, Stickel F (2010) Acetaldehyde as an underestimated risk factor for cancer development: role of genetics in ethanol metabolism. Genes Nutr 5:121–128. https://doi.org/10.1007/s12263-009-0154-1
Sen S (1992) Programmed cell death: concept, mechanism and control. Biol Rev Camb Philos Soc 67:287–319. https://doi.org/10.1111/j.1469-185X.1992.tb00727.x
Shah S, Kaur M (2014) Biomarkers and chemopreventives in oral carcinogenesis and its prevention. JOMFP 18:69–76. https://doi.org/10.4103/0973-029X.131914
Shah FD, Begum R, Vajaria BN, Patel KR, Patel JB, Shukla SN, Patel PS (2011) A review on salivary genomics and proteomics biomarkers in oral cancer. Indian J Clin Biochem 26:326–334. https://doi.org/10.1007/s12291-011-0149-8
Shah S, Pathak P, Gulati N (2015) Cell signaling pathways in oral cancer: a review. JOADMS 1:69–74
Shin D, Vigneswaran N, Gillenwater A, Kortum RR (2010) Advances in fluorescence imaging techniques to detect oral cancer and its precursors. Future Oncol 6:1143–1154. https://doi.org/10.2217/fon.10.79.Advances
Shpitzer T, Hamzany Y, Bahar G, Feinmesser R, Savulescu D, Borovoi I, Gavish M, Nagler RM (2009) Salivary analysis of oral cancer biomarkers. Br J Cancer 101:1194–1198. https://doi.org/10.1038/sj.bjc.6605290
Sigurdsson K (2013) Is a liquid-based cytology more sensitive than a conventional pap smear? Cytopathology 24:254–263. https://doi.org/10.1111/cyt.12037
Singh R, Srivastava P, Srivastava A, Mittal RD (2010) Matrix metalloproteinase (MMP-9 and MMP-2) gene polymorphisms influence allograft survival in renal transplant recipients. Nephrol Dial Transplant 25:3393–3401. https://doi.org/10.1093/ndt/gfq174
Slaughter DL, Southwick HW, Smejkal W (1953) Field cancerization in oral stratified squamous epithelium: clinical implication of multicentric origins. Cancer 6:963–968
St John MA, Li Y, Zhou X, Denny P, Ho CM, Montemagno C, Shi W, Qi F, Wu B, Sinha U, Jordan R, Wolinsky L, Park NH, Liu H, Abemayor E, Wong DT (2004) Interleukin 6 and interleukin 8 as potential biomarkers for oral cavity and oropharyngeal squamous cell carcinoma. Arch Otolaryngol Head Neck Surg 130:929–935. https://doi.org/10.1001/archotol.130.8.929
Stankiewicz E, Kudahetti SC, Prowse DM, Ktori E, Cuzick J, Ambroisine L, Zhang X, Watkin N, Corbishley C, Berney DM (2009) HPV infection and immunochemical detection of cell-cycle markers in verrucous carcinoma of the penis. Mod Pathol 22:1160–1168. https://doi.org/10.1038/modpathol.2009.77
Sushma PS, Jamil K, Uday Kumar P, Satyanarayana U, Ramakrishna M, Triveni B (2016) PTEN and p16 genes as epigenetic biomarkers in oral squamous cell carcinoma (OSCC): a study on south Indian population. Tumor Biol 37:7625. https://doi.org/10.1007/s13277-015-4648-8
Syam sundar B, Nageswara RR, Faheem K (2012) Epidemiological and clinicopathological study of oral cancers in a tertiary care hospital. Int J Biol Med Res 3:2376–2380
Teni T, Pawar S, Sanghvi V, Saranath D (2002) Expression of bcl-2 and bax in chewing tobacco-induced oral cancers and oral lesions from India. Pathol Oncol Res 8:109–114. doi.org/PAOR.2002.8.2.0109
Thiery JP (2002) Epithelial-mesenchymal transitions in tumour progression. Nat Rev Cancer 2:442–454. https://doi.org/10.1038/nrc822
Thomas GJ, Speight PM (2001) Cell adhesion molecules and oral cancer. Crit Rev Oral Biol Med 12:479–498
Tiwari A, Shivananda S, Gopinath KS, Kumar A (2014) MicroRNA-125a reduces proliferation and invasion of oral squamous cell carcinoma cells by targeting estrogen-related receptor α: implications for cancer therapeutics. J Biol Chem 289:32276–32290. https://doi.org/10.1074/jbc.M114.584136
Trapnell C, Pachter L, Salzberg SL (2009) TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25:1105–1111. https://doi.org/10.1093/bioinformatics/btp120
Tumuluri V, Thomas GA, Fraser IS (2002) Analysis of the Ki-67 antigen at the invasive tumour front of human oral squamous cell carcinoma. J Oral Pathol Med 31:598–604. https://doi.org/10.1034/j.1600-0714.2002.00042.x
Wang K, Singh D, Zeng Z, Coleman SJ, Huang Y, Savich GL, He X, Mieczkowski P, Grimm SA, Perou CM, MacLeod JN (2010) MapSplice: accurate mapping of RNA-seq reads for splice junction discovery. Nucleic Acids Res 38:e178. https://doi.org/10.1093/nar/gkq622
Waris G, Ahsan H (2006) Reactive oxygen species: role in the development of cancer and various chronic conditions. J Carcinog 5:14. https://doi.org/10.1186/1477-3163-5-14
Wei L, Xiaohe Z, Kunping L, Sida Z, Yixiang D (2013) Laser-induced fluorescence: progress and prospective for in vivo cancer diagnosis. Chin Sci Bull 8:2003–2016. https://doi.org/10.1007/s11434-013-5826-y
Wilson GD, Saunders M, Dische S, Richman P, Daley F, Bentzen SM (2001) Bcl-2 expression in head and neck cancer: an enigmatic prognostic marker. Int J Radiat Oncol Biol Phys 49:435–441. https://doi.org/10.1016/S0360-3016(00)01498-X
Wong D, Todd R (1996) Molecular biology of human oral cancer. Crit Rev Oral Biol Med 7:319–328. https://doi.org/10.1007/978-1-4020-3186-1
Wu D, Rice CM, Wang X (2012) Cancer bioinformatics: a new approach to systems clinical medicine. BMC Bioinformatics 13:71. https://doi.org/10.1186/1471-2105-13-71
Xia X, McClelland M, Wang Y (2005) WebArray: an online platform for microarray data analysis. BMC Bioinformatics 6:306. https://doi.org/10.1186/1471-2105-6-306
Xue J, Yang S, Seng S (2014) Mechanisms of cancer induction by tobacco-specific NNK and NNN. Cancers 6:1138–1156. https://doi.org/10.3390/cancers6021138
Yamamoto N, Onda T, Sugahara K, Nomura T, Shibahara T (2015) Molecular biological change in oral cancer, summary of our researches. Jpn Dent Sci Rev 51:25–33. https://doi.org/10.1016/j.jdsr.2014.09.003
Yang X, Liu D, Liu F, Wu J, Zou J, Xiao X, Zou F, Zhu B (2013) HTQC: a fast quality control toolkit for Illumina sequencing data. BMC Bioinformatics 14:33. https://doi.org/10.1186/1471-2105-14-33
Yong-Deok K, Eun-Hyoung J, Yeon-Sun K, Kang-Mi P, Jin-Yong L, Sung-Hwan C, Tae-Yun K, Tae-Sung P, Soung-Min K, Myung-Jin K, Jong-Ho L (2015) Molecular genetic study of novel biomarkers for early diagnosis of oral squamous cell carcinoma. Med Oral Patol Oral Cir Bucal 20:e167–e179. https://doi.org/10.4317/medoral.20229
Zedan W, Mourad MI, El-Aziz SMA, Salamaa NM, Shalaby A (2015) Cytogenetic significance of chromosome 17 aberrations and P53 gene mutations as prognostic markers in oral squamous cell carcinoma. Diagn Pathol 10:2. https://doi.org/10.1186/s13000-015-0232-1
Zhou J, Tao D, Xu Q, Gao Z, Tang D (2015) Expression of E-cadherin and vimentin in oral squamous cell carcinoma. Int J Clin Exp Pathol 8:3150–3154
Zou D, Ma L, Yu J, Zhang Z (2015) Biological databases for human research. Genomics Proteomics Bioinformatics 13:55–63. https://doi.org/10.1016/j.gpb.2015.01.006
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Prasad, K., Rao, R.S., Mane, R.C. (2018). Genomics for Oral Cancer Biomarker Research. In: Purohit, H., Kalia, V., More, R. (eds) Soft Computing for Biological Systems. Springer, Singapore. https://doi.org/10.1007/978-981-10-7455-4_12
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