Evaluation of changes caused by HR-HPV infection in squamous cell carcinoma of the head and neck using Raman microspectroscopy in combination with multivariate statistical analysis
References
- Ferlay J, Shin H R, Bray F, Forman D, Mathers C, Parkin D M. Estimates of worldwide burden of cancer in 2008: GLOBOCAN 2008. Int J Cancer. 2010;127(12):2893-2917. https://doi.org/10.1002/ijc.25516
- Decker J, Goldstein JC. Risk factors in head and neck cancer. N Engl J Med. 1982;306:1151-1155. https://doi.org/10.1056/NEJM198205133061905
- Licitra L, Locati LD, Bossi P. Head and neck cancer. Ann Oncol. 2004;15(Suppl4):iv267-273. https://doi.org/10.1093/annonc/mdh937
- Ang KK, Harris J, Wheeler R, et al. Human papillomavirus and survival of patients with oropharyngeal cancer. N Engl J Med. 2010;363:24-35. https://doi.org/10.1056/NEJMoa0912217
- Ragin CC, Taioli E. Survival of squamous cell carcinoma of the head and neck in relation to human papillomavirus infection: review and meta-analysis. Int J Cancer. 2007;121:1813-1820. https://doi.org/10.1002/ijc.22851
- Fakhry C, Westra WH, Li S, et al. Improved survival of patients with human papillomavirus-positive head and neck squamous cell carcinoma in a prospective clinical trial. J Natl Cancer Inst. 2008;100:261-269. https://doi.org/10.1093/jnci/djn011
- Vidal L, Gillison LV. Human papillomavirus in HNSCC: recognition of a distinct disease type. Hematol Oncol Clin N Am. 2008;22:1125-1142. https://doi.org/10.1016/j.hoc.2008.08.006
- Snietura M, Piglowski W., Jaworska M, Mucha-Malecka A, Wozniak G, Lange D, Suwinski R. Impact of HPV infection on the clinical outcome of p-CAIR trial in head and neck cancer. Eur Arch Otorhinolaryngol. 2011;268:721-726. https://doi.org/10.1007/s00405-010-1396-7
- Kujdowicz M, Januś D, Taczanowska-Niemczuk A, Lankosz MW, Adamek D. Raman Spectroscopy as a Potential Adjunct of Thyroid Nodule Evaluation: A Systematic Review. Int J Mol Sci. 2023;24(20):15131. https://doi.org/10.3390/ijms242015131
- Kujdowicz M, Placha W, Mech B, Chrabaszcz K, Okoń K, Malek K. In Vitro Spectroscopy-Based Profiling of Urothelial Carcinoma: A Fourier Transform Infrared and Raman Imaging Study. Cancers (Basel). 2021;13(1):123. https://doi.org/10.3390/cancers13010123
- Neto V, Esteves-Ferreira S, Inácio I, et al. Metabolic Profile Characterization of Different Thyroid Nodules Using FTIR Spectroscopy: A Review. Metabolites. 2022;12(1):53. https://doi.org/10.3390/metabo12010053
- Wahadoszamen M, Rahaman A, Hoque NM, I Talukder A, Abedin KM, Haider AF. Laser raman spectroscopy with different excitation sources and extension to surface enhanced raman spectroscopy. J Spectrosc. 2015;2015:1-8. https://doi.org/10.1155/2015/895317
- Śnietura M, Brewczynski A, Waniczek D, Kopec A, Stanek-Widera A, Muc-Wierzgoń M, Rutkowski T. Is p16 expression still a surrogate marker for human papillomavirus infection in oral squamous cell carcinomas? J Biol RegulHomeost Agents. 2020;34(3):1153-1156. https://doi.org/10.23812/19-423-L-58
- Smeets SJ, Hesselink AT, Speel E-JM, et al. A novel algorithm for reliable detection of human papillomavirus in paraffin embedded head and neck cancer specimen. Int J Cancer. 2007;121(11):2465-2472. https://doi.org/10.1002/ijc.22980
- Huang S, Erickson B, Tang N, et al. Clinical performance of Abbott RealTime High Risk HPV test for detection of high-grade cervical intraepithelial neoplasia in women with abnormal cytology. J Clin Virol. 2009;45(Suppl 1):S19-23. https://doi.org/10.1016/S1386-6532(09)70004-6
- Huang S, Tang N, Mak W-B, et al. Principles and analytical performance of Abbott RealTime High Risk HPV test. J Clin Virol. 2009;45(Suppl 1):S13-17. https://doi.org/10.1016/S1386-6532(09)70003-4
- Snietura M, Piglowski W, Jaworska M, et al. Impact of HPV infection on the clinical outcome of p-CAIR trial in head and neck cancer. Eur Arch Otorhinolaryngol. 2011;268(5):721-726. https://doi.org/10.1007/s00405-010-1396-7
- Kocjan BJ, Maver PJ, Hosnjak L, et al. Comparative evaluation of the Abbott RealTime High Risk HPV test and INNO-LiPA HPV Genotyping Extra test for detecting and identifying human papillomaviruses in archival tissue specimens of head and neck cancers. Acta Dermatovenerol Alp PannonicaAdriat. 2012;21(4):73-75.
- R Core Team. R: A language and environment for statistical computing. R 2.5.2 Foundation for Statistical Computing, Vienna, Austria. 2016; URL https://www.R-project.org/.
- Beleites C, Sergo V.: hyperSpec: a package to handle hyperspectral data sets in R, R package version 0.98-20161118.
- HovdeLiland, Helge Mevik B. Baseline: Baseline Correction of Spectra, 2015; URL https://CRAN.R-project.org/package=baseline. R package version 1.2-1.
- Benjamini Y, Hochberg Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. Journal of the Royal Statistical Society Series B. 1995;57:289-300. https://doi.org/10.1111/j.2517-6161.1995.tb02031.x
- Mardia KV, Kent JT, Bibby JM. Multivariate Analysis, London: Academic Press.1979.
- Murtagh F, Legendre P. Ward’s hierarchical agglomerative clustering method: which algorithms implement Ward’s criterion? Journal of Classification. 2014;31:274-295. https://doi.org/10.1007/s00357-014-9161-z
- Perez-Enciso M, Tenenhaus M. Prediction of clinical outcome with microarray data: a partial least squares discriminant analysis (PLSDA) approach. Human Genetics. 2003;112:581-592. https://doi.org/10.1007/s00439-003-0921-9
- Smith EM, Wang D, Kim Y, et al. p16INK4a Expression, human papillomavirus, and survival in head and neck cancer. Oral Oncology. 2008;44(2):133-142. https://doi.org/10.1016/j.oraloncology.2007.01.010
- AW Auner, JC Thomas, Double-Stranded DNA Damage Assessed with Raman Spectroscopy. Biochemistry & Analytical Biochemistry. 2016;5(3). https://doi.org/10.4172/2161-1009.1000284
- Lipiec E, Bambery KR, Heraud P, et al. Monitoring UVR induced damage in single cells and isolated nuclei using SR-FTIR microspectroscopy and 3D confocal Raman imaging. Analyst. 2014;139(17):4200-4209. https://doi.org/10.1039/C4AN00838C
- Sánchez V, Redmann K, Wistuba J, et al. Oxidative DNA damage in human sperm can be detected by Raman microspectroscopy. FertilSteril. 2012;98(5):1124-1129.e1-3. https://doi.org/10.1016/j.fertnstert.2012.07.1059
- Kelly JG, Najand GM, Martin FL. Characterisation of DNA methylation status using spectroscopy (mid-IR versus Raman) with multivariate analysis. J Biophotonics. 2011;4(5):345-354. https://doi.org/10.1002/jbio.201000085
- Krafft C. Bioanalytical applications of Raman spectroscopy. Anal Bioanal Chem. 2004;378(1):60-62. https://doi.org/10.1007/s00216-003-2266-6
- Nijssen A, Koljenović S, Bakker Schut TC, Caspers PJ, Puppels GJ. Towards oncological application of Raman spectroscopy. J Biophotonics. 2009;2(1-2):29-36. https://doi.org/10.1002/jbio.200810055
- Kendall C, Isabelle M, Bazant-Hegemark F, et al. Vibrational spectroscopy: a clinical tool for cancer diagnostics. Analyst. 2009;134(6):1029-1045. https://doi.org/10.1039/b822130h
- Kondepati VR, Heise HM, Backhaus J. Recent applications of near-infrared spectroscopy in cancer diagnosis and therapy. Anal Bioanal Chem. 2008;390(1):125-139. https://doi.org/10.1007/s00216-007-1651-y
- Ramos IRM, Malkin A, Lyng FM. Current Advances in the Application of Raman Spectroscopy for Molecular Diagnosis of Cervical Cancer. Biomed Res Int. 2015;2015:561242. https://doi.org/10.1155/2015/561242
- Hewitt SM, Lewis FA, Cao Y, et al. Tissue Handling and Specimen Preparation in Surgical Pathology: Issues Concerning the Recovery of Nucleic Acids From Formalin-Fixed, Paraffin-Embedded Tissue. Archives of Pathology & Laboratory Medicine. 2008;132(12):1929-1935. https://doi.org/10.5858/132.12.1929
- Howat WJ, Wilson BA. Tissue fixation and the effect of molecular fixatives on downstream staining procedures. Methods. 2014;70(1):12-19. https://doi.org/10.1016/j.ymeth.2014.01.022
- Shrivastava A, Aggarwal LM, Murali Krishna C, et al. Diagnostic and prognostic application of Raman spectroscopy in carcinoma cervix: A biomolecular approach. Spectrochimica Acta Part A: Molecular and Biomolecular Spectroscopy. 2021;250:119356. https://doi.org/10.1016/j.saa.2020.119356
- Man Y, Moinfar F, Bratthauer GL, Kuhls EA, Tavassoli FA. An Improved Method for DNA Extraction from Paraffin Sections. Pathology - Research and Practice. 2001;197(9):635-642. https://doi.org/10.1078/0344-0338-00138
- Krishna CM, Sockalingum GD, Vadhiraja BM, et al. Vibrational spectroscopy studies of formalin-fixed cervix tissues. Biopolymers. 2007;85(3):214-221. https://doi.org/10.1002/bip.20631
- Lyng FM, Traynor D, Ramos IRM, Bonnier F, Byrne HJ. Raman spectroscopy for screening and diagnosis of cervical cancer. Anal Bioanal Chem. 2015;407(27):8279-8289. https://doi.org/10.1007/s00216-015-8946-1
- Yazdi Y, Ramanujam N, Lotan R, Mitchell MF, Hittelman W, Richards-Kortum R. Resonance Raman Spectroscopy at 257 nm Excitation of Normal and Malignant Cultured Breast and Cervical Cells. Appl Spectrosc, AS. 1999;53(1):82-85. https://doi.org/10.1366/0003702991945254
- Ostrowska KM, Malkin A, Meade A, et al. Investigation of the influence of high-risk human papillomavirus on the biochemical composition of cervical cancer cells using vibrational spectroscopy. Analyst. 2010;135(12):3087-3093. https://doi.org/10.1039/c0an00571a
- Snietura M, Lamch R, Kopec A, Waniczek D, Likus W, Lange D, Markowski J Oral and oropharyngeal papillomas are not associated with high-risk human papillomavirus infection. Eur Arch Otorhinolaryngol. 2017 Sep;274(9):3477-3483. https://doi.org/10.1007/s00405-017-4649-x
- Schäfer A, Lengenfelder D, Grillhösl C, Wieser C, Fleckenstein B, Ensser A. The latency-associated nuclear antigen homolog of herpesvirus saimiri inhibits lytic virus replication. J Virol. 2003;77(10):5911-5925. https://doi.org/10.1128/JVI.77.10.5911-5925.2003
- Vargis E, Tang Y-W, Khabele D, Mahadevan-Jansen A. Near-infrared Raman Microspectroscopy Detects High-risk Human Papillomaviruses. Transl Oncol. 2012;5(3):172-179. https://doi.org/10.1593/tlo.12106
- Ringelhan M, Heikenwalder M, Protzer U. Direct effects of hepatitis B virus-encoded proteins and chronic infection in liver cancer development. Dig Dis. 2013;31(1):138-151. https://doi.org/10.1159/000347209
- Moor K, Ohtani K, Myrzakozha D, Zhanserkenova O, Andriana BB, Sato H. Noninvasive and label-free determination of virus infected cells by Raman spectroscopy. J Biomed Opt. 2014;19(6):067003. https://doi.org/10.1117/1.JBO.19.6.067003
- Salman A, Shufan E, Zeiri L, Huleihel M. Characterization and detection of Vero cells infected with Herpes Simplex Virus type 1 using Raman spectroscopy and advanced statistical methods. Methods. 2014;68(2):364-370. https://doi.org/10.1016/j.ymeth.2014.02.022
- Ruokola P, Dadu E, Kazmertsuk A, Häkkänen H, Marjomäki V, Ihalainen JA. Raman Spectroscopic Signatures of Echovirus 1 Uncoating. J Virol. 2014;88(15):8504-8513. https://doi.org/10.1128/JVI.03398-13
- Hermann P, Hermelink A, Lausch V, et al. Evaluation of tip-enhanced Raman spectroscopy for characterizing different virus strains. Analyst. 2011;136(6):1148-1152. https://doi.org/10.1039/c0an00531b
Language: English
Page range: 69 - 78
Submitted on: Aug 24, 2023
Accepted on: Apr 21, 2024
Published on: May 25, 2024
Published by: Polish Society of Medical Physics
In partnership with: Paradigm Publishing Services
Publication frequency: 4 issues per year
Keywords:
Related subjects:
© 2024 Agnieszka Szurko, Dorota Zygadło, Sebastian Student, Mirosław Śnietura, Zbigniew Lorenc, Agnieszka Kiełboń, Dariusz Waniczek, published by Polish Society of Medical Physics
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License.