A comprehensive prognostic score for head and neck squamous cancer driver genes and phenotype traits

Kratzer TB, Jemal A, Miller KD, Nash S, Wiggins C, Redwood D, et al. Cancer statistics for American Indian and Alaska native individuals, 2022: including increasing disparities in early onset colorectal cancer. CA Cancer J Clin. 2023;73(2):120–46.

Article  PubMed  Google Scholar 

Siegel RL, Miller KD, Fuchs HE, Jemal A. Cancer statistics, 2022. CA Cancer J Clin. 2022;72(1):7–33.

Article  PubMed  Google Scholar 

Mourad M, Jetmore T, Jategaonkar AA, Moubayed S, Moshier E, Urken ML. Epidemiological trends of head and neck cancer in the United States: a SEER population study. J Oral Maxillofac Surg. 2017;75(12):2562–72.

Article  PubMed  PubMed Central  Google Scholar 

Fitzmaurice C, Allen C, Barber RM, Barregard L, Bhutta ZA, Brenner H, et al. Global, regional, and national cancer incidence, mortality, years of life lost, years lived with disability, and disability-adjusted life-years for 32 cancer groups, 1990 to 2015: a systematic analysis for the global burden of disease study. JAMA Oncol. 2017;3(4):524–48.

Article  PubMed  Google Scholar 

Gillison ML, Chaturvedi AK, Anderson WF, Fakhry C. Epidemiology of human papillomavirus-positive head and neck squamous cell carcinoma. J Clin Oncol. 2015;33(29):3235–42.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Jin S, Li M, Chang H, Wang R, Zhang Z, Zhang J, et al. The m6A demethylase ALKBH5 promotes tumor progression by inhibiting RIG-I expression and interferon alpha production through the IKKε/TBK1/IRF3 pathway in head and neck squamous cell carcinoma. Mol Cancer. 2022;21(1):97.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Li S, Wu Q, Liu J, Zhong Y. Identification of Two m6A readers YTHDF1 and IGF2BP2 as immune biomarkers in head and neck squamous cell carcinoma. Front Genet. 2022;13: 903634.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Li Y, Zheng JN, Wang EH, Gong CJ, Lan KF, Ding X. The m6A reader protein YTHDC2 is a potential biomarker and associated with immune infiltration in head and neck squamous cell carcinoma. PeerJ. 2020;8: e10385.

Article  PubMed  PubMed Central  Google Scholar 

Leemans CR, Snijders PJF, Brakenhoff RH. The molecular landscape of head and neck cancer. Nat Rev Cancer. 2018;18(5):269–82.

Article  CAS  PubMed  Google Scholar 

Van den Bossche V, Zaryouh H, Vara-Messler M, Vignau J, Machiels JP, Wouters A, et al. Microenvironment-driven intratumoral heterogeneity in head and neck cancers: clinical challenges and opportunities for precision medicine. Drug Resist Updat. 2022;60: 100806.

Article  PubMed  Google Scholar 

Weber P, Künstner A, Hess J, Unger K, Marschner S, Idel C, et al. Therapy-related transcriptional subtypes in matched primary and recurrent head and neck cancer. Clin Cancer Res. 2022;28(5):1038–52.

Article  CAS  PubMed  Google Scholar 

Tahara M, Kiyota N, Yokota T, Hasegawa Y, Muro K, Takahashi S, et al. Phase II trial of combination treatment with paclitaxel, carboplatin and cetuximab (PCE) as first-line treatment in patients with recurrent and/or metastatic squamous cell carcinoma of the head and neck (CSPOR-HN02). Ann Oncol. 2018;29(4):1004–9.

Article  CAS  PubMed  Google Scholar 

Rodon J, Soria JC, Berger R, Miller WH, Rubin E, Kugel A, Tsimberidou A, Saintigny P, Ackerstein A, Braña I, Loriot Y. Genomic and transcriptomic profiling expands precision cancer medicine: the WINTHER trial. Nature Med. 2019;25(5):751–8.

Article  CAS  PubMed  Google Scholar 

Hlevnjak M, Schulze M, Elgaafary S, Fremd C, Michel L, Beck K, Pfütze K, Richter D, Wolf S, Horak P, Kreutzfeldt S. CATCH: a prospective precision oncology trial in metastatic breast cancer. JCO Precis Oncol. 2021;5:676–86.

Article  Google Scholar 

Necchi A, Bajorin DF, Tomita Y, Ye D, Agerbæk M, Enting D, Peer A, Milowsky M, Kobayashi K, Grimm MO, Stenner-Liewen F. 1737MO tumor and immune features associated with disease-free survival with adjuvant nivolumab in the phase III CheckMate 274 trial. Annals of Oncol. 2022;1(33):S1331.

Article  Google Scholar 

Supplitt S, Karpinski P, Sasiadek M, Laczmanska I. Current achievements and applications of transcriptomics in personalized cancer medicine. Int J Mol Sci. 2021;22:1422.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Hedberg ML, Goh G, Chiosea SI, Bauman JE, Freilino ML, Zeng Y, et al. Genetic landscape of metastatic and recurrent head and neck squamous cell carcinoma. J Clin Invest. 2016;126(1):169–80.

Article  PubMed  Google Scholar 

Schinke H, Shi E, Lin Z, Quadt T, Kranz G, Zhou J, et al. A transcriptomic map of EGFR-induced epithelial-to-mesenchymal transition identifies prognostic and therapeutic targets for head and neck cancer. Mol Cancer. 2022;21(1):178.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Schinke H, Pan M, Akyol M, Zhou J, Shi E, Kranz G, et al. SLUG-related partial epithelial-to-mesenchymal transition is a transcriptomic prognosticator of head and neck cancer survival. Mol Oncol. 2022;16(2):347–67.

Article  CAS  PubMed  Google Scholar 

Chen Y, Li ZY, Zhou GQ, Sun Y. An Immune-related gene prognostic index for head and neck squamous cell carcinoma. Clin Cancer Res. 2021;27(1):330–41.

Article  PubMed  Google Scholar 

Zhu W, Ye Z, Chen L, Liang H, Cai Q. A pyroptosis-related lncRNA signature predicts prognosis and immune microenvironment in head and neck squamous cell carcinoma. Int Immunopharmacol. 2021;101(Pt B): 108268.

Article  CAS  PubMed  Google Scholar 

Li Z, Shen L, Li Y, Shen L, Li N. Identification of pyroptosis-related gene prognostic signature in head and neck squamous cell carcinoma. Cancer Med. 2022;11(24):5129–44.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Lê Cao KA, Meugnier E, McLachlan GJ. Integrative mixture of experts to combine clinical factors and gene markers. Bioinformatics. 2010;26(9):1192–8.

Article  PubMed  PubMed Central  Google Scholar 

Nan Z, Dou Y, Chen A, Wang K, Sun J, Meng Z, et al. Identification and validation of a prognostic signature of autophagy, apoptosis and pyroptosis-related genes for head and neck squamous cell carcinoma: to imply therapeutic choices of HPV negative patients. Front Immunol. 2022;13:1100417.

Article  CAS  PubMed  Google Scholar 

Budach V, Tinhofer I. Novel prognostic clinical factors and biomarkers for outcome prediction in head and neck cancer: a systematic review. Lancet Oncol. 2019;20(6):e313–26.

Article  PubMed  Google Scholar 

Weng Y, Ning P. Construction of a prognostic prediction model for renal clear cell carcinoma combining clinical traits. Sci Rep. 2023;13(1):3358.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Xie G, Dong C, Kong Y, Zhong JF, Li M, Wang K. Group lasso regularized deep learning for cancer prognosis from multi-omics and clinical features. Genes. 2019;10(3):240.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Yin F, Shao X, Zhao L, Li X, Zhou J, Cheng Y, He X, Lei S, Li J, Wang J. Predicting prognosis of endometrioid endometrial adenocarcinoma on the basis of gene expression and clinical features using random forest. Oncol Let. 2019;18(2):1597–606.

CAS  Google Scholar 

Sun C, Li H, Mills RE, Guan Y. Prognostic model for multiple myeloma progression integrating gene expression and clinical features. Gigascience. 2019;8(12):giz153.

Article  PubMed  PubMed Central  Google Scholar 

Cai HY, Yang HS, Shan SC, Lei YY, Zou JY, Zhu Y, Luo HH. A novel signature based on immune-related gene pairs and clinical features to predict prognosis and treatment effect in “driver gene negative” lung adenocarcinoma. Cancer Med. 2022;11(11):2259–70.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Fan C, Prat A, Parker JS, Liu Y, Carey LA, Troester MA, Perou CM. Building prognostic models for breast cancer patients using clinical variables and hundreds of gene expression signatures. BMC Medical Genom. 2011;4:1–5.

Article  Google Scholar 

Howard FM, Kochanny S, Koshy M, Spiotto M, Pearson AT. Machine learning-guided adjuvant treatment of head and neck cancer. JAMA Netw Open. 2020;3(11): e2025881.

Article  PubMed  PubMed Central  Google Scholar 

Peng Z, Wang Y, Wang Y, Jiang S, Fan R, Zhang H, et al. Application of radiomics and machine learning in head and neck cancers. Int J Biol Sci. 2021;17(2):475–86.

Article  PubMed  PubMed Central  Google Scholar 

Alabi RO, Youssef O, Pirinen M, Elmusrati M, Mäkitie AA, Leivo I, et al. Machine learning in oral squamous cell carcinoma: current status, clinical concerns and prospects for future-A systematic review. Artif Intell Med. 2021;115: 102060.

Article  PubMed  Google Scholar 

Charoentong P, Finotello F, Angelova M, Mayer C, Efremova M, Rieder D, Hackl H, Trajanoski Z. Pan-cancer immunogenomic analyses reveal genotype-immunophenotype relationships and predictors of response to checkpoint blockade. Cell Rep. 2017;18(1):248–62.

Article  CAS  PubMed  Google Scholar 

Cox DR. Regression models and life-tables. J Royal Stat Soc Series B. 1972;34(2):187–202.

Comments (0)

No login
gif