Chen Y-P, Chan ATC, Le Q-T, Blanchard P, Sun Y, Ma J. Nasopharyngeal carcinoma. Lancet. 2019;394:64–80.
Tang L-L, Chen Y-P, Chen C-B, Chen M-Y, Chen N-Y, Chen X-Z, et al. The Chinese Society of Clinical Oncology (CSCO) clinical guidelines for the diagnosis and treatment of nasopharyngeal carcinoma. Cancer Commun. 2021;41:1195–227.
Lee AWM, Ng WT, Chan JYW, Corry J, Mäkitie A, Mendenhall WM, et al. Management of locally recurrent nasopharyngeal carcinoma. Cancer Treat Rev. 2019;79:101890.
Guo R, Mao Y-P, Tang L-L, Chen L, Sun Y, Ma J. The evolution of nasopharyngeal carcinoma staging. Br J Radio. 2019;92:20190244.
Jen C-W, Tsai Y-C, Wu J-S, Chen P-L, Yen J-H, Chuang W-K, et al. Prognostic classification for patients with nasopharyngeal carcinoma based on American Joint Committee on Cancer staging system T and N categories. Ther Radiol Oncol. 2020;4:2–13.
Bossi P, Chan AT, Licitra L, Trama A, Orlandi E, Hui EP, et al. Nasopharyngeal carcinoma: ESMO-EURACAN clinical practice guidelines for diagnosis, treatment and follow-up†. Ann Oncol 2021;32:452–65.
Article CAS PubMed Google Scholar
Argirion I, Zarins KR, Suwanrungruang K, Pongnikorn D, Chitapanarux I, Sriplung H, et al. Subtype specific nasopharyngeal carcinoma incidence and survival trends: differences between endemic and non-endemic populations. Asian Pac J Cancer Prev. 2020;21:3291–9.
Article CAS PubMed PubMed Central Google Scholar
Ding R-B, Chen P, Rajendran BK, Lyu X, Wang H, Bao J, et al. Molecular landscape and subtype-specific therapeutic response of nasopharyngeal carcinoma revealed by integrative pharmacogenomics. Nat Commun. 2021;12:3046.
Article CAS PubMed PubMed Central Google Scholar
MacConaill LE, Van Hummelen P, Meyerson M, Hahn WC. Clinical implementation of comprehensive strategies to characterize cancer genomes: opportunities and challenges. Cancer Discov. 2011;1:297–311.
Article CAS PubMed PubMed Central Google Scholar
Mardis ER. The impact of next-generation sequencing on cancer genomics: from discovery to clinic. Cold Spring Harb Perspect Med. 2019;9:a036269.
Article CAS PubMed PubMed Central Google Scholar
Zhao L, Fong AHW, Liu N, Cho WCS. Molecular subtyping of nasopharyngeal carcinoma (NPC) and a microRNA-based prognostic model for distant metastasis. J Biomed Sci. 2018;25:16.
Article PubMed PubMed Central Google Scholar
Ka-Yue Chow L, Lai-Shun Chung D, Tao L, Chan KF, Tung SY, Cheong Ngan RK, et al. Epigenomic landscape study reveals molecular subtypes and EBV-associated regulatory epigenome reprogramming in nasopharyngeal carcinoma. EBioMedicine. 2022;86:104357.
Article CAS PubMed PubMed Central Google Scholar
Weinstein JN, Collisson EA, Mills GB, Shaw KRM, Ozenberger BA, Ellrott K, et al. The cancer genome atlas pan-cancer analysis project. Nat Genet. 2013;45:1113–20.
Article PubMed PubMed Central Google Scholar
Hänzelmann S, Castelo R, Guinney J. GSVA: gene set variation analysis for microarray and RNA-seq data. BMC Bioinform. 2013;14:7.
Becht E, Giraldo NA, Lacroix L, Buttard B, Elarouci N, Petitprez F, et al. Estimating the population abundance of tissue-infiltrating immune and stromal cell populations using gene expression. Genome Biol. 2016;17:218.
Article PubMed PubMed Central Google Scholar
Langfelder P, Horvath S. WGCNA: an R package for weighted correlation network analysis. BMC Bioinforma. 2008;9:559.
Oldham MC, Konopka G, Iwamoto K, Langfelder P, Kato T, Horvath S, et al. Functional organization of the transcriptome in human brain. Nat Neurosci. 2008;11:1271–82.
Article CAS PubMed PubMed Central Google Scholar
Voineagu I, Wang X, Johnston P, Lowe JK, Tian Y, Horvath S, et al. Transcriptomic analysis of autistic brain reveals convergent molecular pathology. Nature. 2011;474:380–4.
Article CAS PubMed PubMed Central Google Scholar
Li B, Severson E, Pignon J-C, Zhao H, Li T, Novak J, et al. Comprehensive analyses of tumor immunity: implications for cancer immunotherapy. Genome Biol. 2016;17:174.
Article PubMed PubMed Central Google Scholar
Li T, Fan J, Wang B, Traugh N, Chen Q, Liu JS, et al. TIMER: a web server for comprehensive analysis of tumor-infiltrating immune cells. Cancer Res. 2017;77:e108–e10.
Article CAS PubMed PubMed Central Google Scholar
Tibshirani.Regression shrinkage and selection via the lasso.J R Stat Soc Ser B Stat Methodol. 1996;58:267–88.
Tibshirani R. The lasso method for variable selection in the Cox model. Stat Med. 1997;16:385–95.
Article CAS PubMed Google Scholar
Sauerbrei W, Royston P, Binder H. Selection of important variables and determination of functional form for continuous predictors in multivariable model building. Stat Med. 2007;26:5512–28.
Bøvelstad HM, Nygård S, Størvold HL, Aldrin M, Borgan Ø, Frigessi A, et al. Predicting survival from microarray data–a comparative study. Bioinformatics. 2007;23:2080–7.
Wei J-H, Feng Z-H, Cao Y, Zhao H-W, Chen Z-H, Liao B, et al. Predictive value of single-nucleotide polymorphism signature for recurrence in localised renal cell carcinoma: a retrospective analysis and multicentre validation study. Lancet Oncol. 2019;20:591–600.
Article CAS PubMed Google Scholar
Zhang L, MacIsaac KD, Zhou T, Huang P-Y, Xin C, Dobson JR, et al. Genomic analysis of nasopharyngeal carcinoma reveals TME-based subtypes. Mol Cancer Res. 2017;15:1722–32.
Article CAS PubMed Google Scholar
Liu Y, He S, Wang X-L, Peng W, Chen Q-Y, Chi D-M, et al. Tumour heterogeneity and intercellular networks of nasopharyngeal carcinoma at single cell resolution. Nat Commun. 2021;12:741.
Article CAS PubMed PubMed Central Google Scholar
Peng W-S, Zhou X, Yan W-B, Li Y-J, Du C-R, Wang X-S, et al. Dissecting the heterogeneity of the microenvironment in primary and recurrent nasopharyngeal carcinomas using single-cell RNA sequencing. Oncoimmunology. 2022;11:2026583.
Article PubMed PubMed Central Google Scholar
Luo W. Nasopharyngeal carcinoma ecology theory: cancer as multidimensional spatiotemporal “unity of ecology and evolution” pathological ecosystem. Theranostics. 2023;13:1607–31.
Article CAS PubMed PubMed Central Google Scholar
Lin D-C, Meng X, Hazawa M, Nagata Y, Varela AM, Xu L, et al. The genomic landscape of nasopharyngeal carcinoma. Nat Genet. 2014;46:866–71.
Article CAS PubMed Google Scholar
Zheng H, Dai W, Cheung AKL, Ko JMY, Kan R, Wong BWY, et al. Whole-exome sequencing identifies multiple loss-of-function mutations of NF-κB pathway regulators in nasopharyngeal carcinoma. Proc Natl Acad Sci USA. 2016;113:11283–8.
Article CAS PubMed PubMed Central Google Scholar
Li YY, Chung GTY, Lui VWY, To K-F, Ma BBY, Chow C, et al. Exome and genome sequencing of nasopharynx cancer identifies NF-κB pathway activating mutations. Nat Commun. 2017;8:14121.
Article CAS PubMed PubMed Central Google Scholar
Chen Y-P, Lv J-W, Mao Y-P, Li X-M, Li J-Y, Wang Y-Q, et al. Unraveling tumour microenvironment heterogeneity in nasopharyngeal carcinoma identifies biologically distinct immune subtypes predicting prognosis and immunotherapy responses. Mol Cancer. 2021;20:14.
Article CAS PubMed PubMed Central Google Scholar
Chiavarina B, Whitaker-Menezes D, Martinez-Outschoorn UE, Witkiewicz AK, Birbe R, Howell A, et al. Pyruvate kinase expression (PKM1 and PKM2) in cancer-associated fibroblasts drives stromal nutrient production and tumor growth. Cancer Biol Ther. 2011;12:1101–13.
Article CAS PubMed PubMed Central Google Scholar
Ketteler J, Klein D. Caveolin-1, cancer and therapy resistance. Int J Cancer. 2018;143:2092–104.
Article CAS PubMed Google Scholar
Adler AS, McCleland ML, Yee S, Yaylaoglu M, Hussain S, Cosino E, et al. An integrative analysis of colon cancer identifies an essential function for PRPF6 in tumor growth. Genes Dev. 2014;28:1068–84.
Article CAS PubMed PubMed Central Google Scholar
Rodrigues MFSD, Miguita L, De Andrade NP, Heguedusch D, Rodini CO, Moyses RA, et al. GLI3 knockdown decreases stemness, cell proliferation and invasion in oral squamous cell carcinoma. Int J Oncol. 2018;53:2458–72.
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