141
Views
0
CrossRef citations to date
0
Altmetric
Research Article

Methylation of Immune-Regulatory Cytokine Genes and Pancreatic Cancer Outcomes

ORCID Icon, , , , ORCID Icon & ORCID Icon
Pages 1273-1285 | Received 08 Nov 2019, Accepted 23 Jul 2020, Published online: 01 Sep 2020

References

  • Siegel RL , MillerKD , JemalA. Cancer statistics, 2020. C. A. Cancer J. Clin.70(1), 7–30 (2020).
  • Ryan DP , HongTS , BardeesyN. Pancreatic adenocarcinoma. N. Engl. J. Med.371(22), 2140–2141 (2014).
  • Sideras K , BraatH , KwekkeboomJet al. Role of the immune system in pancreatic cancer progression and immune modulating treatment strategies. Cancer Treat. Rev.40(4), 513–522 (2014).
  • Evans A , CostelloE. The role of inflammatory cells in fostering pancreatic cancer cell growth and invasion. Front. Physiol.3, 270 (2012).
  • Chang JH , JiangY , PillarisettyVG. Role of immune cells in pancreatic cancer from bench to clinical application: an updated review. Medicine (Baltimore).95(49), e5541 (2016).
  • Hiraoka N , OnozatoK , KosugeT , HirohashiS. Prevalence of FOXP3+ regulatory T cells increases during the progression of pancreatic ductal adenocarcinoma and its premalignant lesions. Clin. Cancer Res.12(18), 5423–5434 (2006).
  • Gabitass RF , AnnelsNE , StockenDD , PandhaHA , MiddletonGW. Elevated myeloid-derived suppressor cells in pancreatic, esophageal and gastric cancer are an independent prognostic factor and are associated with significant elevation of the Th2 cytokine interleukin-13. Cancer Immunol. Immunother.60(10), 1419–1430 (2011).
  • De Monte L , ReniM , TassiEet al. Intratumor T helper type 2 cell infiltrate correlates with cancer-associated fibroblast thymic stromal lymphopoietin production and reduced survival in pancreatic cancer. J. Exp. Med.208(3), 469–478 (2011).
  • Fukunaga A , MiyamotoM , ChoYet al. CD8+ tumor-infiltrating lymphocytes together with CD4+ tumor-infiltrating lymphocytes and dendritic cells improve the prognosis of patients with pancreatic adenocarcinoma. Pancreas.28(1), e26–31 (2004).
  • Yamamoto T , YanagimotoH , SatoiSet al. Circulating myeloid dendritic cells as prognostic factors in patients with pancreatic cancer who have undergone surgical resection. J. Surg. Res.173(2), 299–308 (2012).
  • Bellone G , TurlettiA , ArtusioEet al. Tumor-associated transforming growth factor-beta and interleukin-10 contribute to a systemic Th2 immune phenotype in pancreatic carcinoma patients. Am. J. Pathol.155(2), 537–547 (1999).
  • Blogowski W , DeskurA , BudkowskaMet al. Selected cytokines in patients with pancreatic cancer: a preliminary report. PLoS One.9(5), e97613 (2014).
  • Roshani R , McCarthyF , HagemannT. Inflammatory cytokines in human pancreatic cancer. Cancer Lett.345(2), 157–163 (2014).
  • Ebrahimi B , TuckerSL , LiD , AbbruzzeseJL , KurzrockR. Cytokines in pancreatic carcinoma: correlation with phenotypic characteristics and prognosis. Cancer101(12), 2727–2736 (2004).
  • Dima SO , TanaseC , AlbulescuRet al. An exploratory study of inflammatory cytokines as prognostic biomarkers in patients with ductal pancreatic adenocarcinoma. Pancreas41(7), 1001–1007 (2012).
  • Feurino LW , FisherWE , BharadwajU , YaoQ , ChenC , LiM. Current update of cytokines in pancreatic cancer: pathogenic mechanisms, clinical indication, and therapeutic values. Cancer Invest.24(7), 696–703 (2006).
  • Bellone G , SmirneC , MauriFAet al. Cytokine expression profile in human pancreatic carcinoma cells and in surgical specimens: implications for survival. Cancer Immunol. Immunother.55(6), 684–698 (2006).
  • Zhao X , FanW , XuZet al. Inhibiting tumor necrosis factor-alpha diminishes desmoplasia and inflammation to overcome chemoresistance in pancreatic ductal adenocarcinoma. Oncotarget7(49), 81110–81122 (2016).
  • Torres C , LinaresA , AlejandreMJet al. Prognosis relevance of serum cytokines in pancreatic cancer. Biomed. Res. Int.2015, 518284 (2015).
  • Farren MR , MaceTA , GeyerSet al. Systemic immune activity predicts overall survival in treatment-naive patients with metastatic pancreatic cancer. Clin. Cancer Res.22(10), 2565–2574 (2016).
  • Javle M , LiY , TanDet al. Biomarkers of TGF-beta signaling pathway and prognosis of pancreatic cancer. PLoS One9(1), e85942 (2014).
  • Glazer ES , WelshE , PimientoJM , TeerJK , MalafaMP. TGFbeta1 overexpression is associated with improved survival and low tumor cell proliferation in patients with early-stage pancreatic ductal adenocarcinoma. Oncotarget8(1), 999–1006 (2017).
  • Piro G , SimionatoF , CarboneCet al. A circulating TH2 cytokines profile predicts survival in patients with resectable pancreatic adenocarcinoma. Oncoimmunology6(9), e1322242 (2017).
  • Phillips T . The role of methylation in gene expression. Nat. Educ.1(1), 116 (2008).
  • Kandimalla R , van TilborgAA , ZwarthoffEC. DNA methylation-based biomarkers in bladder cancer. Nat. Rev.10(6), 327–335 (2013).
  • Strand SH , OrntoftTF , SorensenKD. Prognostic DNA methylation markers for prostate cancer. Int. J. Mol. Sci.15(9), 16544–16576 (2014).
  • Fleischer T , FrigessiA , JohnsonKCet al. Genome-wide DNA methylation profiles in progression to in situ and invasive carcinoma of the breast with impact on gene transcription and prognosis. Genome Biol.15(8), 435–2333349012841587. (2014).
  • Peters I , DubrowinskajaN , AbbasMet al. DNA methylation biomarkers predict progression-free and overall survival of metastatic renal cell cancer (mRCC) treated with antiangiogenic therapies. PLoS One9(3), e91440 (2014).
  • Ohtsubo K , WatanabeH , YamaguchiYet al. Abnormalities of tumor suppressor gene p16 in pancreatic carcinoma: immunohistochemical and genetic findings compared with clinicopathological parameters. J. Gastroenterol.38(7), 663–671 (2003).
  • Henriksen SD , MadsenPH , LarsenACet al. Cell-free DNA promoter hypermethylation in plasma as a predictive marker for survival of patients with pancreatic adenocarcinoma. Oncotarget8(55), 93942–93956 (2017).
  • Yamamura K , KosumiK , BabaYet al. LINE-1 methylation level and prognosis in pancreas cancer: pyrosequencing technology and literature review. Surg. Today47(12), 1450–1459 (2017).
  • Stratford JK , BentremDJ , AndersonJMet al. A six-gene signature predicts survival of patients with localized pancreatic ductal adenocarcinoma. PLoS Med.7(7), e1000307 (2010).
  • Newhook TE , BlaisEM , LindbergJMet al. A thirteen-gene expression signature predicts survival of patients with pancreatic cancer and identifies new genes of interest. PLoS One9(9), e105631 (2014).
  • Thompson MJ , RubbiL , DawsonDW , DonahueTR , PellegriniM. Pancreatic cancer patient survival correlates with DNA methylation of pancreas development genes. PLoS One10(6), e0128814 (2015).
  • Raman P , MaddipatiR , LimKH , TozerenA. Pancreatic cancer survival analysis defines a signature that predicts outcome. PLoS One13(8), e0201751 (2018).
  • Tomczak K , CzerwinskaP , WiznerowiczM. The Cancer Genome Atlas (TCGA): an immeasurable source of knowledge. Contemp. Oncol. (Poznan, Poland)19(1A), A68–A77 (2015).
  • Colaprico A , SilvaTC , OlsenCet al. TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data. Nucleic Acids Res.44(8), e71 (2016).
  • Triche TJ Jr , WeisenbergerDJ , VanDen Berg D , LairdPW , SiegmundKD. Low-level processing of Illumina Infinium DNA Methylation BeadArrays. Nucleic Acids Res.41(7), e90 (2013).
  • Cancer Genome Atlas Research Network , LeyTJ , MillerCet al.Genomic and epigenomic landscapes of adult de novo acute myeloid leukemia. N. Engl. J. Med.368(22), 2059–2074 (2013).
  • Dedeurwaerder S , DefranceM , BizetM , CalonneE , BontempiG , FuksF. A comprehensive overview of Infinium HumanMethylation450 data processing. Brief. Bioinform.15(6), 929–941 (2014).
  • Aryee MJ , JaffeAE , Corrada-BravoHet al. Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays. Bioinformatics [Internet].30(10), 1363–1369 (2014).
  • 1000 Genomes Project Consortium , DurbinRM , AltshulerDet al.A map of human genome variation from population-scale sequencing. Nature [Internet].467, 1061 (2010).
  • Wright ML , DozmorovMG , WolenARet al. Establishing an analytic pipeline for genome-wide DNA methylation. Clin. Epigenetics.8, 1–10, 45-016-0212-7. eCollection 2016 (2016).
  • Zhou W , LairdPW , ShenH. Comprehensive characterization, annotation and innovative use of Infinium DNA methylation BeadChip probes. Nucleic Acids Res.45(4), e22 (2017).
  • Zhou W , TricheTJJ , LairdPW , ShenH. SeSAMe: reducing artifactual detection of DNA methylation by Infinium BeadChips in genomic deletions. Nucleic Acids Res.46(20), e123 (2018).
  • Roadmap Epigenomics Consortium , KundajeA , MeulemanWet al.Integrative analysis of 111 reference human epigenomes. Nature518(7539), 317–330 (2015).
  • Ernst J , KellisM. Chromatin-state discovery and genome annotation with ChromHMM. Nat. Protoc.12(12), 2478–2492 (2017).
  • Lawrence M , HuberW , PagesHet al. Software for computing and annotating genomic ranges. PLoS Comput. Biol.9(8), e1003118 (2013).
  • Silva TC , ColapricoA , OlsenCet al. TCGA Workflow: analyze cancer genomics and epigenomics data using Bioconductor packages. F1000Research [Internet].5, 1542 (2016). https://pubmed.ncbi.nlm.nih.gov/28232861
  • Li B , DeweyCN. RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome. BMC Bioinformatics.12, 323 (2011).
  • Liu J , LichtenbergT , HoadleyKAet al. An integrated TCGA pan-cancer clinical data resource to drive high-quality survival outcome analytics. Cell.173(2), 400–416.e11 (2018).
  • Teschendorff AE , ZhuangJ , WidschwendterM. Independent surrogate variable analysis to deconvolve confounding factors in large-scale microarray profiling studies. Bioinformatics.27(11), 1496–1505 (2011).
  • The Cancer Genome Atlas Research Network . Integrated genomic characterization of pancreatic ductal adenocarcinoma. Cancer Cell.32(2), 185–203.e13 (2017).
  • Noone A , HowladerN , KrapchoMet al. SEER Cancer Statistics Review, 1975–2015 [Internet]. MD, USA. https://seer.cancer.gov/csr/1975_2015/
  • Yuan C , Morales-OyarvideV , BabicAet al. Cigarette Smoking and pancreatic cancer survival. J. Clin. Oncol.35(16), 1822–1828 (2017).
  • Hahne F , IvanekR. Visualizing genomic data using gviz and bioconductor. Methods Mol. Biol.1418, 335–351 (2016).
  • Dudoit S , ShafferJP , BoldrickJC. Multiple hypothesis testing in microarray experiments. Stat. Sci. [Internet].18(1), 71–103 (2003).
  • Zhao J , LiangY , YinQet al. Clinical and prognostic significance of serum transforming growth factor-beta1 levels in patients with pancreatic ductal adenocarcinoma. Brazilian J. Med. Biol. Res.49(8), (2016).
  • Farajzadeh Valilou S , Keshavarz-FathiM , SilvestrisN , ArgentieroA , RezaeiN. The role of inflammatory cytokines and tumor associated macrophages (TAMs) in microenvironment of pancreatic cancer. Cytokine Growth Factor Rev.39, 46–61 (2018).
  • Ariapart P , Bergstedt-LindqvistS , van HarmelenV , PermertJ , WangF , LundkvistI. Resection of pancreatic cancer normalizes the preoperative increase of tumor necrosis factor alpha gene expression. Pancreatology.2(5), 491–494 (2002).
  • Pedersen KS , BamletWR , ObergALet al. Leukocyte DNA methylation signature differentiates pancreatic cancer patients from healthy controls. PLoS One.6(3), e18223 (2011).
  • Cai H-H , SunY-M , MiaoYet al. Aberrant methylation frequency of TNFRSF10C promoter in pancreatic cancer cell lines. Hepatobiliary Pancreat. Dis. Int.10(1), 95–100 (2011).
  • Al-Zoubi M , ChipitsynaG , SaxenaSet al. Overexpressing TNF-alpha in pancreatic ductal adenocarcinoma cells and fibroblasts modifies cell survival and reduces fatty acid synthesis via downregulation of sterol regulatory element binding protein-1 and activation of acetyl CoA carboxylase. J. Gastrointest. Surg.18(2), 257–68 (2014).
  • Shen X , HeZ , LiHet al. Distinct functional patterns of gene promoter hypomethylation and hypermethylation in cancer genomes. PLoS One.7(9), e44822 (2012).
  • Holmer R , GoumasFA , WaetzigGH , Rose-JohnS , KalthoffH. Interleukin-6: a villain in the drama of pancreatic cancer development and progression. Hepatobiliary Pancreat. Dis. Int.13(4), 371–380 (2014).
  • Pop V-V , SeiceanA , LupanI , SamascaG , BurzC-C. IL-6 roles – molecular pathway and clinical implication in pancreatic cancer – a systemic review. Immunol. Lett.181, 45–50 (2017).

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.