Matched Analysis of Detailed Peripheral Blood and Tumor Immune Microenvironment Profiles in Bladder Cancer

References

• Liu Y-N , Zhang H , Zhang L et al. Sphingosine 1 phosphate receptor-1 (S1P1) promotes tumor-associated regulatory T cell expansion: leading to poor survival in bladder cancer. Cell Death Dis. 10(2), 50 (2019).
   PubMedGoogle Scholar
• Loskog A , Ninalga C , Paul-Wetterberg G , de la Torre M , Malmström P-U , Tötterman TH . Human bladder carcinoma is dominated by T-regulatory cells and Th1 inhibitory cytokines. J. Urol. 177(1), 353–358 (2007).
   PubMed Web of Science ®Google Scholar
• Zhang H , Ye Y-L , Li M-X et al. CXCL2/MIF-CXCR2 signaling promotes the recruitment of myeloid-derived suppressor cells and is correlated with prognosis in bladder cancer. Oncogene 36(15), 2095–2104 (2017).
   PubMed Web of Science ®Google Scholar
• Veglia F , Perego M , Gabrilovich D . Myeloid-derived suppressor cells coming of age. Nat. Immunol. 19(2), 108–119 (2018).
   PubMed Web of Science ®Google Scholar
• Wu K , Tan M-Y , Jiang J-T et al. Cisplatin inhibits the progression of bladder cancer by selectively depleting G-MDSCs: a novel chemoimmunomodulating strategy. Clin. Immunol. 193, 60–69 (2018).
   PubMed Web of Science ®Google Scholar
• Eruslanov E , Neuberger M , Daurkin I et al. Circulating and tumor-infiltrating myeloid cell subsets in patients with bladder cancer. Int. J. Cancer 130(5), 1109–1119 (2012).
   PubMed Web of Science ®Google Scholar
• Jiang S , Redelman-Sidi G . BCG in bladder cancer immunotherapy. Cancers (Basel) 14(13), 3073 (2022).
   PubMed Web of Science ®Google Scholar
• Lopez-Beltran A , Cimadamore A , Blanca A et al. Immune checkpoint inhibitors for the treatment of bladder cancer. Cancers (Basel) 13(1), 131 (2021).
   PubMed Web of Science ®Google Scholar
• Sonoda T , Sugimura K , Ikemoto S-I , Kawashima H , Nakatani T . Significance of target cell infection and natural killer cells in the anti-tumor effects of bacillus Calmette-Guerin in murine bladder cancer. Oncol. Rep. 17(6), 1469–1474 (2007).
   PubMed Web of Science ®Google Scholar
• Davis JW , Sheth SI , Doviak MJ , Schellhammer PF . Superficial bladder carcinoma treated with bacillus Calmette-Guerin: progression-free and disease specific survival with minimum 10-year followup. J. Urol. 167(2 Pt 1), 494–500; discussion 501 (2002).
   PubMed Web of Science ®Google Scholar
• Suzman DL , Agrawal S , Ning Y-M et al. FDA Approval Summary: atezolizumab or pembrolizumab for the treatment of patients with advanced urothelial carcinoma ineligible for cisplatin-containing chemotherapy. Oncologist 24(4), 563–569 (2019).
   PubMed Web of Science ®Google Scholar
• Zhang T , Harrison MR , O’Donnell PH et al. A randomized phase 2 trial of pembrolizumab versus pembrolizumab and acalabrutinib in patients with platinum-resistant metastatic urothelial cancer. Cancer 126(20), 4485–4497 (2020).
   PubMed Web of Science ®Google Scholar
• Kather JN , Suarez-Carmona M , Charoentong P et al. Topography of cancer-associated immune cells in human solid tumors. Elife 7 doi: 10.7554/eLife.36967 (2018).
   Web of Science ®Google Scholar
• Peng M . Immune landscape of distinct subtypes in urothelial carcinoma based on immune gene profile. Front. Immunol. 13, 970885 (2022).
   PubMed Web of Science ®Google Scholar
• Yuen KC , Liu L-F , Gupta V et al. High systemic and tumor-associated IL-8 correlates with reduced clinical benefit of PD-L1 blockade. Nat. Med. 26(5), 693–698 (2020).
   PubMed Web of Science ®Google Scholar
• Eckstein M , Strissel P , Strick R et al. Cytotoxic T-cell-related gene expression signature predicts improved survival in muscle-invasive urothelial bladder cancer patients after radical cystectomy and adjuvant chemotherapy. J. Immunother. Cancer 8(1), e000162 (2020).
   PubMed Web of Science ®Google Scholar
• Shaul ME , Fridlender ZG . Cancer-related circulating and tumor-associated neutrophils – subtypes, sources and function. FEBS J. 285(23), 4316–4342 (2018).
   PubMed Web of Science ®Google Scholar
• Suelves M , Carrió E , Núñez-Álvarez Y , Peinado MA . DNA methylation dynamics in cellular commitment and differentiation. Brief. Funct. Genomics 15(6), 443–453 (2016).
   PubMed Web of Science ®Google Scholar
• Salas LA , Wiencke JK , Koestler DC , Zhang Z , Christensen BC , Kelsey KT . Tracing human stem cell lineage during development using DNA methylation. Genome Res. 28(9), 1285–1295 (2018).
   PubMed Web of Science ®Google Scholar
• Salas LA , Koestler DC , Butler RA et al. An optimized library for reference-based deconvolution of whole-blood biospecimens assayed using the Illumina HumanMethylationEPIC BeadArray. Genome Biol. 19(1), 64 (2018).
   PubMed Web of Science ®Google Scholar
• Reinius LE , Acevedo N , Joerink M et al. Differential DNA methylation in purified human blood cells: implications for cell lineage and studies on disease susceptibility. PLOS ONE 7(7), e41361 (2012).
   PubMed Web of Science ®Google Scholar
• Houseman EA , Accomando WP , Koestler DC et al. DNA methylation arrays as surrogate measures of cell mixture distribution. BMC Bioinformatics 13(1), (2012).
   PubMedGoogle Scholar
• Titus AJ , Gallimore RM , Salas LA , Christensen BC . Cell-type deconvolution from DNA methylation: a review of recent applications. Hum. Mol. Genet. 26(R2), R216–R224 (2017).
   PubMed Web of Science ®Google Scholar
• Teschendorff AE , Zheng SC . Cell-type deconvolution in epigenome-wide association studies: a review and recommendations. Epigenomics 9(5), 757–768 (2017).
   PubMed Web of Science ®Google Scholar
• Wiencke JK , Koestler DC , Salas LA et al. Immunomethylomic approach to explore the blood neutrophil lymphocyte ratio (NLR) in glioma survival. Clin. Epigenetics 9(1), 1–11 (2017).
   PubMedGoogle Scholar
• Wiencke JK , Molinaro AM , Warrier G et al. DNA methylation as a pharmacodynamic marker of glucocorticoid response and glioma survival. Nat. Commun. 13(1), 5505 (2022).
   PubMed Web of Science ®Google Scholar
• Muse ME , Carroll CD , Salas LA , Karagas MR , Christensen BC . Application of novel breast biospecimen cell-type adjustment identifies shared DNA methylation alterations in breast tissue and milk with breast cancer-risk factors. Cancer Epidemiol. Biomarkers 32(4), 550–560 (2023).
   PubMed Web of Science ®Google Scholar
• Chen JQ , Salas LA , Wiencke JK et al. Immune profiles and DNA methylation alterations related with non-muscle-invasive bladder cancer outcomes. Clin. Epigenetics 14(1), 1–14 (2022).
   PubMed Web of Science ®Google Scholar
• Baris D , Karagas MR , Verrill C et al. A case–control study of smoking and bladder cancer risk: emergent patterns over time. J. Natl Cancer Inst. 101(22), 1553–1561 (2009).
   PubMedGoogle Scholar
• Kelsey KT , Hirao T , Schned A et al. A population-based study of immunohistochemical detection of p53 alteration in bladder cancer. Br. J. Cancer 90(8), 1572–1576 (2004).
   PubMed Web of Science ®Google Scholar
• Schned AR , Andrew AS , Marsit CJ , Zens MS , Kelsey KT , Karagas MR . Survival following the diagnosis of noninvasive bladder cancer: WHO/International Society of Urological Pathology versus WHO classification systems. J. Urol. 178(4), 1196–1200 (2007).
   PubMed Web of Science ®Google Scholar
• Zhang Z , Wiencke JK , Kelsey KT , Koestler DC , Christensen BC , Salas LA . HiTIMED: hierarchical tumor immune microenvironment epigenetic deconvolution for accurate cell type resolution in the tumor microenvironment using tumor-type-specific DNA methylation data. J. Transl. Med. 20(1), 1–17 (2022).
   PubMed Web of Science ®Google Scholar
• Karagas MR , Tosteson TD , Blum J , Morris JS , Baron JA , Klaue B . Design of an epidemiologic study of drinking water arsenic exposure and skin and bladder cancer risk in a US population. Environ. Health Perspect. 106(Suppl. 4), 1047–1050 (1998).
   PubMedGoogle Scholar
• Aryee MJ , Jaffe AE , Corrada-Bravo H et al. Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays. Bioinformatics 30(10), 1363–1369 (2014).
   PubMed Web of Science ®Google Scholar
• Xu Z , Niu L , Li L , Taylor JA . ENmix: a novel background correction method for Illumina HumanMethylation450 BeadChip. Nucleic Acids Res. 44(3), e20 (2016).
   PubMed Web of Science ®Google Scholar
• Teschendorff AE , Marabita F , Lechner M et al. A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data. Bioinformatics 29(2), 189–196 (2013).
   PubMed Web of Science ®Google Scholar
• Pidsley R , Y Wong CC , Volta M , Lunnon K , Mill J , Schalkwyk LC . A data-driven approach to preprocessing Illumina 450K methylation array data. BMC Genomics 14(1), 293 (2013).
   PubMedGoogle Scholar
• Johnson WE , Li C , Rabinovic A . Adjusting batch effects in microarray expression data using empirical Bayes methods. Biostatistics 8(1), 118–127 (2007).
   PubMed Web of Science ®Google Scholar
• Zhou W , Laird PW , Shen H . Comprehensive characterization, annotation and innovative use of Infinium DNA methylation BeadChip probes. Nucleic Acids Res. 45(4), e22 (2017).
   PubMed Web of Science ®Google Scholar
• Hansen KD . IlluminaHumanMethylationEPICanno.ilm10b4.hg19: annotation for Illumina’s EPIC methylation arrays (2017). https://bioconductor.org/packages/release/data/annotation/html/IlluminaHumanMethylationEPICanno.ilm10b4.hg19.html
   Google Scholar
• Monti S , Tamayo P , Mesirov J , Golub T . Consensus clustering: a resampling-based method for class discovery and visualization of gene expression micoarray data. Mach. Learn. 52, 91–118 (2003).
   Web of Science ®Google Scholar
• Wilkerson MD , Hayes DN . ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking. Bioinformatics 26(12), 1572–1573 (2010).
   PubMed Web of Science ®Google Scholar
• Vicente-Gonzalez L , Vicente-Villardon JL . PERMANOVA: Multivariate Analysis of Variance Based on Distances and Permutations (2021). https://cran.r-project.org/web/packages/PERMANOVA/index.html
   Google Scholar
• Templ M , Hron K , Filzmoser P . robCompositions: an R-package for robust statistical analysis of compositional data. In: Compositional Data Analysis: Theory and Applications. Pawlowsky-Glahn V , Buccianti A ( Eds). Wiley, 341–355 (2011).
   Google Scholar
• Joyce JA , Fearon DT . T cell exclusion, immune privilege, and the tumor microenvironment. Science 348(6230), 74–80 (2015).
   PubMed Web of Science ®Google Scholar
• Lanitis E , Dangaj D , Irving M , Coukos G . Mechanisms regulating T-cell infiltration and activity in solid tumors. Ann. Oncol. 28(Suppl. 12), xii18–xii32 (2017).
   PubMedGoogle Scholar
• Hegde PS , Karanikas V , Evers S . The where, the when, and the how of immune monitoring for cancer immunotherapies in the era of checkpoint inhibition. Clin. Cancer Res. 22(8), 1865–1874 (2016).
   PubMed Web of Science ®Google Scholar
• Wang L , Geng H , Liu Y et al. Hot and cold tumors: immunological features and the therapeutic strategies. MedComm 4(5), e343 (2023).
   PubMedGoogle Scholar
• Galon J , Bruni D . Approaches to treat immune hot, altered and cold tumours with combination immunotherapies. Nat. Rev. Drug Discov. 18(3), 197–218 (2019).
   PubMed Web of Science ®Google Scholar
• Pillai S , Mattoo H , Cariappa A . B cells and autoimmunity. Curr Opin. Immunol. 23(6), 721–731 (2011).
   PubMed Web of Science ®Google Scholar
• Allman D , Pillai S . Peripheral B cell subsets. Curr. Opin. Immunol. 20(2), 149–157 (2008).
   PubMed Web of Science ®Google Scholar
• Sprent J . Circulating T and B lymphocytes of the mouse. I. Migratory properties. Cell. Immunol. 7(1), 10–39 (1973).
   PubMed Web of Science ®Google Scholar
• von Andrian UH , Mackay CR . T-cell function and migration. Two sides of the same coin. N. Engl. J. Med. 343(14), 1020–1034 (2000).
   PubMed Web of Science ®Google Scholar
• Wu L , Saxena S , Singh RK . Neutrophils in the tumor microenvironment. Adv. Exp. Med. Biol. 1224, 1–20 (2020).
   PubMed Web of Science ®Google Scholar
• Zahorec R . Neutrophil-to-lymphocyte ratio, past, present and future perspectives. Bratisl. Lek. Listy 122(7), 474–488 (2021).
   PubMed Web of Science ®Google Scholar
• Vartolomei MD , Porav-Hodade D , Ferro M et al. Prognostic role of pretreatment neutrophil-to-lymphocyte ratio (NLR) in patients with non–muscle-invasive bladder cancer (NMIBC): a systematic review and meta-analysis. Urol. Oncol. Semin. Orig. Investig. 36(9), 389–399 (2018).
   PubMed Web of Science ®Google Scholar
• Zhang Q , Lai Q , Wang S , Meng Q , Mo Z . Clinical value of postoperative neutrophil-to-lymphocyte ratio change as a detection marker of bladder cancer recurrence. Cancer Manag. Res. 13, 849–860 (2021).
   PubMed Web of Science ®Google Scholar
• Kerim I , Ammad A , Mahmood H , Al-zayadi FQJ . Comparative analysis of tumor infiltrating T Cells and serological markers between MIBC and NMIBC patients. Medicolegal Updat. 20(4), 770–775 (2020).
   Google Scholar
• Ferro M , Di Lorenzo G , Vartolomei MD et al. Absolute basophil count is associated with time to recurrence in patients with high-grade T1 bladder cancer receiving bacillus Calmette–Guérin after transurethral resection of the bladder tumor. World J. Urol. 38(1), 143–150 (2020).
   PubMed Web of Science ®Google Scholar
• Chen J-Q , Salas LA , Wiencke JK et al. Genome-scale methylation analysis identifies immune profiles and age acceleration associations with bladder cancer outcomes. Cancer Epidemiol. Biomarkers Prev. 32(10), 1328–1337 (2023).
   PubMed Web of Science ®Google Scholar
• He X , Cao Y , Gu Y et al. Clinical outcomes and immune metrics in intratumoral basophil-enriched gastric cancer patients. Ann. Surg. Oncol. 28(11), 6439–6450 (2021).
   PubMed Web of Science ®Google Scholar
• Poto R , Gambardella AR , Marone G et al. Basophils from allergy to cancer. Front. Immunol. 13, 1056838 (2022).
   PubMedGoogle Scholar
• Zhang J , Yin H , Chen Q et al. Basophils as a potential therapeutic target in cancer. J. Zhejiang Univ. Sci. B 22(12), 971–984 (2021).
   PubMed Web of Science ®Google Scholar
• Lin K-C , Jan H-C , Hu C-Y et al. Tumor necrosis with adjunction of preoperative monocyte-to-lymphocyte ratio as a new risk stratification marker can independently predict poor outcomes in upper tract urothelial carcinoma. J. Clin. Med. 10(13), 2983 (2021).
   PubMed Web of Science ®Google Scholar
• Zhu X , Wu S-Q , Xu R et al. The evaluation of monocyte lymphocyte ratio as a preoperative predictor in urothelial malignancies: a pooled analysis based on comparative studies. Sci. Rep. 9(1), 6280 (2019).
   PubMedGoogle Scholar
• Liu J , Wu P , Lai S et al. Preoperative monocyte-to-lymphocyte ratio predicts for intravesical recurrence in patients with urothelial carcinoma of the upper urinary tract after radical nephroureterectomy without a history of bladder cancer. Clin. Genitourin. Cancer 19(3), e156–e165 (2021).
   PubMed Web of Science ®Google Scholar
• Shi H , Wang K , Yuan J et al. A high monocyte-to-lymphocyte ratio predicts poor prognosis in patients with radical cystectomy for bladder cancer. Transl. Cancer Res. 9(9), 5255–5267 (2020).
   PubMed Web of Science ®Google Scholar
• Chanmee T , Ontong P , Konno K , Itano N . Tumor-associated macrophages as major players in the tumor microenvironment. Cancers (Basel) 6(3), 1670–1690 (2014).
   PubMed Web of Science ®Google Scholar
• Pollard JW . Tumour-educated macrophages promote tumour progression and metastasis. Nat. Rev. Cancer 4(1), 71–8 (2004).
   PubMed Web of Science ®Google Scholar
• Zhang Q , Liu L , Gong C et al. Prognostic significance of tumor-associated macrophages in solid tumor: a meta-analysis of the literature. PLOS ONE 7(12), e50946 (2012).
   PubMed Web of Science ®Google Scholar
• Qian B-Z , Li J , Zhang H et al. CCL2 recruits inflammatory monocytes to facilitate breast-tumour metastasis. Nature 475(7355), 222–225 (2011).
   PubMed Web of Science ®Google Scholar
• Taniguchi K , Koga S , Nishikido M et al. Systemic immune response after intravesical instillation of bacille Calmette-Guérin (BCG) for superficial bladder cancer. Clin. Exp. Immunol. 115(1), 131–135 (1999).
   PubMed Web of Science ®Google Scholar
• Han J , Gu X , Li Y , Wu Q . Mechanisms of BCG in the treatment of bladder cancer – current understanding and the prospect. Biomed. Pharmacother. 129, 110393 (2020).
   PubMed Web of Science ®Google Scholar
• van Puffelen JH , Novakovic B , van Emst L et al. Intravesical BCG in patients with non-muscle invasive bladder cancer induces trained immunity and decreases respiratory infections. J. Immunother. Cancer 11(1), e005518 (2023).
   PubMed Web of Science ®Google Scholar
• Ratna A , Mandrekar P . Alcohol and cancer: mechanisms and therapies. Biomolecules 7(3), 61 (2017).
   PubMed Web of Science ®Google Scholar
• Laso FJ , Vaquero JM , Almeida J , Marcos M , Orfao A . Chronic alcohol consumption is associated with changes in the distribution, immunophenotype, and the inflammatory cytokine secretion profile of circulating dendritic cells. Alcohol. Clin. Exp. Res. 31(5), 846–854 (2007).
   PubMed Web of Science ®Google Scholar
• Dyck L , Prendeville H , Raverdeau M et al. Suppressive effects of the obese tumor microenvironment on CD8 T cell infiltration and effector function. J. Exp. Med. 219(3), e20210042 (2022).
   PubMed Web of Science ®Google Scholar
• Elisia I , Lam V , Cho B et al. Exploratory examination of inflammation state, immune response and blood cell composition in a human obese cohort to identify potential markers predicting cancer risk. PLOS ONE 15(2), 1–21 (2020).
   Web of Science ®Google Scholar