DNA methylation-based depiction of the immune microenvironment and immune-associated long non-coding RNAs in oral cavity squamous cell carcinomas

Página do item simplificado
dc.contributorSistema FMUSP-HC: Faculdade de Medicina da Universidade de São Paulo (FMUSP) e Hospital das Clínicas da FMUSP
dc.contributor.authorCALANCA, Naiade
dc.contributor.authorFRANCISCO, Ana Lucia Noronha
dc.contributor.authorBIZINELLI, Daniela
dc.contributor.authorKUASNE, Hellen
dc.contributor.authorBARROS FILHO, Mateus Camargo
dc.contributor.authorFLORES, Bianca Campos Troncarelli
dc.contributor.authorPINTO, Clovis Antonio Lopes
dc.contributor.authorRAINHO, Claudia Aparecida
dc.contributor.authorSOARES, Milena Botelho Pereira
dc.contributor.authorMARCHI, Fabio Albuquerque
dc.contributor.authorKOWALSKI, Luiz Paulo
dc.contributor.authorROGATTO, Silvia Regina
dc.date.accessioned2024-02-15T14:37:51Z
dc.date.available2024-02-15T14:37:51Z
dc.date.issued2023
dc.description.abstractOral cavity squamous cell carcinoma (OSCC) is a complex and dynamic disease characterized by clinicopathological and molecular heterogeneity. Spatial and temporal heterogeneity of cell subpopulations has been associated with cancer progression and implicated in the prognosis and therapy response. Emerging evidence indicates that aberrant epigenetic profiles in OSCC may foster an immunosuppressive tumor microenvironment by modulating the expression of immune-related long non-coding RNAs (lncRNAs). DNA methylation analysis was performed in 46 matched OSCC and normal adjacent tissue samples using a genome-wide platform (Infinium HumanMethylation450 BeadChip). Reference-based computational deconvolution (MethylCIBERSORT) was applied to infer the immune cell composition of the bulk samples. The expression levels of genes encoding immune markers and differentially methylated lncRNAs were investigated using The Cancer Genome Atlas dataset. OSCC specimens presented distinct immune cell composition, including the enrichment of monocyte lineage cells, natural killer cells, cytotoxic T-lymphocytes, regulatory T-lymphocytes, and neutrophils. In contrast, B-lymphocytes, effector T-lymphocytes, and fibroblasts were diminished in tumor samples. The hypomethylation of three immune-associated lncRNAs (MEG3, MIR155HG, and WFDC21P) at individual CpG sites was confirmed by bisulfite-pyrosequencing. Also, the upregulation of a set of immune markers (FOXP3, GZMB, IL10, IL2RA, TGFB, IFNG, TDO2, IDO1, and HIF1A) was detected. The immune cell composition, immune markers alteration, and dysregulation of immune-associated lncRNAs reinforce the impact of the immune microenvironment in OSCC. These concurrent factors contribute to tumor heterogeneity, suggesting that epiimmunotherapy could be an efficient alternative to treat OSCC.eng
dc.description.indexMEDLINE
dc.description.indexPubMed
dc.description.indexWoS
dc.description.indexScopus
dc.description.sponsorshipRegion of Southern Denmark Research Fund
dc.description.sponsorshipNational Institute of Science and Technology in Oncogenomics(INCITO-Fundacao de Amparo a Pesquisa do Estado de Sao Paulo-FAPESP)
dc.description.sponsorshipConselho Nacional de Desenvolvimento Cientifico e Tecnologico [573589/08-9]
dc.description.sponsorshipBrazilian Federal Agency for Support and Evaluation of Graduate Education (CAPES) [88887.570391/2020-00, 2008/57887-9]
dc.description.sponsorship[88887.310463/2018-00]
dc.identifier.citationBIOMEDICINE & PHARMACOTHERAPY, v.167, article ID 115559, 14p, 2023
dc.identifier.doi10.1016/j.biopha.2023.115559
dc.identifier.eissn1950-6007
dc.identifier.issn0753-3322
dc.identifier.urihttps://observatorio.fm.usp.br/handle/OPI/57806
dc.language.isoeng
dc.publisherELSEVIER FRANCE-EDITIONS SCIENTIFIQUES MEDICALES ELSEVIEReng
dc.relation.ispartofBiomedicine & Pharmacotherapy
dc.rightsopenAccesseng
dc.rights.holderCopyright ELSEVIER FRANCE-EDITIONS SCIENTIFIQUES MEDICALES ELSEVIEReng
dc.subjectOral cancereng
dc.subjectTumor immune microenvironmenteng
dc.subjectLncRNAseng
dc.subjectDNA methylationeng
dc.subjectDeconvolutioneng
dc.subject.otherb-cellseng
dc.subject.othercancereng
dc.subject.otherdifferentiationeng
dc.subject.otherinduceeng
dc.subject.wosMedicine, Research & Experimentaleng
dc.subject.wosPharmacology & Pharmacyeng
dc.titleDNA methylation-based depiction of the immune microenvironment and immune-associated long non-coding RNAs in oral cavity squamous cell carcinomaseng
dc.typearticleeng
dc.type.categoryoriginal articleeng
dc.type.versionpublishedVersioneng
dspace.entity.typePublication
hcfmusp.affiliation.countryDinamarca
hcfmusp.affiliation.countryCanadá
hcfmusp.affiliation.countryisoca
hcfmusp.affiliation.countryisodk
hcfmusp.author.externalCALANCA, Naiade:Univ Southern Denmark, Univ Hosp Southern Denmark Vejle, Inst Reg Hlth Res, Dept Clin Genet, DK-5000 Odense, Denmark; Sao Paulo State Univ UNESP, Inst Biosci, Dept Chem & Biol Sci, BR-18618689 Botucatu, SP, Brazil
hcfmusp.author.externalFRANCISCO, Ana Lucia Noronha:AC Camargo Canc Ctr, Dept Head & Neck Surg & Otorhinolaryngol, BR-01509001 Sao Paulo, SP, Brazil
hcfmusp.author.externalBIZINELLI, Daniela:AC Camargo Canc Ctr, Int Res Ctr CIPE, BR-01508010 Sao Paulo, SP, Brazil
hcfmusp.author.externalKUASNE, Hellen:McGill Univ, Rosalind & Morris Goodman Canc Inst, Montreal, PQ H3A 1A3, Canada
hcfmusp.author.externalBARROS FILHO, Mateus Camargo:AC Camargo Canc Ctr, Int Res Ctr CIPE, BR-01508010 Sao Paulo, SP, Brazil
hcfmusp.author.externalFLORES, Bianca Campos Troncarelli:Univ Southern Denmark, Univ Hosp Southern Denmark Vejle, Inst Reg Hlth Res, Dept Clin Genet, DK-5000 Odense, Denmark
hcfmusp.author.externalPINTO, Clovis Antonio Lopes:AC Camargo Canc Ctr, Dept Pathol, BR-01509010 Sao Paulo, SP, Brazil
hcfmusp.author.externalRAINHO, Claudia Aparecida:Sao Paulo State Univ UNESP, Inst Biosci, Dept Chem & Biol Sci, BR-18618689 Botucatu, SP, Brazil
hcfmusp.author.externalSOARES, Milena Botelho Pereira:SENAI CIMATEC, Hlth Technol Inst, BR-41650010 Salvador, BA, Brazil; Fiocruz MS, Goncalo Moniz Inst, BR-40296710 Salvador, BA, Brazil
hcfmusp.author.externalROGATTO, Silvia Regina:Univ Southern Denmark, Univ Hosp Southern Denmark Vejle, Inst Reg Hlth Res, Dept Clin Genet, DK-5000 Odense, Denmark; Univ Southern Denmark, Univ Hosp, Vejle Inst Reg Hlth Res, Dept Clin Genet, Beriderbakken 4, DK-7100 Vejle, Denmark
hcfmusp.citation.scopus0
hcfmusp.contributor.author-fmusphcFABIO ALBUQUERQUE MARCHI
hcfmusp.contributor.author-fmusphcLUIZ PAULO KOWALSKI
hcfmusp.description.articlenumber115559
hcfmusp.description.volume167
hcfmusp.origemWOS
hcfmusp.origem.pubmed37742611
hcfmusp.origem.scopus2-s2.0-85171664022
hcfmusp.origem.wosWOS:001083192500001
hcfmusp.publisher.cityISSY-LES-MOULINEAUXeng
hcfmusp.publisher.countryFRANCEeng
hcfmusp.relation.referenceAbel AM, 2018, FRONT IMMUNOL, V9, DOI 10.3389/fimmu.2018.01869eng
hcfmusp.relation.referenceAdil AAM, 2019, 3 BIOTECH, V9, DOI 10.1007/s13205-019-1707-7eng
hcfmusp.relation.referenceAlspach E, 2019, CSH PERSPECT BIOL, V11, DOI 10.1101/cshperspect.a028480eng
hcfmusp.relation.referenceAtianand MK, 2017, ANNU REV IMMUNOL, V35, P177, DOI 10.1146/annurev-immunol-041015-055459eng
hcfmusp.relation.referenceBasu B, 2017, CLIN EPIGENETICS, V9, DOI 10.1186/s13148-017-0314-xeng
hcfmusp.relation.referenceChakravarthy A, 2018, NAT COMMUN, V9, DOI 10.1038/s41467-018-05570-1eng
hcfmusp.relation.referenceColaprico A, 2016, NUCLEIC ACIDS RES, V44, DOI 10.1093/nar/gkv1507eng
hcfmusp.relation.referencede Martel C, 2020, LANCET GLOB HEALTH, V8, pE180, DOI 10.1016/S2214-109X(19)30488-7eng
hcfmusp.relation.referenceDiao PF, 2021, J IMMUNOTHER CANCER, V9, DOI 10.1136/jitc-2021-002434eng
hcfmusp.relation.referenceDurinck S, 2005, BIOINFORMATICS, V21, P3439, DOI 10.1093/bioinformatics/bti525eng
hcfmusp.relation.referenceElmusrati A, 2021, INT J ORAL SCI, V13, DOI 10.1038/s41368-021-00131-7eng
hcfmusp.relation.referenceEsteller M, 2007, NAT REV GENET, V8, P286, DOI 10.1038/nrg2005eng
hcfmusp.relation.referenceFallarino F, 2006, J IMMUNOL, V176, P6752, DOI 10.4049/jimmunol.176.11.6752eng
hcfmusp.relation.referenceFridman WH, 2022, NAT REV CLIN ONCOL, V19, P441, DOI 10.1038/s41571-022-00619-zeng
hcfmusp.relation.referenceGalon J, 2019, NAT REV DRUG DISCOV, V18, P197, DOI 10.1038/s41573-018-0007-yeng
hcfmusp.relation.referenceGoksuluk D, 2016, R J, V8, P213eng
hcfmusp.relation.referenceGoldman MJ, 2020, NAT BIOTECHNOL, V38, P675, DOI 10.1038/s41587-020-0546-8eng
hcfmusp.relation.referenceGrzywa TM, 2020, FRONT IMMUNOL, V11, DOI 10.3389/fimmu.2020.00938eng
hcfmusp.relation.referenceGu ZG, 2016, BIOINFORMATICS, V32, P2847, DOI 10.1093/bioinformatics/btw313eng
hcfmusp.relation.referenceHanahan D, 2022, CANCER DISCOV, V12, P31, DOI 10.1158/2159-8290.CD-21-1059eng
hcfmusp.relation.referenceHsu PJ, 2020, ORAL ONCOL, V102, DOI 10.1016/j.oraloncology.2019.104552eng
hcfmusp.relation.referenceHuang SN, 2020, MED SCI MONITOR, V26, DOI 10.12659/MSM.922854eng
hcfmusp.relation.referenceHuang YX, 2022, FRONT ONCOL, V12, DOI 10.3389/fonc.2022.800315eng
hcfmusp.relation.referenceHuang ZX, 2019, J ORAL PATHOL MED, V48, P788, DOI 10.1111/jop.12927eng
hcfmusp.relation.referenceJithesh PV, 2013, BRIT J CANCER, V108, P370, DOI 10.1038/bjc.2012.568eng
hcfmusp.relation.referenceJohnson DE, 2020, NAT REV DIS PRIMERS, V6, DOI 10.1038/s41572-020-00224-3eng
hcfmusp.relation.referenceKalogirou EM, 2021, FRONT ONCOL, V11, DOI 10.3389/fonc.2021.611115eng
hcfmusp.relation.referenceKhan S, 2021, LIFE SCI, V271, DOI 10.1016/j.lfs.2021.119152eng
hcfmusp.relation.referenceKim SY, 2019, CLIN EPIGENETICS, V11, DOI 10.1186/s13148-019-0715-0eng
hcfmusp.relation.referenceKondoh N, 2019, JPN DENT SCI REV, V55, P113, DOI 10.1016/j.jdsr.2019.09.001eng
hcfmusp.relation.referenceLao XM, 2016, ONCOL LETT, V11, P2027, DOI 10.3892/ol.2016.4184eng
hcfmusp.relation.referenceLawrence MS, 2015, NATURE, V517, P576, DOI 10.1038/nature14129eng
hcfmusp.relation.referenceLee GR, 2018, INT J MOL SCI, V19, DOI 10.3390/ijms19030730eng
hcfmusp.relation.referenceLi NN, 2019, BIOMED PHARMACOTHER, V117, DOI 10.1016/j.biopha.2019.109015eng
hcfmusp.relation.referenceLi XJY, 2020, CELLS-BASEL, V9, DOI 10.3390/cells9010190eng
hcfmusp.relation.referenceLiu ZX, 2017, ONCOL LETT, V14, P4053, DOI 10.3892/ol.2017.6682eng
hcfmusp.relation.referenceLove MI, 2014, GENOME BIOL, V15, DOI 10.1186/s13059-014-0550-8eng
hcfmusp.relation.referenceMantovani A, 2021, CELL MOL IMMUNOL, V18, P566, DOI 10.1038/s41423-020-00613-4eng
hcfmusp.relation.referenceMasoumi F, 2019, J NEUROIMMUNOL, V328, P50, DOI 10.1016/j.jneuroim.2018.11.013eng
hcfmusp.relation.referenceMellor AL, 2004, NAT REV IMMUNOL, V4, P762, DOI 10.1038/nri1457eng
hcfmusp.relation.referenceMondal T, 2015, NAT COMMUN, V6, DOI 10.1038/ncomms8743eng
hcfmusp.relation.referenceMorris TJ, 2014, BIOINFORMATICS, V30, P428, DOI 10.1093/bioinformatics/btt684eng
hcfmusp.relation.referenceMounir M, 2019, PLOS COMPUT BIOL, V15, DOI 10.1371/journal.pcbi.1006701eng
hcfmusp.relation.referenceObaid M, 2018, SCI REP-UK, V8, DOI 10.1038/s41598-018-33722-2eng
hcfmusp.relation.referenceOpitz CA, 2020, BRIT J CANCER, V122, P30, DOI 10.1038/s41416-019-0664-6eng
hcfmusp.relation.referencePang JL, 2018, EUR REV MED PHARMACO, V22, P6991, DOI 10.26355/eurrev_201810_16170eng
hcfmusp.relation.referencePatil VM, 2020, ORAL ONCOL, V105, DOI 10.1016/j.oraloncology.2020.104673eng
hcfmusp.relation.referencePeltier DC, 2022, TRENDS IMMUNOL, V43, P478, DOI 10.1016/j.it.2022.04.002eng
hcfmusp.relation.referencePeng DJ, 2015, NATURE, V527, P249, DOI 10.1038/nature15520eng
hcfmusp.relation.referenceQiu YY, 2019, BIOMED PHARMACOTHER, V111, P386, DOI 10.1016/j.biopha.2018.12.080eng
hcfmusp.relation.referenceRitchie ME, 2015, NUCLEIC ACIDS RES, V43, DOI 10.1093/nar/gkv007eng
hcfmusp.relation.referenceRivera C, 2015, INT J CLIN EXP PATHO, V8, P11884eng
hcfmusp.relation.referencede Sá RS, 2021, FRONT CELL DEV BIOL, V8, DOI 10.3389/fcell.2020.622161eng
hcfmusp.relation.referenceSeifuddin F, 2020, SCI DATA, V7, DOI 10.1038/s41597-020-00659-zeng
hcfmusp.relation.referenceShi CY, 2022, SCI REP-UK, V12, DOI 10.1038/s41598-022-15534-7eng
hcfmusp.relation.referenceTeschendorff AE, 2013, BIOINFORMATICS, V29, P189, DOI 10.1093/bioinformatics/bts680eng
hcfmusp.relation.referenceTian Y, 2017, BIOINFORMATICS, V33, P3982, DOI 10.1093/bioinformatics/btx513eng
hcfmusp.relation.referenceVillanueva L, 2020, TRENDS IMMUNOL, V41, P676, DOI 10.1016/j.it.2020.06.002eng
hcfmusp.relation.referenceVoskoboinik I, 2015, NAT REV IMMUNOL, V15, P388, DOI 10.1038/nri3839eng
hcfmusp.relation.referenceWang J, 2023, IMMUNOLOGY, V168, P248, DOI 10.1111/imm.13520eng
hcfmusp.relation.referenceWu XC, 2022, ONCOTARGETS THER, V15, P219, DOI 10.2147/OTT.S349078eng
hcfmusp.relation.referenceWu ZH, 2019, CYTOKINE GROWTH F R, V48, P24, DOI 10.1016/j.cytogfr.2019.06.003eng
hcfmusp.relation.referenceXu Y, 2022, CANCER COMMUN, V42, P493, DOI 10.1002/cac2.12313eng
hcfmusp.relation.referenceZhang L, 2022, CANCERS, V14, DOI 10.3390/cancers14246032eng
hcfmusp.relation.referenceZhang SW, 2022, OXID MED CELL LONGEV, V2022, DOI 10.1155/2022/6849304eng
hcfmusp.relation.referenceZhang XQ, 2018, INT J MOL SCI, V19, DOI 10.3390/ijms19061698eng
hcfmusp.relation.referenceZhao J, 2015, INT IMMUNOPHARMACOL, V28, P901, DOI 10.1016/j.intimp.2015.04.028eng
hcfmusp.relation.referenceZhao YJ, 2022, FRONT GENET, V13, DOI 10.3389/fgene.2022.788580eng
hcfmusp.relation.referenceZhou X, 2016, ORAL ONCOL, V53, P27, DOI 10.1016/j.oraloncology.2015.11.003eng
hcfmusp.relation.referenceZhou Y, 2021, BIOCHEM PHARMACOL, V189, DOI 10.1016/j.bcp.2020.114228eng
hcfmusp.scopus.lastupdate2024-05-17
relation.isAuthorOfPublicationfc9b1c04-af2b-4626-b20b-bb720f5d1175
relation.isAuthorOfPublication591f15eb-0938-4816-985a-42c5bb53ebed
relation.isAuthorOfPublication.latestForDiscoveryfc9b1c04-af2b-4626-b20b-bb720f5d1175
Arquivos
Pacote Original
Agora exibindo 1 - 1 de 1
Imagem de Miniatura
Nome:
art_CALANCA_DNA_methylationbased_depiction_of_the_immune_microenvironment_and_2023.PDF
Tamanho:
9.04 MB
Formato:
Adobe Portable Document Format
Descrição:
publishedVersion (English)
Baixar
Coleções
Artigos e Materiais de Revistas Científicas - FM/MCG
Artigos e Materiais de Revistas Científicas - HC/ICESP
Artigos e Materiais de Revistas Científicas - HC/ICHC
Artigos e Materiais de Revistas Científicas - LIM/03
Artigos e Materiais de Revistas Científicas - LIM/28
Artigos e Materiais de Revistas Científicas - ODS/03