Identification of copy number alternation profiles in metastatic oral squamous carcinoma patients by using microarray-based comparative genomic hybridization: A study on Turkish patients
OBJECTIVEOral squamous cell carcinoma (OSCC) is a severe form of cancer affecting different anatomic sites of the oral cavity. OSCC ranks as the sixth most common cancer type with an increasing prevalence globally. However, the mechanisms of OSCC process at later stages are not well understood. In t...
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| Published in: | Journal of stomatology, oral and maxillofacial surgery Vol. 124; no. 6; p. 101583 |
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| Main Authors: | , , , , , , |
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01-12-2023
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| Abstract | OBJECTIVEOral squamous cell carcinoma (OSCC) is a severe form of cancer affecting different anatomic sites of the oral cavity. OSCC ranks as the sixth most common cancer type with an increasing prevalence globally. However, the mechanisms of OSCC process at later stages are not well understood. In this study, we aimed to determine genetic alternations in metastatic OSCC patients to identify genomic changes occurred at metastatic phase of the disease.MATERIAL AND METHODSThe Illumina CytoSNP-12 Array was used to determine copy number variations in OSCC cancer genome. Hybridization procedures were performed according to the manufacturer procedures (Illumina). Arrays were scanned on iScan System (Illumina). Data were analyzed using Illumina Genotyping module of Genome Studio software (version 1.2, Illumina). Multiple CNV algorithms and copy number alternations were accessed by Genome Studio. CNVs in whole genome were investigated by using a chromosomal heat map.RESULTSWe reported that gains in 8q21.11-ter, 9p21.3, 13q14.11-ter, 13q13.3-ter and losses in 5q14.3-ter, 5q35 and 17p13.3-12 were associated with the development of OSCC. In addition, we also detected that deletion in 2q33.2-ter and 2q35-37.3 regions were also associated with OSCC metastasis process.CONCLUSIONSOur results were also showed that gains in 11q13.3-q13.4 and 2q13.2 chromosomal regions could promote the metastatic OSCC process. We believe that results of the study will help to find new biomarkers for diagnosis at later stage of OSCC. |
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| AbstractList | OBJECTIVEOral squamous cell carcinoma (OSCC) is a severe form of cancer affecting different anatomic sites of the oral cavity. OSCC ranks as the sixth most common cancer type with an increasing prevalence globally. However, the mechanisms of OSCC process at later stages are not well understood. In this study, we aimed to determine genetic alternations in metastatic OSCC patients to identify genomic changes occurred at metastatic phase of the disease.MATERIAL AND METHODSThe Illumina CytoSNP-12 Array was used to determine copy number variations in OSCC cancer genome. Hybridization procedures were performed according to the manufacturer procedures (Illumina). Arrays were scanned on iScan System (Illumina). Data were analyzed using Illumina Genotyping module of Genome Studio software (version 1.2, Illumina). Multiple CNV algorithms and copy number alternations were accessed by Genome Studio. CNVs in whole genome were investigated by using a chromosomal heat map.RESULTSWe reported that gains in 8q21.11-ter, 9p21.3, 13q14.11-ter, 13q13.3-ter and losses in 5q14.3-ter, 5q35 and 17p13.3-12 were associated with the development of OSCC. In addition, we also detected that deletion in 2q33.2-ter and 2q35-37.3 regions were also associated with OSCC metastasis process.CONCLUSIONSOur results were also showed that gains in 11q13.3-q13.4 and 2q13.2 chromosomal regions could promote the metastatic OSCC process. We believe that results of the study will help to find new biomarkers for diagnosis at later stage of OSCC. |
| ArticleNumber | 101583 |
| Author | Ulusan, Murat Bireller, Sinem Kayhan, Kivanc Bektas Tanıs, Tuncay Cincin, Zeynep Birsu Cakmakoglu, Bedia Unur, Meral |
| Author_xml | – sequence: 1 givenname: Meral surname: Unur fullname: Unur, Meral – sequence: 2 givenname: Zeynep Birsu surname: Cincin fullname: Cincin, Zeynep Birsu – sequence: 3 givenname: Tuncay surname: Tanıs fullname: Tanıs, Tuncay – sequence: 4 givenname: Kivanc Bektas surname: Kayhan fullname: Kayhan, Kivanc Bektas – sequence: 5 givenname: Murat surname: Ulusan fullname: Ulusan, Murat – sequence: 6 givenname: Sinem surname: Bireller fullname: Bireller, Sinem – sequence: 7 givenname: Bedia surname: Cakmakoglu fullname: Cakmakoglu, Bedia |
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| Cites_doi | 10.1016/j.oraloncology.2010.01.007 10.1111/j.1601-0825.2011.01894.x 10.1093/hmg/ddt657 10.3892/or_00000565 10.1074/jbc.M110.150490 10.1016/j.archoralbio.2014.07.005 10.1371/journal.pone.0017250 10.1007/s00428-002-0729-3 10.1002/cncr.34607 10.1111/j.1600-0757.2011.00395.x 10.4103/0973-029X.151311 10.1016/j.cca.2013.10.004 10.1016/j.archoralbio.2018.07.018 10.1016/j.oraloncology.2013.06.002 10.1097/01.mlg.0000205141.54471.7f 10.1002/path.1640 10.1097/01.cco.0000219250.15041.f8 10.1016/j.tripleo.2010.11.020 10.1016/j.oraloncology.2008.05.018 10.4238/2013.November.18.20 10.1177/0194599812442490 10.1371/journal.pone.0056165 10.1016/j.oraloncology.2014.02.005 |
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| References | Wang (10.1016/j.jormas.2023.101583_bib0003) 2014; 427 Ghantous (10.1016/j.jormas.2023.101583_bib0023) 2018; 95 Vincent-Chong (10.1016/j.jormas.2023.101583_bib0015) 2012; 18 Salahshourifar (10.1016/j.jormas.2023.101583_bib0014) 2014; 50 Da Silva (10.1016/j.jormas.2023.101583_bib0007) 2013; 49 Chandavarkar (10.1016/j.jormas.2023.101583_bib0001) 2014; 18 Bockmühl (10.1016/j.jormas.2023.101583_bib0020) 2002; 441 William (10.1016/j.jormas.2023.101583_bib0022) 2023; 129 Tanis (10.1016/j.jormas.2023.101583_bib0013) 2014; 59 Kayhan (10.1016/j.jormas.2023.101583_bib0008) 2012 Ambatipudi (10.1016/j.jormas.2023.101583_bib0018) 2011; 6 Tanyel (10.1016/j.jormas.2023.101583_bib0009) 2013; 12 Petti (10.1016/j.jormas.2023.101583_bib0006) 2009; 45 Yoshioka (10.1016/j.jormas.2023.101583_bib0019) 2013; 8 Serrano (10.1016/j.jormas.2023.101583_bib0012) 2012; 147 Brinkman (10.1016/j.jormas.2023.101583_bib0002) 2003; 18 Rao (10.1016/j.jormas.2023.101583_bib0010) 2010; 285 Cha (10.1016/j.jormas.2023.101583_bib0011) 2011; 111 Cervigne (10.1016/j.jormas.2023.101583_bib0021) 2014; 23 Chen (10.1016/j.jormas.2023.101583_bib0016) 2004; 204 Pérez-Sayáns (10.1016/j.jormas.2023.101583_bib0024) 2009; 22 Warnakulasuriya (10.1016/j.jormas.2023.101583_bib0005) 2000; 57 Wu (10.1016/j.jormas.2023.101583_bib0004) 2010; 46 Sparano (10.1016/j.jormas.2023.101583_bib0017) 2006; 116 |
| References_xml | – volume: 46 start-page: 226 issue: 4 year: 2010 ident: 10.1016/j.jormas.2023.101583_bib0004 article-title: Potential biomarkers in saliva for oral squamous cell carcinoma publication-title: Oral Oncol doi: 10.1016/j.oraloncology.2010.01.007 contributor: fullname: Wu – volume: 18 start-page: 469 issue: 5 year: 2012 ident: 10.1016/j.jormas.2023.101583_bib0015 article-title: Genome-wide analysis of oral squamous cell carcinomas revealed over expression of ISG15, Nestin and WNT11 publication-title: Oral Dis doi: 10.1111/j.1601-0825.2011.01894.x contributor: fullname: Vincent-Chong – volume: 23 start-page: 2618 issue: 10 year: 2014 ident: 10.1016/j.jormas.2023.101583_bib0021 article-title: Recurrent genomic alterations in sequential progressive leukoplakia and oral cancer: drivers of oral tumorigenesis? publication-title: Hum Mol Genet doi: 10.1093/hmg/ddt657 contributor: fullname: Cervigne – start-page: 195 year: 2012 ident: 10.1016/j.jormas.2023.101583_bib0008 article-title: Role of inflammation in oral squamous cell carcinoma contributor: fullname: Kayhan – volume: 22 start-page: 1277 issue: 6 year: 2009 ident: 10.1016/j.jormas.2023.101583_bib0024 article-title: Genetic and molecular alterations associated with oral squamous cell cancer (Review) publication-title: Oncol Rep doi: 10.3892/or_00000565 contributor: fullname: Pérez-Sayáns – volume: 285 start-page: 32512 issue: 42 year: 2010 ident: 10.1016/j.jormas.2023.101583_bib0010 article-title: Pro-inflammatory genes as biomarkers and therapeutic targets in oral squamous cell carcinoma publication-title: J Biol Chem doi: 10.1074/jbc.M110.150490 contributor: fullname: Rao – volume: 59 start-page: 1155 issue: 11 year: 2014 ident: 10.1016/j.jormas.2023.101583_bib0013 article-title: The role of components of the extracellular matrix and inflammation on oral squamous cell carcinoma metastasis publication-title: Arch Oral Biol doi: 10.1016/j.archoralbio.2014.07.005 contributor: fullname: Tanis – volume: 6 start-page: e17250 issue: 2 year: 2011 ident: 10.1016/j.jormas.2023.101583_bib0018 article-title: Genomic profiling of advanced-stage oral cancers reveals chromosome 11q alterations as markers of poor clinical outcome publication-title: PLOS One doi: 10.1371/journal.pone.0017250 contributor: fullname: Ambatipudi – volume: 441 start-page: 541 issue: 6 year: 2002 ident: 10.1016/j.jormas.2023.101583_bib0020 article-title: DNA ploidy and chromosomal alterations in head and neck squamous cell carcinoma publication-title: Virchows Arch doi: 10.1007/s00428-002-0729-3 contributor: fullname: Bockmühl – volume: 129 start-page: 714 issue: 5 year: 2023 ident: 10.1016/j.jormas.2023.101583_bib0022 article-title: Spatial PD-L1, immune-cell microenvironment, and genomic copy-number alteration patterns and drivers of invasive-disease transition in prospective oral precancer cohort publication-title: Cancer doi: 10.1002/cncr.34607 contributor: fullname: William – volume: 57 start-page: 38 issue: 1 year: 2000 ident: 10.1016/j.jormas.2023.101583_bib0005 article-title: Squamous cell carcinoma and precursor lesions: prevention publication-title: Periodontol doi: 10.1111/j.1600-0757.2011.00395.x contributor: fullname: Warnakulasuriya – volume: 18 start-page: 349 issue: 3 year: 2014 ident: 10.1016/j.jormas.2023.101583_bib0001 article-title: Immunomorphological patterns of cervical lymph nodes in oral squamous cell carcinoma publication-title: J Oral Maxillofac Pathol doi: 10.4103/0973-029X.151311 contributor: fullname: Chandavarkar – volume: 427 start-page: 79 year: 2014 ident: 10.1016/j.jormas.2023.101583_bib0003 article-title: Investigation and identification of potential biomarkers in human saliva for the early diagnosis of oral squamous cell carcinoma publication-title: Clin Chim Acta doi: 10.1016/j.cca.2013.10.004 contributor: fullname: Wang – volume: 95 start-page: 141 year: 2018 ident: 10.1016/j.jormas.2023.101583_bib0023 article-title: Abu El-Naaj I. Clinical and genetic signatures of local recurrence in oral squamous cell carcinoma publication-title: Arch Oral Biol doi: 10.1016/j.archoralbio.2018.07.018 contributor: fullname: Ghantous – volume: 49 start-page: 863 issue: 9 year: 2013 ident: 10.1016/j.jormas.2023.101583_bib0007 article-title: Discussing the diagnosis of HPV-OSCC: common questions and answers publication-title: Oral Oncol doi: 10.1016/j.oraloncology.2013.06.002 contributor: fullname: Da Silva – volume: 116 start-page: 735 issue: 5 year: 2006 ident: 10.1016/j.jormas.2023.101583_bib0017 article-title: Genome-wide profiling of oral squamous cell carcinoma by array-based comparative genomic hybridization publication-title: Laryngoscope doi: 10.1097/01.mlg.0000205141.54471.7f contributor: fullname: Sparano – volume: 204 start-page: 326 issue: 3 year: 2004 ident: 10.1016/j.jormas.2023.101583_bib0016 article-title: Genome-wide profiling of oral squamous cell carcinoma publication-title: J Pathol doi: 10.1002/path.1640 contributor: fullname: Chen – volume: 18 start-page: 228 issue: 3 year: 2003 ident: 10.1016/j.jormas.2023.101583_bib0002 article-title: Disease mechanism and biomarkers of oral squamous cell carcinoma publication-title: Curr Opin Oncol doi: 10.1097/01.cco.0000219250.15041.f8 contributor: fullname: Brinkman – volume: 111 start-page: 594 issue: 5 year: 2011 ident: 10.1016/j.jormas.2023.101583_bib0011 article-title: Genetic alterations in oral squamous cell carcinoma progression detected by combining array-based comparative genomic hybridization and multiplex ligation-dependent probe amplification publication-title: Oral Surg Oral Med Oral Pathol Oral Radiol Endod doi: 10.1016/j.tripleo.2010.11.020 contributor: fullname: Cha – volume: 45 start-page: 340 year: 2009 ident: 10.1016/j.jormas.2023.101583_bib0006 article-title: Lifestyle risk factors for oral cancer publication-title: Oral Oncol doi: 10.1016/j.oraloncology.2008.05.018 contributor: fullname: Petti – volume: 12 start-page: 5714 issue: 4 year: 2013 ident: 10.1016/j.jormas.2023.101583_bib0009 article-title: Effects of genetic variants of CCR5 chemokine receptors on oral squamous cell carcinoma publication-title: Genet Mol Res doi: 10.4238/2013.November.18.20 contributor: fullname: Tanyel – volume: 147 start-page: 501 issue: 3 year: 2012 ident: 10.1016/j.jormas.2023.101583_bib0012 article-title: Integrative analysis in oral squamous cell carcinoma reveals DNA copy number-associated miRNAs dysregulating target genes publication-title: Otolaryngol Head Neck Surg doi: 10.1177/0194599812442490 contributor: fullname: Serrano – volume: 8 start-page: e56165 issue: 2 year: 2013 ident: 10.1016/j.jormas.2023.101583_bib0019 article-title: Genomic profiling of oral squamous cell carcinoma by array-based comparative genomic hybridization publication-title: PLOS One doi: 10.1371/journal.pone.0056165 contributor: fullname: Yoshioka – volume: 50 start-page: 404 issue: 5 year: 2014 ident: 10.1016/j.jormas.2023.101583_bib0014 article-title: Genomic DNA copy number alterations from precursor oral lesions to oral squamous cell carcinoma publication-title: Oral Oncol doi: 10.1016/j.oraloncology.2014.02.005 contributor: fullname: Salahshourifar |
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