Genome-wide analysis of oral squamous cell carcinomas revealed over expression of ISG15, Nestin and WNT11

V. K. Vincent-Chong, S. M. Ismail, Z. A A Rahman, N. A. Sharifah, A. Anwar, P. J. Pradeep, A. Ramanathan, L. P. Karen-Ng, T. G. Kallarakkal, W. M W Mustafa, M. T. Abraham, K. K. Tay, R. B. Zain

    Research output: Contribution to journalArticle

    13 Citations (Scopus)

    Abstract

    Background: Multistep pathways and mechanisms are involved in the development of oral cancer. Chromosomal alterations are one of such key mechanisms implicated oral carcinogenesis. Therefore, this study aims to determine the genomic copy number alterations (CNAs) in oral squamous cell carcinoma (OSCC) using array comparative genomic hybridization (aCGH) and in addition attempt to correlate CNAs with modified gene expression. Materials and Methods: Genome-wide screening was performed on 15 OSCCs using high-density aCGH. On the basis of pathway analysis, three genes (ISG15, Nestin and WNT11) which mapped to CNA regions were selected for further evaluation of their mRNA expression using quantitative reverse transcriptase PCR (qRT-PCR). Results: Copy number alterations were observed on multiple genomic regions, including amplifications on 1p, 3q, 5p, 6p, 7p, 8q, 9q, 11q, 12q, 16p, 18p and deletions on 3p, 7q, 8p, 11q, 19q and 20q. Among the three selected genes, ISG15 had the highest mRNA expression level with a 22.5-fold increase, followed by Nestin with a 4.5-fold increase and WNT11 with a 2.5-fold increase. Conclusions: This study has identified several major CNAs in oral cancer genomes and indicated that this correlates with over expression of the ISG15, WNT11, and Nestin genes.

    Original languageEnglish
    Pages (from-to)469-476
    Number of pages8
    JournalOral Diseases
    Volume18
    Issue number5
    DOIs
    Publication statusPublished - Jul 2012

    Fingerprint

    Nestin
    Squamous Cell Carcinoma
    Comparative Genomic Hybridization
    Mouth Neoplasms
    Genome
    Genes
    Messenger RNA
    Reverse Transcriptase Polymerase Chain Reaction
    Carcinogenesis
    Gene Expression

    Keywords

    • Array comparative genomic hybridization
    • ISG15
    • Nestin
    • Oral cancer
    • WNT11

    ASJC Scopus subject areas

    • Dentistry(all)
    • Otorhinolaryngology

    Cite this

    Vincent-Chong, V. K., Ismail, S. M., Rahman, Z. A. A., Sharifah, N. A., Anwar, A., Pradeep, P. J., ... Zain, R. B. (2012). Genome-wide analysis of oral squamous cell carcinomas revealed over expression of ISG15, Nestin and WNT11. Oral Diseases, 18(5), 469-476. https://doi.org/10.1111/j.1601-0825.2011.01894.x

    Genome-wide analysis of oral squamous cell carcinomas revealed over expression of ISG15, Nestin and WNT11. / Vincent-Chong, V. K.; Ismail, S. M.; Rahman, Z. A A; Sharifah, N. A.; Anwar, A.; Pradeep, P. J.; Ramanathan, A.; Karen-Ng, L. P.; Kallarakkal, T. G.; Mustafa, W. M W; Abraham, M. T.; Tay, K. K.; Zain, R. B.

    In: Oral Diseases, Vol. 18, No. 5, 07.2012, p. 469-476.

    Research output: Contribution to journalArticle

    Vincent-Chong, VK, Ismail, SM, Rahman, ZAA, Sharifah, NA, Anwar, A, Pradeep, PJ, Ramanathan, A, Karen-Ng, LP, Kallarakkal, TG, Mustafa, WMW, Abraham, MT, Tay, KK & Zain, RB 2012, 'Genome-wide analysis of oral squamous cell carcinomas revealed over expression of ISG15, Nestin and WNT11', Oral Diseases, vol. 18, no. 5, pp. 469-476. https://doi.org/10.1111/j.1601-0825.2011.01894.x
    Vincent-Chong, V. K. ; Ismail, S. M. ; Rahman, Z. A A ; Sharifah, N. A. ; Anwar, A. ; Pradeep, P. J. ; Ramanathan, A. ; Karen-Ng, L. P. ; Kallarakkal, T. G. ; Mustafa, W. M W ; Abraham, M. T. ; Tay, K. K. ; Zain, R. B. / Genome-wide analysis of oral squamous cell carcinomas revealed over expression of ISG15, Nestin and WNT11. In: Oral Diseases. 2012 ; Vol. 18, No. 5. pp. 469-476.
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    abstract = "Background: Multistep pathways and mechanisms are involved in the development of oral cancer. Chromosomal alterations are one of such key mechanisms implicated oral carcinogenesis. Therefore, this study aims to determine the genomic copy number alterations (CNAs) in oral squamous cell carcinoma (OSCC) using array comparative genomic hybridization (aCGH) and in addition attempt to correlate CNAs with modified gene expression. Materials and Methods: Genome-wide screening was performed on 15 OSCCs using high-density aCGH. On the basis of pathway analysis, three genes (ISG15, Nestin and WNT11) which mapped to CNA regions were selected for further evaluation of their mRNA expression using quantitative reverse transcriptase PCR (qRT-PCR). Results: Copy number alterations were observed on multiple genomic regions, including amplifications on 1p, 3q, 5p, 6p, 7p, 8q, 9q, 11q, 12q, 16p, 18p and deletions on 3p, 7q, 8p, 11q, 19q and 20q. Among the three selected genes, ISG15 had the highest mRNA expression level with a 22.5-fold increase, followed by Nestin with a 4.5-fold increase and WNT11 with a 2.5-fold increase. Conclusions: This study has identified several major CNAs in oral cancer genomes and indicated that this correlates with over expression of the ISG15, WNT11, and Nestin genes.",
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    T1 - Genome-wide analysis of oral squamous cell carcinomas revealed over expression of ISG15, Nestin and WNT11

    AU - Vincent-Chong, V. K.

    AU - Ismail, S. M.

    AU - Rahman, Z. A A

    AU - Sharifah, N. A.

    AU - Anwar, A.

    AU - Pradeep, P. J.

    AU - Ramanathan, A.

    AU - Karen-Ng, L. P.

    AU - Kallarakkal, T. G.

    AU - Mustafa, W. M W

    AU - Abraham, M. T.

    AU - Tay, K. K.

    AU - Zain, R. B.

    PY - 2012/7

    Y1 - 2012/7

    N2 - Background: Multistep pathways and mechanisms are involved in the development of oral cancer. Chromosomal alterations are one of such key mechanisms implicated oral carcinogenesis. Therefore, this study aims to determine the genomic copy number alterations (CNAs) in oral squamous cell carcinoma (OSCC) using array comparative genomic hybridization (aCGH) and in addition attempt to correlate CNAs with modified gene expression. Materials and Methods: Genome-wide screening was performed on 15 OSCCs using high-density aCGH. On the basis of pathway analysis, three genes (ISG15, Nestin and WNT11) which mapped to CNA regions were selected for further evaluation of their mRNA expression using quantitative reverse transcriptase PCR (qRT-PCR). Results: Copy number alterations were observed on multiple genomic regions, including amplifications on 1p, 3q, 5p, 6p, 7p, 8q, 9q, 11q, 12q, 16p, 18p and deletions on 3p, 7q, 8p, 11q, 19q and 20q. Among the three selected genes, ISG15 had the highest mRNA expression level with a 22.5-fold increase, followed by Nestin with a 4.5-fold increase and WNT11 with a 2.5-fold increase. Conclusions: This study has identified several major CNAs in oral cancer genomes and indicated that this correlates with over expression of the ISG15, WNT11, and Nestin genes.

    AB - Background: Multistep pathways and mechanisms are involved in the development of oral cancer. Chromosomal alterations are one of such key mechanisms implicated oral carcinogenesis. Therefore, this study aims to determine the genomic copy number alterations (CNAs) in oral squamous cell carcinoma (OSCC) using array comparative genomic hybridization (aCGH) and in addition attempt to correlate CNAs with modified gene expression. Materials and Methods: Genome-wide screening was performed on 15 OSCCs using high-density aCGH. On the basis of pathway analysis, three genes (ISG15, Nestin and WNT11) which mapped to CNA regions were selected for further evaluation of their mRNA expression using quantitative reverse transcriptase PCR (qRT-PCR). Results: Copy number alterations were observed on multiple genomic regions, including amplifications on 1p, 3q, 5p, 6p, 7p, 8q, 9q, 11q, 12q, 16p, 18p and deletions on 3p, 7q, 8p, 11q, 19q and 20q. Among the three selected genes, ISG15 had the highest mRNA expression level with a 22.5-fold increase, followed by Nestin with a 4.5-fold increase and WNT11 with a 2.5-fold increase. Conclusions: This study has identified several major CNAs in oral cancer genomes and indicated that this correlates with over expression of the ISG15, WNT11, and Nestin genes.

    KW - Array comparative genomic hybridization

    KW - ISG15

    KW - Nestin

    KW - Oral cancer

    KW - WNT11

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