Search for chromosome rearrangements: New approaches toward discovery of novel translocations in head and neck squamous cell carcinoma

Vivian W. Wang, Rebecca R. Laborde, Yan Asmann, Yang Li, Jian Ma, Bruce W. Eckloff, Nicole M. Tombers, Steven M. Olsen, Eric J. Moore, Kerry D. Olsen, David I Smith

Research output: Contribution to journalArticle

Abstract

Background Chromosome rearrangements that result in gene fusions have important roles in the initial steps of tumorigenesis, especially in leukemias and lymphomas, but the biological and clinical impact of gene fusions in common solid tumors are less understood. The purpose of this study was to discover novel translocations that could result in gene fusions in oropharyngeal squamous cell carcinomas (OPSCCs). Methods Translocations were identified using 2 different bioinformatics pipelines, SnowShoes-FTD and FusionHunter, examining data from 11 paired-end RNA sequencing (RNA-Seq) data in OPSCC. Translocations were validated by RT-PCR and Sanger sequencing analysis. Results Two novel cancer-specific translocations involving MGST3-ZMAT5 and MS4A7-C2CD3 were found in 2 of the tumor samples tested. However, these translocations were found only in the single tumor. Conclusions We hope that this integrative methodology will elucidate key aspects of tumor biology as well as generate novel targets for cancer diagnoses and therapies. Head Neck, 2012

Original languageEnglish (US)
Pages (from-to)831-835
Number of pages5
JournalHead and Neck
Volume35
Issue number6
DOIs
StatePublished - Jun 2013

Fingerprint

Chromosomes
Gene Fusion
Neoplasms
Squamous Cell Carcinoma
RNA Sequence Analysis
Computational Biology
Carcinoma, squamous cell of head and neck
Lymphoma
Carcinogenesis
Leukemia
Head
Polymerase Chain Reaction
Therapeutics

Keywords

  • chromosome
  • fusion genes
  • oropharyngeal
  • solid tumor
  • translocation

ASJC Scopus subject areas

  • Otorhinolaryngology

Cite this

Search for chromosome rearrangements : New approaches toward discovery of novel translocations in head and neck squamous cell carcinoma. / Wang, Vivian W.; Laborde, Rebecca R.; Asmann, Yan; Li, Yang; Ma, Jian; Eckloff, Bruce W.; Tombers, Nicole M.; Olsen, Steven M.; Moore, Eric J.; Olsen, Kerry D.; Smith, David I.

In: Head and Neck, Vol. 35, No. 6, 06.2013, p. 831-835.

Research output: Contribution to journalArticle

Wang, VW, Laborde, RR, Asmann, Y, Li, Y, Ma, J, Eckloff, BW, Tombers, NM, Olsen, SM, Moore, EJ, Olsen, KD & Smith, DI 2013, 'Search for chromosome rearrangements: New approaches toward discovery of novel translocations in head and neck squamous cell carcinoma', Head and Neck, vol. 35, no. 6, pp. 831-835. https://doi.org/10.1002/hed.23037
Wang, Vivian W. ; Laborde, Rebecca R. ; Asmann, Yan ; Li, Yang ; Ma, Jian ; Eckloff, Bruce W. ; Tombers, Nicole M. ; Olsen, Steven M. ; Moore, Eric J. ; Olsen, Kerry D. ; Smith, David I. / Search for chromosome rearrangements : New approaches toward discovery of novel translocations in head and neck squamous cell carcinoma. In: Head and Neck. 2013 ; Vol. 35, No. 6. pp. 831-835.
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