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Series GSE51010 Query DataSets for GSE51010
Status Public on Feb 02, 2014
Title Gene expression profiling reveals biological pathways responsible for phenotypic heterogeneity between UK and Sri Lankan OSCC
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Background: Oral squamous cell carcinoma (OSCC) is a major world health problem with over 400,000 new cases diagnosed annually. Despite advances in surgery and chemo-radiotherapy, the 5 year survival has remained roughly constant at approximately 50% for several decades. The disease is characterized by both clinical and genetic heterogeneity, so elucidating the molecular basis of this heterogeneity would have significant clinical implications. It is well recognized that OSCCs from Asia that are associated with betel quid chewing are phenotypically distinct from those from the West that are predominantly caused by smoking/drinking, but the genetic basis of these differences are largely unknown. The aim of this study is to examine the most related genetic factors, carcinogenic related pathways, and molecular processes that might be responsible for the phenotypic heterogeneity of OSCC between UK and Sri Lankan population groups. Methods: We have compared the gene expression profiles of OSCCs and normal oral mucosal tissues from both Sri Lankan and UK individuals using Affymetrix gene expression arrays.
Results: The gene expression profiles of UK and Sri Lankan OSCC are similar in many respects to other oral cancer expression profiles reported in the literature and were mainly similar to each other. However, genes involved in tumor invasion, metastasis and recurrence were more obviously associated with UK tumors as opposed to those from Sri Lanka. Interestingly, Ingenuity Pathway Analysis (IPA) revealed a highly activated cell-mediated immune response in both Sri Lankan normal and tumor samples relative to UK cohorts, which may, in part, explain the less aggressive behavior of these betel quid-induced OSCCs. Conclusion: The development of OSCCs in both UK and Sri Lankan populations appears largely mediated by similar biological pathways despite the differences related to race, ethnicity, lifestyle, and/or exposure to environmental carcinogens. However, IPA revealed a highly activated “Cell-mediated Immune Response” in Sri Lankan normal and tumor samples relative to UK cohorts. It seems likely, therefore, that any future attempts to personalize treatment for OSCC patients will need to be different in Western and Asian countries to reflect differences in gene expression and the immune status of the patients.
 
Overall design All biopsy specimens of OSCC and normal oral mucosa were harvested with appropriate ethical approval and informed consent of individual patients (LREC 0769). Identical protocols for tissue collection and processing were used in both countries. OSCC samples were obtained from sequential incident cases treated by a single consultant surgeon from 2001 to 2004 at University Hospital of Birmingham, NHS Foundation Trust, Birmingham, UK, and Kandy General Hospital, Kandy, Sri Lanka. A total of 21 UK and 27 Sri Lankan samples yielded RNA of sufficient quality and quantity for microarray analysis. In addition, 8 normal oral mucosa specimens (five samples from UK & three samples from Sri Lankan population) were also profiled. All normal samples were from non-smokers, who did not chew betel quid and did not consume in excess of the national recommended weekly gender allowance of alcohol. Normal samples were taken from individuals with no history of cancer and had no first degree relatives with a history of cancer.
 
Contributor(s) Saeed AA, Sims AH, Prime SS, Paterson I, Murray PG, Lopes VR
Citation(s) 25560800
Submission date Sep 19, 2013
Last update date Mar 25, 2019
Contact name anas amjad saeed
E-mail(s) anas.nhsuk@yahoo.com
Phone 00447503572732
Organization name edinburgh dental institute
Department oral surgery
Street address Lauriston building
City edinburgh
ZIP/Postal code eh3 9 ha
Country United Kingdom
 
Platforms (2)
GPL201 [HG-Focus] Affymetrix Human HG-Focus Target Array
GPL570 [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array
Samples (56)
GSM1234779 Normal OSC tissue from UK samples, M1
GSM1234780 Normal OSC tissue from UK samples, M2
GSM1234781 Normal OSC tissue from UK samples, M3
Relations
BioProject PRJNA219517

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Supplementary file Size Download File type/resource
GSE51010_RAW.tar 106.7 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table
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