Transcriptomics,Genomics

Dataset Information

27

MiRNA profiling in relapsed or metastatic HNSCC patients treated with cetuximab and platinum therapy


ABSTRACT: By gene expression profiling (GEP) of head and neck squamous cell carcinomas (HNSCC) we were able to identify candidate biomarkers of progression free survival (PFS) in patients treated with cetuximab-based approaches (Bossi et al, Clinical Cancer Research 2016) . Here, the same samples were used for miRNA expression profiling. Integration of miRNA and gene expression data highlighted 16 miRNAs and 84 genes interconnected in a total of 245 interactions. After feature selection by smoothed t-statistic support vector machine, we identified a network 3 miRNAs and 5 genes that resulted the most relevant in predicting PFS (AUC=0.992). Overall, using a well defined clinical setting we gave the proof of principle that an integrative miRNA-mRNA expression could greatly contribute to refinement of the biology behind and to the potential identification of a predictive model. Overall design: Forty tumor specimens from recurrent/metastatic (RM) HNSCC patients were divided according to PFS following cetuximab-CT treatment in long- (14 patients) and short-PFS (26 patients) as detailed in (Bossi, 2016). Briefly, the study design includes two groups balanced for known prognostic factors (Argiris, 2004) (primary tumor site, performance status, weight loss, prior radiotherapy, tumor grade, residual disease at primary tumor site, age, and gender). Long-PFS had a median PFS of 19 months (range 12–36), while short-PFS had a median PFS of 3 months (range 1–5.5).

INSTRUMENT(S): Agilent-035758 Human miRBASE 16.0 plus 031181 [Probe Name version]

SUBMITTER: Loris De Cecco  

PROVIDER: GSE92595 | GEO | 2017-03-08

SECONDARY ACCESSION(S): PRJNA358220

REPOSITORIES: GEO

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Publications

Integrative miRNA-Gene Expression Analysis Enables Refinement of Associated Biology and Prediction of Response to Cetuximab in Head and Neck Squamous Cell Cancer.

De Cecco Loris L   Giannoccaro Marco M   Marchesi Edoardo E   Bossi Paolo P   Favales Federica F   Locati Laura D LD   Licitra Lisa L   Pilotti Silvana S   Canevari Silvana S  

Genes 20170114 1


This paper documents the process by which we, through gene and miRNA expression profiling of the same samples of head and neck squamous cell carcinomas (HNSCC) and an integrative miRNA-mRNA expression analysis, were able to identify candidate biomarkers of progression-free survival (PFS) in patients treated with cetuximab-based approaches. Through sparse partial least square-discriminant analysis (sPLS-DA) and supervised analysis, 36 miRNAs were identified in two components that clearly separate  ...[more]

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