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Identifier 000395356
Title Analysis of "old" microarray data of lung cancer reveals hidden pieces of new biological knowledge
Alternative Title Ανάλυση «παλαιών» δεδομένων μικροσυστοιχιών καρκίνου του πνεύμονα αποκαλύπτει κρυμμένα κομμάτια βιολογικής γνώσης
Author Κερκεντζές, Κωνσταντίνος Σ.
Thesis advisor Τσαμαρδινός, Ιωάννης
Reviewer Roe, Oluf Dimitri
Τσακαλίδης, Παναγιώτης
Abstract Lung cancer is histologically and clinically an heterogeneous group of malignant tumours with obscure molecular basis. Currently, thousands of molecular datasets on human cancer are publicly available, which usually are only analysed when they are first pu blished. Novel statistical methods and increasingly more accurate gene annotations can transform "old" biological data into a renewed source of knowledge with potential clinical relevance. In this work, we provide an in - silico proof - of - concept by extractin g novel information from a high quality mRNA expression dataset, originally published in 2001, using state - of - the - art bioinformatics approaches. The dataset consists of histologically defined cases of lung adenocarcinoma, squamous cell carcinoma, small - c ell lung cancer, carcinoid, metastasis (breast and colon adenocarcinoma) and normal lung specimens (203 samples in total). A battery of statistical tests was used for the identification of differential gene expressions, diagnostic and prognostic genes, enr iched gene ontologies and signaling pathways. Furthermore, a validation of our procedure was performed by analysing two more datasets and testing the concordance among the results of all three of them. The results of the reanalysis of this public dataset displayed the known biological features of lung cancer subtypes. Moreover, novel pathways of potentially clinical importance were revealed. Finally, the findings also support our hypothesis that even old omics data of high quality can be a source of significant biological information when appropriate bioinformatics methods are used
Language English, Greek
Subject mRNA expression
Έκφραση mRNA
Καρκίνος του πνεύμονα
Issue date 2015-07-17
Collection   School/Department--School of Sciences and Engineering--Department of Computer Science--Post-graduate theses
  Type of Work--Post-graduate theses
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