My research specifically looks at the colorectal tumor's adjacent normal tissue and its small RNA (mainly miRNA) expression and its role as a prognostic marker. Currently I wish to interrogate data from web repositories such as TCGA and evaluate the expression of a few miRNAs that I am interested in?
The problem that I however face is that there are extremely few adjacent normal tissue expression data for miRNA or mRNA in resources such as TCGA for colorectal cancer, making them unsuitable to have a statistically strong cohort for evaluation purposes. Could the research gate community guide me to suitable resources or perhaps suggest alternatives to better approach such an evaluation.
To be clear - (a) I am looking at specifically tumor tissue adjacent normal tissue data, and not a healthy normal based data. This is because I am looking at the tumor micro-environment which will not be available in a healthy individual. (b) I have already identified potential miRNAs through my own analysis of patient samples. I wish to perform the above mentioned analysis to have a stronger validation of my dataset. (c) Blood based expression data for the CRC patients is not suitable for my study.
Thanks.
Did you try GEO DataSets to look for microarray data of your interest? or Genotype-Tissue Expression (GTEx) program
Ref: (GTEx Consortium. The Genotype-Tissue Expression (GTEx) project. Nat. Genet. 45, 580–585 (2013)
@Rosa - Thanks for your input. I have tried both. But with Geo, there are limited datasets that have a large pool (at least 100 patients or more) of tumor and adjacent normal samples. With GTEx, I did not really get any assistance.
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