I am working with Rnaseq and microRnaseq from patients from TCGA. My aim is to download both files from Firebrowse. But I have realised that there are different types of files:
illuminahiseq_mirnaseq-miR_gene_expression (MD5) illuminahiseq_mirnaseq-miR_isoform_expression (MD5) miRseq_Mature_Preprocess (MD5) miRseq_Preprocess (MD5)
I get the first one
mRNAseq_Preprocess (MD5) illuminahiseq_rnaseqv2-junction_quantification (MD5) illuminahiseq_rnaseqv2-exon_quantification (MD5) illuminahiseq_rnaseqv2-RSEM_isoforms_normalized (MD5) illuminahiseq_rnaseqv2-RSEM_genes (MD5) illuminahiseq_rnaseqv2-RSEM_genes_normalized (MD5) illuminahiseq_rnaseqv2-RSEM_isoforms (MD5)
I have discard the first four and the last one.
So, what would you use to compare with microRna, RSEM_genes or RSEM_genes_normalized? And why? My plan is then mix both files by patient ID and do correlations.
Thank you in advance !!