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Deseq2: contains the scripts that we used for DGEA with deseq2 package in R.<br />
Limma: contains the scripts that we used for DGEA with limma package in R.<br />
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Merging: contains scripts that we used for merging the mRNA data after DGEA with limma.

We used following GEO Datasets in total:
miRNA: 
GSE43732: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE43732
GSE6188: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE6188 (discarded)
GSE55857: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE55857 (discarded)

mRNA:
GSE70409: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE70409
GSE29001: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE29001
GSE20347: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE20347
GSE23400: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE23400