Fig. 7
From: Analysis of miRNA, mRNA, and TF interactions through network-based methods
Integrated analysis of data. The figure shows typical workflow of integrated analysis of miRNA and mRNA data. The analysis starts by selecting samples. Users may choose to perform novel wet lab experiments or to download data from existing databases (e.g., Gene Expression Omnibus [61]). Data may belong to two main categories, e.g., matched and un-matched samples. In the first category, for each mRNA sample, there exists a corresponding miRNA sample and data are usually organized as time series. In the second category, data are grouped into classes. Currently, only the MAGIA 2 web server accepts as input both kinds of data. Considering the analysis of matched samples, the user may benefit from peculiarities of each software. For instance, MAGIA 2 offers the possibility to choose some functions suited for few samples. mirConnX enables the comparison of two conditions (e.g., healthy or diseases). IntegraMiR is particularly suited for expression data grouped into two classes (e.g., healthy vs diseased). dChip-Gemini is a general purpose software