While in the past decades nucleic acid analysis has been predominantly carried out using quantitative low- and high-throughput approaches such as qRT-PCR and microarray technology, NGS with its single base resolution is now frequently applied in DNA and RNA testing. Especially for small non-coding RNAs such as microRNAs there is a need for analysis and visualization tools that facilitate interpretation of the results also for clinicians.
We developed miFRame, which supports various standard input formats from NGS data. Our tool carries out quantitative and qualitative analyses for known as well as predicted novel microRNAs and presents the results in a well interpretable manner. Analyses include among others expression analysis of precursors and mature miRNAs, detection of novel precursors and detection of potential iso-microRNAs. Aggregation of results from different users moreover allows for evaluation whether remarkable results, such as novel mature miRNAs, are indeed specific for the respective experimental set-up or are frequently detected across a broad range of experiments.
There are three options available for input. The first option accesses a previously calculated case via case id and passwort. If you visit the web site for the first time you start with option 2 or option 3. Option 2 is mainly the input via mirdeep2 generated arf data. There are examples files how these input files should look like. Option 3 is mainly basecounts input. Here are also example files on how these basecounts files should look like.