NanoInformatics section - omics

[thomasexner]

Please make the omics section more attractive. Is there anything from Biomax, we can use here. Please also assign this to anybody else, who might be relevant.

[dietermaier]

NanoCommons D5.2 contains an extensive description of the omics tools available in the NC KB.
Here the introductory part. For each section additional details are available in D5.2:

The tools for omics analysis integrated directly into the user interface of the NanoCommons Knowledge Base target non-expert users who will rely on pre-defined analysis methods and parameters without in-depth knowledge of data analysis approaches. The analyses are based on the integration of R-tools1 which have established themselves as the standard for the corresponding analysis approach in the omics data mining expert community. The definition of workflows and default parameters are based on published standards and dedicated research projects.
The basic workflow enables users to:

1. Select experimental data (transcription, protein, metabolome) in the portal;
2. Submit the selected data into a selected analysis tool such as "differential expression". Only analysis methods suitable to the data type and dataset size are available for selection by users;
3. Run the analysis in background;
4. Access the results and store them locally and/or in the NanoCommons KB;
5. Visualise them in a graph;
6. Re-use the results in further analysis, queries and overviews;
7. Make the results available to other users.

The following methods are currently available and are described below in detail:

1. Evaluation of data quality;
2. Normalisation;
3. Differential Expression Analysis;
4. Functional Enrichment Analysis;
5. Network reconstruction.