This shows you the differences between two versions of the page.
|
introduction [2012/10/02 07:30] lgarcia [What can you get using Network Miner?] |
introduction [2017/05/24 14:37] (current) |
||
|---|---|---|---|
| Line 1: | Line 1: | ||
| + | ====== Introduction ====== | ||
| + | ---- | ||
| + | \\ | ||
| + | ====== What can you get using Network Miner? ======= | ||
| + | ---- | ||
| + | \\ | ||
| + | You have obtained a ranked list of proteins or genes ordered from some particular experiment (e.g. they are the result of a differential expression analysis, from a GWAS or they have an interesting impact on phenotype like cell cycle, etc). From this list of proteins/genes, you want to use protein-protein interaction data to find out their possible role as a protein complex, as a signaling pathway, etc. Network Miner looks for **significant subnetworks of protein-protein interactions within a list of ranked genes/proteins** to find out their possible role as a protein complex, as a signalling pathway, etc. | ||
| + | The program also offers the option of defining //seed genes//. These //seed genes// are genes known to be associated with the phenotype of interest and therefore you want to analyse the network relationship between you ranked list and them. | ||
| + | |||
| + | Moreover, the result is presented in a **network viewer box**. Different layouts are possible that implement different algorithms for distributing the net components in different ways. Furthermore, different backgrounds, including different **cell views** over which the network can be represented. | ||
| + | |||
| + | {{ :cell.png?nolink& |}} | ||
| + | |||
| + | ====== Location ======= | ||
| + | ---- | ||
| + | \\ | ||
| + | Network Miner is located at **Functional profiling **>** Set enrichment analysis** section in **Babelomics suite** http://babelomics.bioinfo.cipf.es/. Network Miner works in modern web browsers such as Google Chrome 14+, Microsoft Internet Explorer 9, Mozilla Firefox 6+ or Apple Safari 5+. | ||
| + | |||
| + | |||
| + | [[http://babelomics.bioinfo.cipf.es/functional.html|{{:go_to_networkminer.png?}}]] | ||