This is an old revision of the document!
In-silico knockout and over expression
Metabolizer allows you to simulate knockout (KO) and/or over-expression (OE) of one or several genes or the effect of a drug in metabolic module genes.
2 different usage of Knockout tool exist:
1) Using sample
- If you upload expression data for 1 sample, you do not need to upload design data and can not use auto knockout option.
2) Using a dataset (Multiple Samples)
- Class probability
- Auto knockout
- Select sample
The tool can be accessed from the main menu bar, by clicking on the Knockout button, see Workflow for further information.
INPUT
The main page of the tool is its filling in form. This form includes all the information and parameters that the tool needs to process a job. The form is divided in different panels:
Once the form has been filled in, press the Launch job button to launch a job. Your job will be listed in the My jobs panel, see Workflow for further information.
OUTPUT
The results page of the Differential signaling tool includes different output results. You can download any table or image showed in the results page by clicking on the name right above it. You can also download calculated module activity values and statistical results by clicking on Module values and Path significance respectively. Using module activity values clustering of the samples are represented with heatmap and Principal component analysis (PCA) plots
The results are divided in different panels: