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what_can_do_hipathia_for_you [2016/12/26 13:17] – [Knockout] ccubukwhat_can_do_hipathia_for_you [2017/05/24 14:33] (current) – external edit 127.0.0.1
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 Metabolizer-Knockout allows you to modify the expression value of a set of genes and then check the effect of this change at the level of module activity. In this way, you can simulate effect of knockouts (KO) and over-expressions of one or several genes or the effect of drug(s) in the activity of metabolic modules. Metabolizer-Knockout allows you to modify the expression value of a set of genes and then check the effect of this change at the level of module activity. In this way, you can simulate effect of knockouts (KO) and over-expressions of one or several genes or the effect of drug(s) in the activity of metabolic modules.
 The simulations can be done: The simulations can be done:
-  * Using single sample. This option calculates fold-change of module activity between after and before KO/OE. +  * Using single sample: This option calculates fold-change of module activity between after and before KO/OE. 
-  * Using multiple samples. This option uses one selected sample to calculate effect of in-silico intervention of gene expression on module activity. Rest of the samples are used to train a prediction model. Metabolizer uses this trained model to calculate class probability of selected sample including before and after intervention. +  * Using multiple samples: This option uses one selected sample to calculate effect of in-silico intervention of gene expression on module activity. Rest of the samples are used to train a prediction model. Metabolizer uses this trained model to calculate class probability of selected sample including before and after intervention. 
-  * User can use the options below by selecting single/multiple genes or drug(s) on interactive pathway panel. Metabolizer also allows to auto-KOs. Selecting auto KOs calculates effect of simple KOs using all module genes by one by.   +  * User can use the options above by selecting single/multiple genes or drug(s) on interactive pathway panel. Metabolizer also allows to auto-KOs. Auto-KOs option calculates effect of simple KOs using all module genes by one by.   
  
 In order to check how to use these options please see [[in-silico_knockout:over_expression| Knockout]]. In order to check how to use these options please see [[in-silico_knockout:over_expression| Knockout]].
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   * Using different groups (2 and more groups) of samples.   * Using different groups (2 and more groups) of samples.
  
-In order to check how to use these options please see [[Prediction_Metabolizer|Cooming Soon]]. +In order to check how to use these options please see [[prediction|Prediction]].
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what_can_do_hipathia_for_you.1482758245.txt.gz · Last modified: 2017/05/24 14:33 (external edit)