Differences

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--- differential_signaling_exercises [2016/02/25 11:49] – mhidalgo
+++ differential_signaling_exercises [2018/12/26 21:08] (current) – krian
@@ Line 14: / Line 14: @@
   * Experimental design: {{:GSE51835-Exercise_ED.txt|}}
-**1.1.-** Run the Differential signaling tool with these files, selecting the option //Color nodes by differential expression//. Take a llok to the results. Which pathways are differentially activated?
+**1.1.-** Run the Differential signaling tool with these files. Take a look to the results. Which pathways are differentially activated?
 **1.2.-** What is the role of the differentially expressed genes in the pathways?
-**1.3.-** Run the Differential signaling tool with these files again, selecting the option //Decompose paths//. Which diferences can you find between the two methods?
@@ Line 33: / Line 31: @@
 Run the Differential signaling tool with these files, selecting the options of both functional analysis //Gene ontology// and //Uniprot keywords//.
-Try to identify representative functions of this experiment (related to the disease). Are there significative functions? Are they related with the disease?
+**2.1.-** Try to identify representative functions of this experiment (related to the disease). Are there significative functions? Are they related with the disease?
+**2.2.-** Look at the Heatmaps provided by the tool for the different analyses. Do you think that a predictor could be trained from these data? With which matrix do you think that it would work better?
@@ Line 45: / Line 45: @@
   * Experimental design: {{:kirc_demo_ED_class.txt|}}
-**3.1.-** Run the Differential signaling tool with these files, selecting also the functional analyses. You can select the option //Color nodes by differentail expression// if desired. Look at the results. If you have done Exercises 1 or 2, can you find any difference in the results of this dataset?
+**3.1.-** Run the Differential signaling tool with these files, selecting also the functional analyses. Find representative paths and functions of this disease.
-**3.2.-** Look at the Heatmaps provided by the tool for the different analyses. Do you think that a predictor could be trained from these data? With which matrix do you think that it would work better?
+**3.2.-** Look at the results. If you have done Exercises 1 or 2, can you find any difference in the results of this dataset?