habiotech / differentially-expressed-genes-analysis

Making an analysis over the differentially expressed genes, given gene expression data for tumor and normal conditions, about 58 patients.

Differentially-Expressed-Genes-Analysis

In this repository, I made an analysis over the differentially expressed genes, i.e. the genes whose expressions change significantly passing from a normal to a tumor condition.

In particular, here there are the 3 tasks:

• Step 1:

Compute co-expression network using Fold-Change values;

• Step 2:

Compare hubs sets related to the use of different centrality measures;

• Step 3:

Only considering degree index, are the hubs up or down regulated?

Repository description

• lab_DE.ipynb:

a notebook with the code.

• THCA_GeneExpressionData.xlsx:

excel file with our data;

• betweenness_centrality.txt:

txt file generated by the code, with computed centrality measures.