<commit_before>{
 "cells": [
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "# Gene Expression Data Preprocessing<a id='top'></a>\n",
    "**Sections:**<br>\n",
    "[0) Description](#0)<br>\n",
    "[1) Importing Modules and Packages](#1)<br>\n",
    "[2) Configuration](#2)<br>\n",
    "[3) Loading Gene Ontology](#3)<br>\n",
    "[4) Loading Genes and Annotations](#4)<br>\n",
    "[5) Loading Gene Expression data](#5)<br>\n",
    "[6) Computing Absolute Pearson Correlation](#6)<br>\n",
    "[7) Saving the Results](#7)<br>\n"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## Description<a id='0'></a>\n",
    "\n",
    "**Aim:** This jupyter notebook results in Gene Expression data of species of interest (e.g., _human_ or *yeast*) with which the deepSimDEF networks would be trained and evaluatied.\n",
    "\n",
    "---\n",
    "**Output file format:** (space separated)<br>\n",
    "_gene1_ _gene2_ _coexpression_correlation_ <br>\n",
    "CD44 ARHGEF1 0.56<br>\n",
    "POLR2G CTDP1 0.21<br>\n",<commit_msg>add gene expression data<commit_after>{
 "cells": [
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "# Gene Expression Data Prepration<a id='top'></a>\n",
    "**Sections:**<br>\n",
    "[0) Description](#0)<br>\n",
    "[1) Importing Modules and Packages](#1)<br>\n",
    "[2) Configuration](#2)<br>\n",
    "[3) Loading Gene Ontology](#3)<br>\n",
    "[4) Loading Genes and Annotations](#4)<br>\n",
    "[5) Loading Gene Expression data](#5)<br>\n",
    "[6) Computing Absolute Pearson Correlation](#6)<br>\n",
    "[7) Saving the Results](#7)<br>\n"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## Description<a id='0'></a>\n",
    "\n",
    "**Aim:** This jupyter notebook results in Gene Expression data of species of interest (e.g., _human_ or *yeast*) with which the deepSimDEF networks would be trained and evaluatied.\n",
    "\n",
    "---\n",
    "**Output file format:** (space separated)<br>\n",
    "_gene1_ _gene2_ _coexpression_correlation_ <br>\n",
    "CD44 ARHGEF1 0.56<br>\n",
    "POLR2G CTDP1 0.21<br>\n",
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