# Gene Expression Data Exploration

*Please note, the data present is intended for training purposes only. Information about the data present in this documentation is listed* [*here*](/cohortbrowser/apollo_introduction.md)*.* &#x20;

When gene expression data is present in your data ingestion for the cohort, the Gene Expression tab will appear in the Cohort Browser. The goal of viewing data within the Gene Expression tab is to view gene expression values in your cohort, and to compare between 2 cohorts within the same data base.&#x20;

## Features of the Gene Expression Tab

### Overview of the Gene Expression Tab

Within the Gene Expression Tab, there are the following sections: plots for Gene Expression, where you can search for genes by Gene Symbol or Ensembl ID, and an Expression per Feature table. The tables and figures of the Gene Expression Tab are highlighted in the figure below:&#x20;

<figure><img src="/files/Bj7T4QvKGrVHMZlYN0it" alt=""><figcaption></figcaption></figure>

### Gene Expression Plots

To view gene expression for a specific gene, type the gene symbol or Ensembl ID into the search bar for the charts labelled “Expression Level”. There are 3 options for the plots: Expression Level with a box plot, Expression Level with a histogram, and a Feature Correlation scatter plot between 2 genes.  More than 3 tiles can be added with the “Add Tile” button, and typing in the Gene Symbol or Ensembl ID.&#x20;

#### Expression Level Box Chart&#x20;

For the box plot,  you can see the distribution of the expression level for a given gene by typing in the gene symbol or Ensembl ID to the search bar. You can view the detailed distribution as a violin plot, or as a box plot. The x axis is the distribution of gene expression levels in the cohort and the y axis is the Expression Level.  You can also log 2 or log 10 transform the numeric data. The options to view the detailed distribution are part of the Chart Settings. The Bar Chart with the Violin Plot (detailed distribution) is shown below:&#x20;

<figure><img src="/files/dHaqgvgZWolEny5v8uC9" alt=""><figcaption></figcaption></figure>

#### Expression Level Histogram

For the histogram, you can see the distribution of the expression level for a given gene by typing in the gene symbol or Ensembl ID to the search bar.  You can see the histogram with or without the display statistics. The x axis is the distribution of gene expression levels in the cohort and the y axis is the Expression Level. You can also log 2 or log 10 transform the numeric data. The options to view the detailed distribution are part of the Chart Settings. The histogram with the display statistics settings are shown below:&#x20;

<figure><img src="/files/Ry4atO7CloLDmPuLoa2W" alt=""><figcaption></figcaption></figure>

#### Feature Correlation&#x20;

For the feature correlation, you can see the expression level for a given gene for the x and y axis by typing in the gene symbol or Ensembl ID to the search bar.  You can see the feature correlation with or without the display statistics. The x axis is the gene expression level for one gene and the y axis is the gene expression level for another gene.  The options to view the detailed distribution are part of the Chart Settings. The feature correlation with the display statistics settings are shown below:&#x20;

<figure><img src="/files/HoBUuogVzAdI55Mr1gxG" alt=""><figcaption></figcaption></figure>


---

# Agent Instructions: Querying This Documentation

If you need additional information that is not directly available in this page, you can query the documentation dynamically by asking a question.

Perform an HTTP GET request on the current page URL with the `ask` query parameter:

```
GET https://academy.dnanexus.com/cohortbrowser/cohort_browser/gene-expression-data-exploration.md?ask=<question>
```

The question should be specific, self-contained, and written in natural language.
The response will contain a direct answer to the question and relevant excerpts and sources from the documentation.

Use this mechanism when the answer is not explicitly present in the current page, you need clarification or additional context, or you want to retrieve related documentation sections.
