> For the complete documentation index, see [llms.txt](https://help.bioinsight.illumina.com/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://help.bioinsight.illumina.com/partek/partek-flow/tutorials/bulk-rna-seq/visualizing-gene-expression-in-chromosome-view.md). # Visualizing gene expression in Chromosome view From the DESeq2 task report, we can browse to any gene in the Chromosome view. * Click ![Chromosome icon](https://1384254481-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FJVEESmJAPppJ3ijFq5aR%2Fuploads%2Fgit-blob-04cd38e5536f0be01f906e1ab67bbe9d1f7c6980%2Fchromosome-icon.png?alt=media) in the KLHDC7B row to open Chromosome view (Figure 1)

Figure 1. Browsing to a location in Chromosome View

A new tab will open showing KLHDC7B in the Chromosome view (Figure 2).

Figure 2. Viewing in Chromosome view

Chromosome View shows reference genome, annotation, and data set information together aligned at genomic coordinates. Each track has Configure track ![Configure track icon](https://1384254481-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FJVEESmJAPppJ3ijFq5aR%2Fuploads%2Fgit-blob-d13c284a59559aca016b66b849e856b87e7b9f48%2Fconfigure-track-icon.png?alt=media) and Move track ![Move track icon](https://1384254481-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FJVEESmJAPppJ3ijFq5aR%2Fuploads%2Fgit-blob-2546c895805caa1e366d02cbdeced29198c47adf%2Fmove-track-icon.png?alt=media) buttons that can be used to modify each track. The top track shows average number of total count normalized reads for each of the three treatment groups in a stacked histogram. The second track shows the Ensembl annotation. We can add tracks from any data node using Select Tracks. * Click **Select tracks** A pop-up dialog showing the pipeline allows us to choose which data to display as tracks in Chromosome view (Figure 3).

Figure 3. Choosing tracks to display in Chromosome view

* Click **Reads pileup** under Aligned reads on the left-hand side of the dialog * Click **Display selection** to make the change The reads pileup track is now included (Figure 4).

Figure 4. The reads pileup track shows every read in its aligned position on the reference genome

To learn more about Chromosome view, please consult the [Chromosome View](/partek/partek-flow/user-manual/visualizations/chromosome-view.md) user guide. ## Additional Assistance If you need additional assistance, please visit [our support page](http://www.partek.com/support) to submit a help ticket or find phone numbers for regional support. --- # Agent Instructions This documentation is published with GitBook. GitBook is the documentation platform designed so that both humans and AI agents can read, navigate, and reason over technical content effectively. Learn more at gitbook.com. ## Querying This Documentation If you need additional information that is not directly available in this page, you can query the documentation by asking a question. Perform an HTTP GET request on the following URL with the `ask` and `goal` query parameters: ``` GET https://help.bioinsight.illumina.com/partek/partek-flow/tutorials/bulk-rna-seq/visualizing-gene-expression-in-chromosome-view.md?ask=&goal= ``` `ask` is the immediate question: it should be specific, self-contained, and written in natural language. `goal` is what the user is ultimately trying to achieve, the reason they need the answer. Sharing it helps GitBook give you a better, more relevant answer. A goal is most helpful when it describes the outcome the user wants rather than restating the question. For example, with `ask=how do I create an API token`, a goal like `automate deployments from our CI pipeline` lets GitBook tailor the answer to that use case. 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.