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clarisse-lau committed Apr 15, 2024
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# Accessing Sequence Data via NCI's Cancer Data Service (CDS) Portal
# Accessing Sequence Data via NCI's Cancer Data Service (CDS)

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**NOTE**: dbGaP approval for HTAN study [phs002371](https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs002371.v3.p1) is required in order to access HTAN lower-level genomics data, such as RNAseq FASTQ and BAM files.
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On the Data Explorer page, expand the STUDY section on the left sidebar, scroll down, and check the box next to **Human Tumor Atlas (HTAN) imaging data**.
On the Data Explorer page, expand the STUDY section on the left sidebar, scroll down, and check the box next to **Human Tumor Atlas (HTAN) primary sequence data**.

<p align="center"><img width="891" alt="Figure 2" src="https://github.com/ncihtan/htan_missing_manual/assets/123744798/4a3b97f6-97d6-4c99-b782-88c9a8a74fba"></p>

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## 2. Generating a Manifest File from the HTAN Data Portal

From the [HTAN Data Portal](https://humantumoratlas.org/), click **CDS/SB-CGC (Open Access)** under the **Data Access** filter.
From the [HTAN Data Portal](https://humantumoratlas.org/), click **CDS/SB-CGC (dbGaP)** under the **Data Access** filter.

![HTAN Portal: Accessing Imaging Data in CDS](../img/cds_genomics1.png)
![HTAN Portal: Accessing Genomic Data in CDS](../img/cds_genomics1.png)

Navigate to the **Files** tab, check the box next to **Filename** in upper left, and then click **Download selected files**.
![HTAN Portal: Selecting Imaging Files](../img/cds_genomics2.png)
![HTAN Portal: Selecting Genomic Files](../img/cds_genomics2.png)

Click **Download Manifest**, which will download a local file called `cds_manifest.csv`.
![HTAN Portal: Download DRS Manifest](../img/cds_genomics3.png)
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