CoMMpass Interim Analysis¶

The CoMMpass study was designed to collect and release genomic and clinical data in an iterative fashion over the course of the project. This structure ensured that researchers, pharmaceutical partners, and internal MMRF teams had access to high quality data in a timely and reproducible manner. Each Interim Analysis (IA) served as a defined “data cut”, incorporating new patients, new follow-up visits, or refinements to analytical pipelines and quality control standards.

Across the lifespan of CoMMpass, 24 interim analyses were planned, culminating in IA24, the final comprehensive release of harmonized clinical and genomic data for all study participants.

Data Release Framework¶

Each Interim Analysis release contained multiple data layers:

Data Layer	Description	Example Outputs
Clinical Data	Updated patient-level variables (diagnosis, treatments, outcomes)	Clinical.tsv, therapy tables
Genomic Data	WGS/WES VCFs, RNA-seq expression, CNV, SV, and annotation files	.vcf.gz, .maf, .counts.txt
Metadata	Sample identifiers, assay QC metrics, version tracking	Sample manifests, readme logs
Documentation	README, change logs, pipeline versions	IA11_README.txt, JetStream logs

Accessing the Data¶

Historic Interim Analysis (IA) releases can be accessed directly through the Cohort Builder and Repository within the MMRF Virtual Lab. These releases contain summary-level project files (not individual patient-level files).

Follow the steps below to view and download an IA release:

1. Select a Historic IA Release in the Cohort Builder

Navigate to Cohort Builder from the top navigation bar.
Expand the General category.
Open the Project ID card.
Select the IA release you wish to access (e.g., MMRF-COMMPASS-IA22, MMRF-IA11, MMRF-IA15, etc.).

Selecting an IA sets your active cohort to that project-level data package.

2. Navigate to the Repository

Within the IA selected, click Repository in the header.
The Repository will now display only the files associated with the selected IA release.

3. Download Summary Files

Historic IA releases contain project-level summary files. These files can be downloaded individually or added to your Cart for batch download.

Note: Historic IA releases include summary-level files only. Sample-level genomic files (WGS/WES/RNA-seq) are available through the final IA24 release.