Welcome to Oncotator

Oncotator is a web application for annotating human genomic point mutations and indels with data relevant to cancer researchers. Annotations are aggregated from the following resources:

Please see the help page for detailed information regarding all annotations.

Get Started

Upload your input data below. Please note, only GRCh37/hg19 coordinates are supported and there is a maximum of 7500 alterations per input file. If you need additional help, please visit our help page or feel free to contact us directly.

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Upload Mutations

Upload text file of mutations in Oncotator format.

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Paste Mutations

Paste data in Oncotator format or use example.

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Oncotator API

Explore Oncotator's API format.

Latest News

3 December 2014


Our new site is now in Beta... check it out here: http://www.broadinstitute.org/oncotator_beta, and give us feedback at oncotator@broadinstitute.org. If it appears down, please try back later.


3 November 2014


New website coming soon!

We've been hard at work updating the website and we hope to roll out a new version running Oncotator v1.3 under the hood soon. Users will be able to enjoy all the benefits of Oncotator v1.x without having to install the tool locally. In addition, we've re-written both the back and front-ends of the web application, which will allow the team to better maintain the site and add additional features. For a limited time after the rollout, users will be able the access the old site (using Oncotator v 0.4) with a different URL.

Stay tuned for more information.


27 June 2014


The public release of the standalone version is upon us!
The standalone version of Oncotator is free for non-profit use.

Oncotator Download and Install Instructions
Oncotator Documentation


4 January 2013 - Happy New Year



Happy New Year from the Oncotator Team!

Much is planned for Oncotator 2013, including:

  • Standalone version of Oncotator -- Execute your own annotation runs from the command line
  • Support for more file formats, both in and out
  • Easy addition of annotation sources by users

15 October 2011 - Oncotator Resource Updates



The following resources have been updated:

  • Oncotator v0.4.1.8