Autoimmune Disease Machine Learning Challenge

The goal of the 2024 machine learning challenge was to design algorithms that will enable a more accurate diagnosis of inflammatory bowel disease (IBD), affecting millions of people worldwide. The algorithms created for this three-part challenge will offer a high-resolution view of IBD by integrating pathology images of inflamed gut tissue with spatial transcriptomics data. Genes will be identified that will serve as markers for potential cancerous regions in the gut, facilitating the early detection and treatment of colorectal cancer. The gene panels developed by top performers will be tested in patient samples through lab experiments at the Broad Institute!

The challenge opened on October 28, 2024 with the following deadlines:

  • Crunch 1: due February 7, 2025
  • Crunch 2: due March 21, 2025
  • Crunch 3: due April 18, 2025

Helpful links and information:

The challenge was offered as an IAP course in 2025 for MIT students:

  • 6.S099 Machine Learning Challenge for Biomedical Discoveries
  • Instructors: Caroline Uhler, Paul Blainey, Jonathan Weissman
  • Schedule: Tuesday, Jan. 7 - Thursday, Jan. 30 (Tuesdays and Thursdays, 11:30 a.m. - 1 p.m., room 26-168 and on Zoom)
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