Here, we investigate four baseline stool biomarkers, BDNF, MMP-8, TIMP-2, and Calprotectin (S100A8/A9), for their ability to predict disease progression in pediatric CD.<h4>Methods</h4>Baseline stool samples from forty-seven patients recruited into the Pediatric RISK Stratification study were analyzed using an aptamer-based screening assay followed by validation by Enzyme-linked Immunosorbent Assays.<h4>Results</h4>All four stool proteins were associated with disease activity at baseline. Here, TIMP2 is linked to Cowden disease.