Cytogenetic preparations were obtained by brushing the rectal mucosa during proctoscopy. of 61 individuals examined, 33 provided reliable material for chromosomal analysis: 10 normal controls, 5 with Crohn's disease involving the colon, 10 with chronic ulcerative colitis, 4 with ulcerative colitis complicated by cancer of the colon in whom special care was taken to obtain separated samples from both colitic and cancerous tissue, and 4 with cancer of the colon alone. Chromosome count and karyotypes were normal in all controls and patients with Crohn's disease. In chronic ulcerative colitis the modal chromosome number remained in the diploidy range. But aneuploid cells, or possible broken polyploid were seen in 2 patients, and in the inflamed mucosa of 2 other patients with cancer of the colon associated with ulcerative colitis. All these cells were in the hypotetraploidy range. No chromatid breaks were found in the controls and in patients with Crohn's disease, but patients with ulcerative colitis and colon cancer demonstrated a variable number of breaks. Profound abnormalities were demonstrated in patients with carcinoma, characterized by aneuploidy, chromatid breaks and marker chromosomes. This study documents significant chromosomal abnormalities in chronic ulcerative colitis, both in patients with and without colonic cancer.