Isotretinoin Does Not Increase the Risk of Inflammatory Bowel Disease: A TriNetX Retrospective Cohort Analysis

December 2025 | Volume 24 | Issue 12 | 1168 | Copyright © December 2025


Published online November 25, 2025

Neal Gupta MDa,b, Maile Ray D.Sc MPHc,d, Ashley Shayya MPHc, Sandra McGinnis PhDc, Justin Marson a,b, Jared Jagdeo MD MSa,b

aDermatology Service, Veterans Affairs New York Harbor Healthcare System - Brooklyn Campus, Brooklyn, NY
bDepartment of Dermatology, State University of New York, Downstate Health Sciences University, Brooklyn, NY
cCenter for Human Services Research, State University of New York, University at Albany, Albany, NY
dDepartment of Health Policy, Management, and Behavior, College of Integrated Health Sciences, State University of New York, University at Albany, Albany, NY

Abstract
Background: Background: The increasing use of long-term, low-dose isotretinoin for acne has raised concerns about a potential association with inflammatory bowel disease (IBD), including Crohn's disease and ulcerative colitis.
Objective: To evaluate the association between isotretinoin therapy and the risk of IBD using a large real-world database.
Methods: We conducted a retrospective cohort study utilizing the TriNetX network. Patients with acne who received isotretinoin were compared to acne patients who were not exposed to isotretinoin. Propensity score matching (1:1) was performed to balance baseline characteristics. Patients were followed for 6 to 10 years post-exposure. Primary outcomes included incidence of IBD, Crohn's disease, and ulcerative colitis. Secondary outcomes included irritable bowel syndrome (IBS), fecal calprotectin elevation, and elevated lipid levels. Hazard ratios (HRs) were calculated using Cox proportional hazards models.
Results: Among 81,641 isotretinoin-exposed and 1,876,038 unexposed patients, 61,894 matched pairs were analyzed. Isotretinoin use was not associated with increased risk of IBD (HR: 0.88, 95% CI: 0.49–1.57) or ulcerative colitis (HR: 1.05, 95% CI: 0.78–1.41), and was associated with decreased risk of Crohn's disease (HR: 0.69, 95% CI: 0.51–0.94). IBS and fecal calprotectin elevation were not significantly different between groups. Lipid levels in the isotretinoin group were transiently elevated.
Conclusion: Long-term isotretinoin therapy does not increase the risk of IBD in acne patients.

 

INTRODUCTION

Acne vulgaris is one of the most common chronic dermatologic conditions globally and often significantly affects quality of life. For moderate to severe and treatment-resistant acne, oral isotretinoin remains one of the most effective therapies.1,2 Although isotretinoin is often used short-term, there is increasing interest in prolonged or repeated low-dose therapy and off-label applications for chronic dermatoses. These evolving use patterns have renewed concerns about the drug's long-term safety. A major concern that has been raised in the past was a potential association between isotretinoin use and inflammatory bowel disease (IBD), including Crohn's disease and ulcerative colitis.3,6 Initial reports were based on case series or claims-based cohort studies, which lacked long-term follow-up, robust adjustment for confounders such as antibiotic exposure, or clinical detail.5,6 More recent studies have questioned the validity of this association and even proposed a potential protective effect of isotretinoin.7,10 However, findings remain inconsistent, and definitive conclusions are lacking. To address this question with greater clarity, we used the TriNetX network to conduct a large retrospective cohort study of acne patients with and without isotretinoin exposure. Our study differs from prior analyses in several ways. First, it utilizes real-world clinical data from multiple health systems and includes not only diagnostic codes, but laboratory values such as fecal calprotectin and low-density lipoprotein (LDL) levels. Unlike earlier studies based solely on administrative claims, our analysis included real-world laboratory data allowing for a more clinically meaningful assessment of intestinal inflammation and metabolic effects.

Second, we evaluated outcomes at 6-12 months, 5 years, and 10 years post-treatment, enabling a more comprehensive view of long-term risk. Finally, we used propensity score matching that controlled for relevant clinical covariates, including prior systemic antibiotic exposure which is a potential confounder that may have biased previous results.