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Cosmos Study

Early Childhood Antibiotic Use Not Associated with Increased Celiac Disease Risk

June 24, 2025
Dual-Team Study
Team A:Kersten Bartelt, RNEdward BruntonJoe Deckert, PhD
Team B:Tony Dunnigan, MDEric Barkley

Key Findings

  • Children who receive antibiotics during the first year of life do not have an increased likelihood of celiac disease by age 6 compared to those who did not receive any antibiotics. 

Celiac disease is a chronic autoimmune condition triggered by gluten ingestion.1 Prior studies have speculated that early antibiotic use may disrupt the gut microbiome, potentially increasing susceptibility to autoimmune disorders, including celiac disease.2,3 We aimed to understand the relationship between antibiotics given in early childhood and subsequent diagnoses of celiac disease. 

We studied 597,531 children from birth through age 6 and categorized them based on the number of antibiotic courses the child received in the first year of life. We limited our analysis to antibiotics in the first year of life to avoid potential conflation with antibiotics often prescribed in later childhood as part of an assessment for celiac disease. We included patient demographics, gestational age and delivery method, frequency of outpatient care, number of first year infections, and maternal history of celiac disease in our analysis. 

Overall, while antibiotic use was associated with a lower likelihood of being diagnosed with celiac disease by age 6, this result was only significant for those who had 3-5 prescriptions, as seen in Figure 1.  

Figure 1
Celiac Disease Likelihood by Antibiotic Course Count
Celiac Disease Likelihood by Antibiotic Course Count
Figure 1. The likelihood of a child being diagnosed with celiac disease by age 6 by the number of antibiotic courses they had during the first year of life. 

We found similar results when assessing antibiotic use before age 3, celiac disease by age 3, and in patients without a history of surgery.  


These data come from Cosmos, a dataset created in collaboration with a community of Epic health systems representing more than 300 million patient records from 1,700 hospitals and more than 40,000 clinics from all 50 U.S. states, Lebanon, and Saudi Arabia. This study was completed by two teams that worked independently, each composed of a clinician and research scientists. The two teams came to similar conclusions. Graphics by Brian Olson. 

References

  1. Definition & facts for celiac disease. National Institute of Diabetes and Digestive and Kidney Diseases. April 15, 2025. https://www.niddk.nih.gov/health-information/digestive-diseases/celiac-disease/definition-facts. Accessed April 22, 2025. 
  2. Kołodziej M, Patro-Gołąb B, Gieruszczak-Białek D, et al. Association between early life (prenatal and postnatal) antibiotic administration and coeliac disease: a systematic review. Arch Dis Child. 2019;104(11):1083-1089. doi:10.1136/archdischild-2019-317174 
  3. Kamphorst K, Van Daele E, Vlieger AM, Daams JG, Knol J, van Elburg RM. Early life antibiotics and childhood gastrointestinal disorders: a systematic review. BMJ Paediatr Open. 2021;5(1):e001028. Published 2021 Mar 3. doi:10.1136/bmjpo-2021-001028 

Data Definitions

Study period
Study population
Exposures
Outcomes
Confounders
Outpatient care visit
Celiac disease
Systemic antibiotics
Race and ethnicity
Infections before first birthday
GI Infection
Model specifications