Table S11. Information on replication cohorts.

Case Collection / Control Collection / Geographical, Origin / Case Antibody Status / Cases / Controls / Genotyping Platform / Case-Control Stratification Correction / Name RA repl cohort
Replication CD / Irish / Irish / Ireland / n/a / 605 / 805 / iPlex BI / Geographically matched / n/a
2169 cases; / Italian / Italian / Italy / n/a / 996 / 824 / iPlex BI / Geographically matched / n/a
2255 controls / Polish / Polish / Poland / n/a / 568 / 626 / iPlex BI / Geographically matched / n/a
Replication RA / Dutch / Dutch / The Netherlands / 100% RF+ or CCP+ / 782 / 1896 / iPlex BI / Geographically matched / R1
I2b2 / I2b2 / North America / 100% CCP+ / 782 / 1166 / iPlex BI / Ancestry informative marker data matching / R2
2845 cases; / Genomics Collaborative Initiative (GCI) / GCI / North America / 100% RF+ / 461 / 454 / Allele specific PCR / Epidemiologically matched / R3
4944 controls / Leiden University Medical Center (LUMC) / LUMC / Leiden, The Netherlands / 100% RF+ or CCP+ / 336 / 702 / Allele specific PCR / Geographically matched / R4
NARAC II / Shared controls / North America / 100% CCP+ / 484 / 726 / NIAMS / Ancestry informative marker data matching / R5

Case-control collections included to the replication step in CD (top panel) and RA (bottom panel). For each collection, we list the source of controls, geographic origin, autoantibody status of RA cases, numbers of cases and controls, genotyping platform and genotyping center, and the strategy used to correct for case-control population stratification. See Materials and Methods for additional details. NIAMS –National Institute of Arthritis and Musculoskeletal and Skin Diseases.