Supplementary data
Cohorts of IBD patients and control individuals.
Patients included in this study were recruited through the “Département de Gastroenterologie” at the Hopital de l’Archet II CHRU-Nice, France or the “Service des Maladies de l’Appareil Digestif et de la Nutrition” CHRU-Lille, France.
Samples from CHRU-Nice:
Ileal and colonic biopsie specimens were obtained from 49 patients with ulcerative colitis (38 + 5 years; 24 females and 25 males), 59 patients with Crohn Disease (34 + 6 years;
31 males and 28 females) and 55 control patients (52 + 5 years; 41 males and 11 females) who underwent an endoscopy for digestive symptoms (diverticulis) or for cancer screening program. The histological diagnosis was done by a senior pathologist (PH).
Patients gave signed informed consent and the study protocol was approved by the ethic committee of the CHRU of Nice (N° DRCVI= 2007-48). Frozen samples were stored at - 80°C before DNA or RNA extraction. Other samples were fixed in 10% formalin and paraffin embedded in order to set up tissue microarrays (TMAs).
Samples from CHRU-Lille:
Colonic samples were obtained from 15 patients with UC (mean age at the time of surgery: 40 ± 3.0 years; male=4), 10 patients with CD (mean age at the time of surgery: 38 ± 3.7 years; male=2) and 12 controls (mean age at the time of surgery: 57
± 3.9 years; male=5; 7 patients with colorectal neoplasia and 5 patients with surgery for diverticulis) who underwent surgery. The diagnosis of CD or UC was based on the usual criteria. All biopsies were taken away from inflammatory lesions. All patients gave written informed consent, and the study protocol was approved by the local committee (agreement N° DC-2008-642). Ethical guidelines in studies on humans were followed under the supervision of an investigator, and human samples were declared to Inserm according to French laws (articles L. 1243-3 and R. 1243-49, and the Code de la Santé Publique). Frozen samples were stored at -80°C before DNA or RNA extraction. Other samples were fixed in 10% formalin and paraffin embedded in order to set up tissue microarrays (TMAs).
For SNP screening and enzymatic assays on blood samples additional samples were collected from IBD patients and controls individuals originating from other cohorts. The IBD cohort consists of 220 individuals (132 CD, 45 UC and 43 non-annotated), 50% were males, the mean age at time of inclusion was 34.6 ± 10.9 and the mean age at time of diagnosis was 23.6 ± 9.4. The diagnosis of CD and UC was based on standard clinical,
endoscopic, radiological and histological criteria. Written, informed consent was obtained from all study participants and the protocol was approved by the institutional ethical review committee of the university hospital of Lille (agreement N° CP 05/86).
Control samples consist of 195 individuals including 100 patients with Parkinson (56%
males, mean age: 68 + 5) and 95 of healthy volunteers (59% males, mean age: 38 + 7). Anonymized DNA collection from healthy donors was registered to French "Ministère de l'Enseignement Supérieur et de la Recherche" with the number: DC-2008-642 (Department of Toxicology and Genopathy, CHRU Lille).