Table 4.
Candidate disease-associated clonotypes. The table is divided into three parts. [A] TCRβ clonotypes which were identified as possibly disease-associated from both VDJrec and McNemar tests. [B] Possible disease-associated TCRβ clonotypes, top hits from McNemar test. [C] Possible disease-associated TCRα clonotypes, top hits from McNemar test. In addition to describing the clonotypes by their CDR3 region and V and J genes, the last four columns of the table describe the number of IBD discordant twin pairs in which these clonotypes where observed.
| CDR3 sequence | V gene | J gene | Present in both twins | Present only in IBD twin | Present only in healthy twin | Not present | |
|---|---|---|---|---|---|---|---|
| A | CASSFVAGTDTQYF | TRBV28 | TRBJ2-3 | 4 | 6 | 0 | 14 |
| CASSLAGGDQPQHF | TRBV5-5 | TRBJ1-5 | 0 | 8 | 0 | 16 | |
| CASSLDGTGPYNEQFF | TRBV7-2 | TRBJ2-1 | 0 | 6 | 0 | 18 | |
| CASSLGQGGTYEQYF | TRBV7-2 | TRBJ2-7 | 0 | 6 | 0 | 18 | |
| CASSPGTANSPLHF | TRBV5-1 | TRBJ1-6 | 1 | 8 | 0 | 15 | |
| CASSPPGQGGEKLFF | TRBV18 | TRBJ1-4 | 0 | 8 | 1 | 15 | |
| CASSPSGGRQPQHF | TRBV18 | TRBJ1-5 | 0 | 6 | 0 | 18 | |
| CASSQGQGAGQPQHF | TRBV3-1 | TRBJ1-5 | 0 | 8 | 1 | 15 | |
| CASSVRSSYEQYF | TRBV19 | TRBJ2-7 | 0 | 6 | 0 | 18 | |
| CSARRQGGTEAFF | TRBV20-1 | TRBJ1-1 | 1 | 9 | 1 | 13 | |
| B | CASSPGGTYEQYF | TRBV5-1 | TRBJ2-7 | 2 | 10 | 0 | 12 |
| CASSLVGGDTEAFF | TRBV5-1 | TRBJ1-1 | 3 | 9 | 0 | 12 | |
| CAWSVRGNTEAFF | TRBV30 | TRBJ1-1 | 0 | 9 | 0 | 15 | |
| CASSLAGGDQPQHF | TRBV5-5 | TRBJ1-5 | 0 | 8 | 0 | 16 | |
| CASSLALAGGTDTQYF | TRBV5-1 | TRBJ2-3 | 1 | 8 | 0 | 15 | |
| CASSLEGRSSYEQYF | TRBV5-1 | TRBJ2-7 | 0 | 8 | 0 | 16 | |
| CASSLGGGTYEQYF | TRBV7-2 | TRBJ2-7 | 1 | 8 | 0 | 15 | |
| CASSLSRNQPQHF | TRBV7-2 | TRBJ1-5 | 0 | 8 | 0 | 16 | |
| CASSLTGNTGELFF | TRBV7-2 | TRBJ2-2 | 1 | 8 | 0 | 15 | |
| CASSLVQGAYNEQFF | TRBV5-1 | TRBJ2-1 | 1 | 8 | 0 | 15 | |
| CASSPGTANSPLHF | TRBV5-1 | TRBJ1-6 | 1 | 8 | 0 | 15 | |
| CASSLRNTGELFF | TRBV12-3 | TRBJ2-2 | 1 | 10 | 1 | 12 | |
| C | CAASSLTGNQFYF | TRAV13-1 | TRAJ49 | 1 | 12 | 0 | 11 |
| CALLGGTSYGKLTF | TRAV9-2 | TRAJ52 | 4 | 11 | 0 | 9 | |
| CAYRSGYNNARLMF | TRAV38-2DV8 | TRAJ31 | 0 | 11 | 0 | 13 | |
| CAAKNDYKLSF | TRAV13-1 | TRAJ20 | 0 | 10 | 0 | 14 | |
| CAEGRDDKIIF | TRAV5 | TRAJ30 | 0 | 10 | 0 | 14 | |
| CAGDGGSQGNLIF | TRAV27 | TRAJ42 | 3 | 10 | 0 | 11 | |
| CALGGLTGGGNKLTF | TRAV6 | TRAJ10 | 0 | 10 | 0 | 14 | |
| CAMSSQGAQKLVF | TRAV12-3 | TRAJ54 | 4 | 10 | 0 | 10 | |
| CAVTPNQAGTALIF | TRAV8-1 | TRAJ15 | 5 | 10 | 0 | 9 | |
| CAVTPTGGFKTIF | TRAV8-6 | TRAJ9 | 1 | 10 | 0 | 13 | |
| CAYRITGNQFYF | TRAV38-2DV8 | TRAJ49 | 11 | 10 | 0 | 3 |
TCR, T cell receptor; IBD, inflammatory bowel disease; V[D]J, variable diversity joining