Table 1. IMGT® reference directory databases for IMGT® tools for analysis of V, C or G domains (nucleotide and AA sequences).
| IMGT® reference directory databases | IMGT® tools | Entry types and examples of applications | Results for V, C or G domainsa |
|---|---|---|---|
| IMGT/V-QUEST reference directory | IMGT/V-QUEST (13–18) | User nucleotide sequences of V-DOMAIN (1 to 50 sequences per analysis, and 1 to 10 sequences with the option ‘Search for insertions and deletions’) (17) | 1. Introduction of IMGT gaps |
| Applications: somatic mutations in chronic lymphocytic leukemia (CLL) prognostic. | 2. Identification of the closest germline V, D and J genes and alleles | ||
| 3. IMGT/JunctionAnalysis results (19,20) | |||
| 4. Translation in different formats | |||
| 5. Description of mutations and AA changes | |||
| 6. Identification of indels and their correction (17) (option). | |||
| 7. IMGT/Automat annotation (21,22) | |||
| 8. IMGT Colliers de Perles (27). | |||
| IMGT/HighV-QUEST (18,23,24) | User NGS nucleotide sequences of V-DOMAIN (up to 500,000 sequences per run)b (23,24) | 1. Introduction of IMGT gaps | |
| Applications: IG and TR immune repertoires and clonotypes in NGS. | 2. Identification of indels and their correction (18) (by default) | ||
| 3. Identification of the closest germline V, D and J genes and alleles | |||
| 4. Translation in different formats | |||
| 5. IMGT/JunctionAnalysis results (19,20) | |||
| 6. Description of mutations and AA changes | |||
| 7. IMGT/Automat annotation (21,22) | |||
| 8. Statistical analysis (24) | |||
| 9. Characterization of the IMGT clonotypes (AA), clonal diversity and expression (24). | |||
| IMGT/DomainSeq reference directory | IMGT/DomainGapAlign (10,25,26) | User AA sequences of V, C and G domains (one to several sequences of same domain type) (25,26) | 1. Introduction of IMGT gaps |
| Applications: IMGT antibody engineering and humanization for V and C. | 2. Identification of the closest genes and alleles (germline V and J for V-DOMAIN) | ||
| 3. Delimitation of the domains | |||
| 4. Description of AA changes | |||
| 5. IMGT Colliers de Perles (53–57) with highlighted AA changes (pink circles online). |
aV: V domain (includes V-DOMAIN of IG and TR and V-LIKE-DOMAIN of IgSF other than IG and TR) (48,49).
C: C domain (includes C-DOMAIN of IG and TR and C-LIKE-DOMAIN of IgSF other than IG and TR) (50).
G: G domain (includes G-DOMAIN of MH and G-LIKE-DOMAIN of MhSF other than MH) (51).
bin September 2014, more than 4 billions of sequences analyzed by IMGT/HighV-QUEST, by 943 users from 40 countries (45% users from USA, 36% from EU, 19% from the remaining world).