Information Technology Reference
In-Depth Information
alignments by comparison with sequences from the IMGT reference directory, the
FR-IMGT and CDR-IMGT delimitations based on the IMGT unique numbering, the
translation of the input sequences, the display of nucleotide and amino acid muta-
tions compared to the closest IMGT reference sequences, the identification of the
JUNCTION and results from IMGT/JunctionAnalysis (default option), and the
V-REGION IMGT Colliers de Perles. IMGT/V-QUEST provides a synthetic view of
the results when several sequences (up to 50) are analysed in the same run.
1.4.2.2 IMGT/JunctionAnalysis
IMGT/JunctionAnalysis (Yousfi Monod et al. 2004) is a tool, complementary to
IMGT/V-QUEST, which provides a thorough analysis of the V-J and V-D-J junc-
tions which confer the antigen receptor specificity to IG and TR rearranged genes.
IMGT/JunctionAnalysis identifies the D-GENEs and alleles involved in the IGH,
TRB, and TRD V-D-J rearrangements by comparison with the IMGT reference
directory, and delimits precisely the P, N, and D regions. Several hundred junction
sequences can be analysed simultaneously.
1.4.2.3 IMGT/Allele-Align
IMGT/Allele-Align is used for the detection of polymorphisms. It allows the com-
parison of two alleles highlighting the nucleotide and amino acid differences.
1.4.2.4 IMGT/PhyloGene
IMGT/PhyloGene (Elemento and Lefranc 2003) is an easy tool for phylogenetic
analysis of IG and TR variable region (V-REGION) and constant domain
(C-DOMAIN) sequences. This tool is particularly useful in developmental and com-
parative immunology. The users can analyse their own sequences by comparison
with the IMGT standardized reference sequences for human and mouse IG and TR.
1.4.2.5 IMGT/DomainDisplay
IMGT/DomainDisplay provides a display of amino acid sequences per domain (V,
C, or G type domain) for IG, TR, MHC and for RPI (that include IgSF proteins other
than IG and TR, and MhcSF proteins other than MHC), based on the IMGT unique
numbering (Lefranc et al. 2003; Lefranc et al. 2005b; Lefranc et al. 2005c).
1.4.3 IMGT
®
Genetics Web Resources
The IMGT
®
genetic Web resources are compiled in the IMGT Repertoire “Proteins
and alleles” section which includes Protein displays, Alignments of alleles, Tables of
alleles, Allotypes, and Isotypes (Osipova et al. 1999; Dard et al. 2001; Lefranc and
Lefranc 2004).
