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IMGT/V-QUEST: IMGT Standardized Analysis of the Immunoglobulin (IG) and T Cell Receptor (TR) Nucleotide Sequences
Abstract
INTRODUCTION: IMGT/V-QUEST is the integrated online IMGT tool for the standardized analysis of the immunoglobulin (IG) or antibody and T cell receptor (TR) rearranged nucleotide sequences. The analysis of these antigen receptors represents a crucial challenge for the study of the adaptative immune response in normal and disease-related situations. The expressed IG and TR repertoires represent a potential of 10 12 IG and 10 12 TR per individual. This huge diversity results from mechanisms that occur at the DNA level during IG molecular synthesis, including the combinatorial rearrangement of the variable (V), diversity (D), and joining (J) genes, the N diversity (V, D, and J exonuclease trimming and addition at random of nucleotides by the terminal deoxynucleotidyl transferase during the V-(D)-J rearrangement) and, for IG, somatic hypermutations. IMGT/V-QUEST, as described here, identifies the V, D, J genes and alleles by alignment with the germline IG and TR gene and allele sequences of the IMGT reference directory. The tool describes the V-REGION mutations and identifies the hot spot positions in the closest germline V gene. IMGT/V-QUEST integrates IMGT/JunctionAnalysis for a detailed analysis of the V-J and V-D-J junctions and IMGT/Automat for a complete sequence annotation of the sequences, and provides IMGT Collier de Perles.
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Brochet, X., Lefranc, M.-P., & Giudicelli, V. (2008) · Nucleic Acids Research · doi:10.1093/nar/gkn316 · Cited by 1,216
Self-citationIMGT(R), the international ImMunoGeneTics information system(R)
Lefranc, M.-P., Giudicelli, V., Ginestoux, C., Jabado-Michaloud, J., Folch, G., Bellahcene, F., Wu, Y., Gemrot, E., Brochet, X., Lane, J., et al. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkn838 · Cited by 1,119
Self-citationLefranc, M.-P., Pommié, C., Ruiz, M., Giudicelli, V., Foulquier, E., Truong, L., Thouvenin-Contet, V., & Lefranc, G. (2003) · Developmental & Comparative Immunology · doi:10.1016/s0145-305x(02)00039-3 · Cited by 818
Self-citationLefranc, M.-P., Pommié, C., Kaas, Q., Duprat, E., Bosc, N., Guiraudou, D., Jean, C., Ruiz, M., Da Piédade, I., Rouard, M., et al. (2005) · Developmental & Comparative Immunology · doi:10.1016/j.dci.2004.07.003 · Cited by 807
Self-citationIMGT/GENE-DB: a comprehensive database for human and mouse immunoglobulin and T cell receptor genes
Giudicelli, V. (2004) · Nucleic Acids Research · doi:10.1093/nar/gki010 · Cited by 546
Self-citationStamatopoulos, K., Belessi, C., Moreno, C., Boudjograh, M., Guida, G., Smilevska, T., Belhoul, L., Stella, S., Stavroyianni, N., Crespo, M., et al. (2007) · Blood · doi:10.1182/blood-2006-03-012948 · Cited by 534
Alamyar, E., Duroux, P., Lefranc, M.-P., & Giudicelli, V. (2012) · Methods in Molecular Biology · doi:10.1007/978-1-61779-842-9_32 · Cited by 484
Self-citationLefranc, M., & Lefranc, M. (2001) · Cited by 367
Self-citationMonod, M. Y., Giudicelli, V., Chaume, D., & Lefranc, M.-P. (2004) · Bioinformatics · doi:10.1093/bioinformatics/bth945 · Cited by 338
Self-citationIMGT standardized criteria for statistical analysis of immunoglobulin V‐REGION amino acid properties
Pommié, C., Levadoux, S., Sabatier, R., Lefranc, G., & Lefranc, M. (2004) · Journal of Molecular Recognition · doi:10.1002/jmr.647 · Cited by 314
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Metadata
- Authors
- Giudicelli, V., Brochet, X., & Lefranc, M.-P.
- Venue
- Cold Spring Harbor Protocols
- Publisher
- Cold Spring Harbor Laboratory
- Published
- 2011-06
- Volume
- 2011
- Issue
- 6
- Pages
- pdb.prot5633
- ISSN
- 1559-6095 (ISSN-L)
- 1940-3402
- OpenAlex
- W2022039028
- Cited by
- 379
- References
- 33
- Type
- posted content
- Language
- en
- Open access
- closed
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- Giudicelli, V., Brochet, X., & Lefranc, M.-P. (2011). IMGT/V-QUEST: IMGT Standardized Analysis of the Immunoglobulin (IG) and T Cell Receptor (TR) Nucleotide Sequences. Cold Spring Harbor Protocols. https://doi.org/10.1101/pdb.prot5633
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