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Table 1 IMGT-ONTOLOGY concepts, IMGT Scientific chart rules and examples of IMGT expertised data concepts.

From: IMGT, the international ImMunoGeneTics information system®: a standardized approach for immunogenetics and immunoinformatics

IMGT-ONTOLOGYhttp://imgt.cines.fr/textes/IMGTindex/ontology.html main concepts 5 IMGT Scientific charthttp://imgt.cines.fr/textes/IMGTindex/IMGTchart.html rules [2] Examples of IMGT expertised data concepts [2]
IDENTIFICATION Standardized keywords [5] Specieshttp://imgt.cines.fr/textes/IMGTindex/species.html, molecule typehttp://imgt.cines.fr/textes/IMGTindex/Molecule.html, receptor typehttp://imgt.cines.fr/textes/IMGTindex/receptor.html, chain typehttp://imgt.cines.fr/textes/IMGTindex/chain.html, gene typehttp://imgt.cines.fr/textes/IMGTindex/Genetype.html, structure, functionality, specificity
CLASSIFICATIONhttp://imgt.cines.fr/textes/IMGTindex/Classification.html Reference sequenceshttp://imgt.cines.fr/textes/IMGTindex/reference.html
Standardized IG and TR gene nomenclature (group, subgroup, gene, allele) [5]
Nomenclature of the human IG and TR genes (entry in 1999 in GDB, HGNC [27] and LocusLink at NCBI) [3, 4]
Alignment of alleleshttp://imgt.cines.fr/textes/IMGTindex/AlleleAlignments.html [3, 4]
Nomenclature of the IG and TR genes of all vertebrate species
DESCRIPTION Standardized labels and annotations [5] Core (V-, D-, J-, C-REGION) Prototypes [5]
Labels for sequences
Labels for 2D and 3D structureshttp://imgt.cines.fr/textes/IMGTindex/structure.html
NUMEROTATION IMGT unique numberinghttp://imgt.cines.fr/textes/IMGTindex/numbering.html [14-18] for: V- and V-LIKE-DOMAINshttp://imgt.cines.fr/textes/IMGTScientificChart/Numbering/IMGTIGVLsuperfamily.html [16]
C- and C-LIKE-DOMAINshttp://imgt.cines.fr/textes/IMGTScientificChart/Numbering/IMGTIGVCsuperfamily.html [17]
G- and G-LIKE-DOMAINshttp://imgt.cines.fr/textes/IMGTScientificChart/Numbering/IMGTGsuperfamily.html [18]
Protein displayshttp://imgt.cines.fr/textes/IMGTindex/ProteinDisplays.html
IMGT Colliers de Perleshttp://imgt.cines.fr/textes/IMGTindex/Colliers.html [19]
FR-IMGThttp://imgt.cines.fr/textes/IMGTindex/FR.html and CDR-IMGT delimitations [16]
Structural loops and beta strands delimitations [16, 17]
ORIENTATION Orientation of genomic instances relative to each other Chromosome orientationhttp://imgt.cines.fr/textes/IMGTindex/genomicOrientation.html
Locus orientationhttp://imgt.cines.fr/textes/IMGTindex/genomicOrientation.html
Gene orientationhttp://imgt.cines.fr/textes/IMGTindex/genomicOrientation.html
DNA strand orientationhttp://imgt.cines.fr/textes/IMGTindex/dnaStrand.html
OBTENTION Standardized origin
Standardized methodology [2]