Title :

Vidjil

Author(s) :

Béliard, Aurélien [Auteur]
Service des Maladies du Sang [CHU Lille] [SMS]
Duez, Marc [Auteur]
Centre de Recherche en Informatique, Signal et Automatique de Lille - UMR 9189 [CRIStAL]
Giraud, Mathieu []
Centre de Recherche en Informatique, Signal et Automatique de Lille - UMR 9189 [CRIStAL]
Bioinformatics and Sequence Analysis [BONSAI]
Herbert, Ryan [Auteur]
Centre de Recherche en Informatique, Signal et Automatique de Lille - UMR 9189 [CRIStAL]
Bioinformatics and Sequence Analysis [BONSAI]
Inria Lille - Nord Europe
Rocher, Tatiana [Auteur]
Centre de Recherche en Informatique, Signal et Automatique de Lille - UMR 9189 [CRIStAL]
Salson, Mikael []
Centre de Recherche en Informatique, Signal et Automatique de Lille - UMR 9189 [CRIStAL]
Thonier, Florian [Auteur]
Inria Rennes – Bretagne Atlantique
Service d'immuno-hématologie pédiatrique [CHU Necker]

English keyword(s) :

Cancer
NGS
Bioinformatics
Hematology
Leukemia

HAL domain(s) :

Informatique [cs]/Bio-informatique [q-bio.QM]
Sciences du Vivant [q-bio]/Immunologie/Immunité adaptative
Sciences du Vivant [q-bio]/Médecine humaine et pathologie/Hématologie

English abstract : [en]

Vidjil analyses high-throughput sequencing data from lymphocytes. Vidjil is used for characterizing lymphocyte populations and is especially used in the context of blood cancers. Vidjil is made of three components: an ...
Show more >Vidjil analyses high-throughput sequencing data from lymphocytes. Vidjil is used for characterizing lymphocyte populations and is especially used in the context of blood cancers. Vidjil is made of three components: an algorithm, a visualization browser and a server that allow an analysis of lymphocyte populations containing V(D)J recombinations.Vidjil high-throughput algorithm extracts V(D)J junctions and gathers them into clones. This analysis is based on a spaced seed heuristics and is fast and scalable, as, in the first phase, no alignment is performed with database germline sequences. Each sequence is put in a cluster depending on its V(D)J junction. Then a representative sequence of each cluster is computed in time linear in the size of the cluster. Finally, we perform a full alignment using dynamic programming of that representative sequence against the germline sequences.Vidjil also contains a dynamic browser (with D3JS) for visualization and analysis of clones and their tracking along the time in a MRD setup or in an immunological study.Show less >

Language :

Anglais

Collections :

• Centre de Recherche en Informatique, Signal et Automatique de Lille (CRIStAL) - UMR 9189

Source :

Harvested from HAL