VDJbase: an adaptive immune receptor genotype and haplotype database.

Szczegóły
Abstrakt

Tytuł:: VDJbase: an adaptive immune receptor genotype and haplotype database.
Autorzy:: Omer A; Bioengineering, Faculty of Engineering, Bar-Ilan University, Ramat Gan 5290002, Israel.
Shemesh O; Bioengineering, Faculty of Engineering, Bar-Ilan University, Ramat Gan 5290002, Israel.
Peres A; Bioengineering, Faculty of Engineering, Bar-Ilan University, Ramat Gan 5290002, Israel.
Polak P; Bioengineering, Faculty of Engineering, Bar-Ilan University, Ramat Gan 5290002, Israel.
Shepherd AJ; Institute of Structural and Molecular Biology, Birkbeck, University of London, London, UK.
Watson CT; University of Louisville School of Medicine, Biochemistry and Molecular Genetics, Louisville, KY 40292, USA.
Boyd SD; Department of Pathology, Stanford University, Stanford, CA 94305, USA.
Collins AM; School of Biotechnology and Biomolecular Sciences, University of NSW, Kensington, Sydney, NSW 2052, Australia.
Lees W; Institute of Structural and Molecular Biology, Birkbeck, University of London, London, UK.
Yaari G; Bioengineering, Faculty of Engineering, Bar-Ilan University, Ramat Gan 5290002, Israel.
Źródło:: Nucleic acids research [Nucleic Acids Res] 2020 Jan 08; Vol. 48 (D1), pp. D1051-D1056.
Typ publikacji:: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
Język:: English
Imprint Name(s):: Publication: 1992- : Oxford : Oxford University Press
Original Publication: London, Information Retrieval ltd.
MeSH Terms:: Databases, Genetic*
Genotype*
Haplotypes*
V(D)J Recombination*
Computational Biology/*methods
Receptors, Immunologic/*genetics
Humans ; Molecular Sequence Annotation ; Receptors, Antigen, B-Cell/genetics ; Receptors, Antigen, T-Cell/genetics ; Software ; Software Design ; Web Browser ; Workflow
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Grant Information:: R01 AI127877 United States AI NIAID NIH HHS; R01 AI125567 United States AI NIAID NIH HHS; R01 AI130398 United States AI NIAID NIH HHS
Substance Nomenclature:: 0 (Receptors, Antigen, B-Cell)
0 (Receptors, Antigen, T-Cell)
0 (Receptors, Immunologic)
Entry Date(s):: Date Created: 20191012 Date Completed: 20200518 Latest Revision: 20200518
Update Code:: 20240105
PubMed Central ID:: PMC6943044
DOI:: 10.1093/nar/gkz872
PMID:: 31602484
: Czasopismo naukowe

Full Text Finder

VDJbase is a publicly available database that offers easy searching of data describing the complete sets of gene sequences (genotypes and haplotypes) inferred from adaptive immune receptor repertoire sequencing datasets. VDJbase is designed to act as a resource that will allow the scientific community to explore the genetic variability of the immunoglobulin (Ig) and T cell receptor (TR) gene loci. It can also assist in the investigation of Ig- and TR-related genetic predispositions to diseases. Our database includes web-based query and online tools to assist in visualization and analysis of the genotype and haplotype data. It enables users to detect those alleles and genes that are significantly over-represented in a particular population, in terms of genotype, haplotype and gene expression. The database website can be freely accessed at https://www.vdjbase.org/, and no login is required. The data and code use creative common licenses and are freely downloadable from https://bitbucket.org/account/user/yaarilab/projects/GPHP.
(© The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.)

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