ImmuneDB: a system for the analysis and exploration of high-throughput adaptive immune receptor sequencing data.
As high-throughput sequencing of B cells becomes more common, the need for tools to analyze the large quantity of data also increases. This article introduces ImmuneDB, a system for analyzing vast amounts of heavy chain variable region sequences and exploring the resulting data. It can take as input raw FASTA/FASTQ data, identify genes, determine clones, construct lineages, as well as provide information such as selection pressure and mutation analysis. It uses an industry leading database, MySQL, to provide fast analysis and avoid the complexities of using error prone flat-files.



ImmuneDB is freely available at http://immunedb.comA demo of the ImmuneDB web interface is available at: http://immunedb.com/demo CONTACT: Uh25@drexel.eduSupplementary information: Supplementary data are available at Bioinformatics online.
School of Biomedical Engineering Science and Health Systems, Drexel University, Philadelphia, PA 19104, USA.
Aaron M
AM
Rosenfeld
Department of Pathology and Laboratory Medicine Perelman School of Medicine, University of Pennsylvania, Philadelphia, 19104 PA, USA.
Wenzhao
W
Meng
Department of Pathology and Laboratory Medicine Perelman School of Medicine, University of Pennsylvania, Philadelphia, 19104 PA, USA.
Eline T
ET
Luning Prak
School of Biomedical Engineering Science and Health Systems, Drexel University, Philadelphia, PA 19104, USA.|Department of Microbiology and Immunology, College of Medicine, Drexel University, Philadelphia, PA 19129, USA.
Uri
U
Hershberg
D000818:Animals; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods; D006801:Humans; D011971:Receptors, Immunologic / Q000737:chemistry* / Q000378:metabolism; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software
D011971:Receptors, Immunologic