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Bioinformatics. 2017 Jan 15;33(2):292-293. doi: 10.1093/bioinformatics/btw593. Epub 2016 Sep 11.

ImmuneDB: a system for the analysis and exploration of high-throughput adaptive immune receptor sequencing data.

Author information

1
School of Biomedical Engineering Science and Health Systems, Drexel University, Philadelphia, PA 19104, USA.
2
Department of Pathology and Laboratory Medicine Perelman School of Medicine, University of Pennsylvania, Philadelphia, 19104 PA, USA.
3
Department of Microbiology and Immunology, College of Medicine, Drexel University, Philadelphia, PA 19129, USA.

Abstract

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.

AVAILABILITY AND IMPLEMENTATION:

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.

PMID:
27616708
PMCID:
PMC5254080
DOI:
10.1093/bioinformatics/btw593
[Indexed for MEDLINE]
Free PMC Article

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