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ImmuneDB: a system for the analysis and exploration of high-throughput adaptive immune receptor sequencing data.
Rosenfeld, Aaron M; Meng, Wenzhao; Luning Prak, Eline T; Hershberg, Uri.
Affiliation
  • Rosenfeld AM; School of Biomedical Engineering Science and Health Systems, Drexel University, Philadelphia, PA 19104, USA.
  • Meng W; Department of Pathology and Laboratory Medicine Perelman School of Medicine, University of Pennsylvania, Philadelphia, 19104 PA, USA.
  • Luning Prak ET; Department of Pathology and Laboratory Medicine Perelman School of Medicine, University of Pennsylvania, Philadelphia, 19104 PA, USA.
  • Hershberg U; School of Biomedical Engineering Science and Health Systems, Drexel University, Philadelphia, PA 19104, USA.
Bioinformatics ; 33(2): 292-293, 2017 01 15.
Article in En | MEDLINE | ID: mdl-27616708
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.
Subject(s)

Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Software / Receptors, Immunologic / Sequence Analysis, DNA Type of study: Prognostic_studies Limits: Animals / Humans Language: En Journal: Bioinformatics Journal subject: INFORMATICA MEDICA Year: 2017 Type: Article Affiliation country: United States

Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Software / Receptors, Immunologic / Sequence Analysis, DNA Type of study: Prognostic_studies Limits: Animals / Humans Language: En Journal: Bioinformatics Journal subject: INFORMATICA MEDICA Year: 2017 Type: Article Affiliation country: United States