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VDJ-Seq: Deep Sequencing Analysis of Rearranged Immunoglobulin Heavy Chain Gene to Reveal Clonal Evolution Patterns of B Cell Lymphoma
Published on: December 28, 2015
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Utilities for High-Throughput Analysis of B-Cell Clonal Lineages
William D Lees1, Adrian J Shepherd1
1Institute of Structural and Molecular Biology, Birkbeck College, University of London, Malet Street, London WC1E 7HX, UK.
Journal of Immunology Research
|November 4, 2015
Summary
New bioinformatics tools automate the analysis of B-cell lineage trees from next-generation sequencing data. These species-independent utilities support large-scale studies and publication-quality results.
Area of Science:
- Immunology
- Bioinformatics
- Computational Biology
Background:
- Limited tools exist for B-cell lineage tree determination from next-generation sequencing (NGS) data.
- Existing methods may lack flexibility in phylogenetic inference or germline library usage.
Purpose of the Study:
- To present two novel utilities for automated, large-scale analysis of B-cell lineage trees.
- To provide species-independent tools compatible with various phylogenetic methods and antibody germline libraries.
Main Methods:
- Development of two web-accessible and downloadable bioinformatics utilities.
- Implementation of automated analysis pipelines for B-cell repertoire sequencing data.
Main Results:
- The utilities enable automated, large-scale analysis of B-cell lineage trees.
- The tools facilitate the creation of publication-quality results.
- The utilities are species-independent and adaptable to different analysis workflows.
Conclusions:
- The presented utilities significantly enhance the capacity for analyzing B-cell lineage trees from NGS data.
- These tools offer a flexible and automated solution for immunological research.
- The species-independent nature broadens their applicability across diverse research settings.
