Network properties derived from deep sequencing of human B-cell receptor repertoires delineate B-cell populations
Author(s)
Type
Journal Article
Abstract
The adaptive immune response selectively expands B- and T-cell clones following antigen recognition by B- and T-cell receptors (BCR and TCR), respectively. Next-generation sequencing is a powerful tool for dissecting the BCR and TCR populations at high resolution, but robust computational analyses are required to interpret such sequencing. Here, we develop a novel computational approach for BCR repertoire analysis using established next-generation sequencing methods coupled with network construction and population analysis. BCR sequences organize into networks based on sequence diversity, with differences in network connectivity clearly distinguishing between diverse repertoires of healthy individuals and clonally expanded repertoires from individuals with chronic lymphocytic leukemia (CLL) and other clonal blood disorders. Network population measures defined by the Gini Index and cluster sizes quantify the BCR clonality status and are robust to sampling and sequencing depths. BCR network analysis therefore allows the direct and quantifiable comparison of BCR repertoires between samples and intra-individual population changes between temporal or spatially separated samples and over the course of therapy.
Date Issued
2013-11-01
Date Acceptance
2013-06-04
Citation
Genome Research, 2013, 23 (11), pp.1874-1884
ISSN
1054-9803
Publisher
Cold Spring Harbor Laboratory Press
Start Page
1874
End Page
1884
Journal / Book Title
Genome Research
Volume
23
Issue
11
Copyright Statement
© 2013 Bashford-Rogers et al.; Published by Cold Spring Harbor Laboratory Press
This article, published in Genome Research, is available under a Creative Commons License (Attribution-NonCommercial 3.0 Unported), as described at http://creativecommons.org/licenses/by-nc/3.0/.
This article, published in Genome Research, is available under a Creative Commons License (Attribution-NonCommercial 3.0 Unported), as described at http://creativecommons.org/licenses/by-nc/3.0/.
License URL
Identifier
https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000326642500011&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=a2bf6146997ec60c407a63945d4e92bb
Subjects
Science & Technology
Life Sciences & Biomedicine
Biochemistry & Molecular Biology
Biotechnology & Applied Microbiology
Genetics & Heredity
CHRONIC LYMPHOCYTIC-LEUKEMIA
IMMUNOGLOBULIN HEAVY-CHAIN
CONCERTED ACTION BHM4-CT98-3936
MINIMAL RESIDUAL DISEASE
INTRACLONAL DIVERSIFICATION
CLONALITY
ANTIBODY
PCR
LYMPHOMA
LYMPHOPROLIFERATIONS
Publication Status
Published
Date Publish Online
2013-06-06