Literature DB >> 21099370

Sequencing antibody repertoires: the next generation.

Nicolas Fischer1.   

Abstract

Genomic studies have been revolutionized by the use of next generation sequencing (NGS) that delivers huge amounts of sequence information in a short span of time. The number of applications for NGS is rapidly expanding and significantly transforming many areas of life sciences. The field of antibody research and discovery is no exception. Several recent studies have harnessed the power of NGS for analyzing natural or synthetic immunoglobulin repertoires with unprecedented resolution and exploring alternative paths for antibody discovery. Thus, appreciating, and then exploiting, these advances is essential for staying at the edge of antibody innovation.

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Year:  2011        PMID: 21099370      PMCID: PMC3038007          DOI: 10.4161/mabs.3.1.14169

Source DB:  PubMed          Journal:  MAbs        ISSN: 1942-0862            Impact factor:   5.857


  25 in total

1.  Therapeutic antibodies, vaccines and antibodyomes.

Authors:  Dimiter S Dimitrov
Journal:  MAbs       Date:  2010-05-14       Impact factor: 5.857

Review 2.  High-throughput DNA sequencing--concepts and limitations.

Authors:  Martin Kircher; Janet Kelso
Journal:  Bioessays       Date:  2010-06       Impact factor: 4.345

Review 3.  Selecting and screening recombinant antibody libraries.

Authors:  Hennie R Hoogenboom
Journal:  Nat Biotechnol       Date:  2005-09       Impact factor: 54.908

Review 4.  Sequence census methods for functional genomics.

Authors:  Barbara Wold; Richard M Myers
Journal:  Nat Methods       Date:  2007-12-19       Impact factor: 28.547

5.  Theoretical studies of clonal selection: minimal antibody repertoire size and reliability of self-non-self discrimination.

Authors:  A S Perelson; G F Oster
Journal:  J Theor Biol       Date:  1979-12-21       Impact factor: 2.691

6.  By-passing in vitro screening--next generation sequencing technologies applied to antibody display and in silico candidate selection.

Authors:  U Ravn; F Gueneau; L Baerlocher; M Osteras; M Desmurs; P Malinge; G Magistrelli; L Farinelli; M H Kosco-Vilbois; N Fischer
Journal:  Nucleic Acids Res       Date:  2010-09-15       Impact factor: 16.971

7.  The human combinatorial antibody library HuCAL GOLD combines diversification of all six CDRs according to the natural immune system with a novel display method for efficient selection of high-affinity antibodies.

Authors:  Christine Rothe; Stefanie Urlinger; Corinna Löhning; Josef Prassler; Yvonne Stark; Ute Jäger; Bernd Hubner; Michael Bardroff; Ingrid Pradel; Melanie Boss; Renate Bittlingmaier; Tschimegma Bataa; Christian Frisch; Bodo Brocks; Annemarie Honegger; Margit Urban
Journal:  J Mol Biol       Date:  2007-12-15       Impact factor: 5.469

8.  Dynamic regulation of nucleosome positioning in the human genome.

Authors:  Dustin E Schones; Kairong Cui; Suresh Cuddapah; Tae-Young Roh; Artem Barski; Zhibin Wang; Gang Wei; Keji Zhao
Journal:  Cell       Date:  2008-03-07       Impact factor: 41.582

9.  Isolation of high affinity human antibodies directly from large synthetic repertoires.

Authors:  A D Griffiths; S C Williams; O Hartley; I M Tomlinson; P Waterhouse; W L Crosby; R E Kontermann; P T Jones; N M Low; T J Allison
Journal:  EMBO J       Date:  1994-07-15       Impact factor: 11.598

10.  An analysis of the sequences of the variable regions of Bence Jones proteins and myeloma light chains and their implications for antibody complementarity.

Authors:  T T Wu; E A Kabat
Journal:  J Exp Med       Date:  1970-08-01       Impact factor: 14.307

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  38 in total

1.  A proteomics approach for the identification and cloning of monoclonal antibodies from serum.

Authors:  Wan Cheung Cheung; Sean A Beausoleil; Xiaowu Zhang; Shuji Sato; Sandra M Schieferl; James S Wieler; Jason G Beaudet; Ravi K Ramenani; Lana Popova; Michael J Comb; John Rush; Roberto D Polakiewicz
Journal:  Nat Biotechnol       Date:  2012-03-25       Impact factor: 54.908

2.  IMonitor: A Robust Pipeline for TCR and BCR Repertoire Analysis.

Authors:  Wei Zhang; Yuanping Du; Zheng Su; Changxi Wang; Xiaojing Zeng; Ruifang Zhang; Xueyu Hong; Chao Nie; Jinghua Wu; Hongzhi Cao; Xun Xu; Xiao Liu
Journal:  Genetics       Date:  2015-08-21       Impact factor: 4.562

3.  De novo identification of VRC01 class HIV-1-neutralizing antibodies by next-generation sequencing of B-cell transcripts.

Authors:  Jiang Zhu; Xueling Wu; Baoshan Zhang; Krisha McKee; Sijy O'Dell; Cinque Soto; Tongqing Zhou; Joseph P Casazza; James C Mullikin; Peter D Kwong; John R Mascola; Lawrence Shapiro
Journal:  Proc Natl Acad Sci U S A       Date:  2013-10-08       Impact factor: 11.205

4.  In-depth determination and analysis of the human paired heavy- and light-chain antibody repertoire.

Authors:  Brandon J DeKosky; Takaaki Kojima; Alexa Rodin; Wissam Charab; Gregory C Ippolito; Andrew D Ellington; George Georgiou
Journal:  Nat Med       Date:  2014-12-15       Impact factor: 53.440

5.  Next-generation antibody discovery platforms.

Authors:  Gary Hardiman
Journal:  Proc Natl Acad Sci U S A       Date:  2012-10-23       Impact factor: 11.205

6.  Mining the antibodyome for HIV-1-neutralizing antibodies with next-generation sequencing and phylogenetic pairing of heavy/light chains.

Authors:  Jiang Zhu; Gilad Ofek; Yongping Yang; Baoshan Zhang; Mark K Louder; Gabriel Lu; Krisha McKee; Marie Pancera; Jeff Skinner; Zhenhai Zhang; Robert Parks; Joshua Eudailey; Krissey E Lloyd; Julie Blinn; S Munir Alam; Barton F Haynes; Melissa Simek; Dennis R Burton; Wayne C Koff; James C Mullikin; John R Mascola; Lawrence Shapiro; Peter D Kwong
Journal:  Proc Natl Acad Sci U S A       Date:  2013-03-27       Impact factor: 11.205

Review 7.  Deep mutational scanning: assessing protein function on a massive scale.

Authors:  Carlos L Araya; Douglas M Fowler
Journal:  Trends Biotechnol       Date:  2011-05-10       Impact factor: 19.536

8.  High-throughput sequencing of natively paired antibody chains provides evidence for original antigenic sin shaping the antibody response to influenza vaccination.

Authors:  Yann-Chong Tan; Lisa K Blum; Sarah Kongpachith; Chia-Hsin Ju; Xiaoyong Cai; Tamsin M Lindstrom; Jeremy Sokolove; William H Robinson
Journal:  Clin Immunol       Date:  2014-01-09       Impact factor: 3.969

9.  pH-responsive and enzymatically-responsive hydrogel microparticles for the oral delivery of therapeutic proteins: Effects of protein size, crosslinking density, and hydrogel degradation on protein delivery.

Authors:  Michael Clinton Koetting; Joseph Frank Guido; Malvika Gupta; Annie Zhang; Nicholas A Peppas
Journal:  J Control Release       Date:  2015-12-02       Impact factor: 9.776

10.  Barcode-enabled sequencing of plasmablast antibody repertoires in rheumatoid arthritis.

Authors:  Yann-Chong Tan; Sarah Kongpachith; Lisa K Blum; Chia-Hsin Ju; Lauren J Lahey; Daniel R Lu; Xiaoyong Cai; Catriona A Wagner; Tamsin M Lindstrom; Jeremy Sokolove; William H Robinson
Journal:  Arthritis Rheumatol       Date:  2014-10       Impact factor: 10.995

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