标题
Practical guidelines for B-cell receptor repertoire sequencing analysis
作者
关键词
Somatic Mutation, Affinity Maturation, Versus Segment, Clonal Grouping, Rearrangement Process
出版物
Genome Medicine
Volume 7, Issue 1, Pages -
出版商
Springer Nature
发表日期
2015-11-20
DOI
10.1186/s13073-015-0243-2
参考文献
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注意：仅列出部分参考文献，下载原文获取全部文献信息。- Single B-cell deconvolution of peanut-specific antibody responses in allergic patients
- (2016) Ramona A. Hoh et al. JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY
- IMSEQ—a fast and error aware approach to immunogenetic sequence analysis
- (2015) Leon Kuchenbecker et al. BIOINFORMATICS
- Change-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data: Table 1.
- (2015) Namita T. Gupta et al. BIOINFORMATICS
- Noninvasive monitoring of diffuse large B-cell lymphoma by immunoglobulin high-throughput sequencing
- (2015) D. M. Kurtz et al. BLOOD
- Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets
- (2015) Evan Z. Macosko et al. CELL
- Equine immunoglobulins and organization of immunoglobulin genes
- (2015) Stefanie Walther et al. DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY
- MSPrecise: A molecular diagnostic test for multiple sclerosis using next generation sequencing
- (2015) William H. Rounds et al. GENE
- V genes in primates from whole genome sequencing data
- (2015) D. N. Olivieri et al. IMMUNOGENETICS
- Immunoglobulin genomics in the prairie vole (Microtus ochrogaster)
- (2015) Tong Qin et al. IMMUNOLOGY LETTERS
- Peanut oral immunotherapy transiently expands circulating Ara h 2–specific B cells with a homologous repertoire in unrelated subjects
- (2015) Sarita U. Patil et al. JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY
- Analysis of Celiac Disease Autoreactive Gut Plasma Cells and Their Corresponding Memory Compartment in Peripheral Blood Using High-Throughput Sequencing
- (2015) Omri Snir et al. JOURNAL OF IMMUNOLOGY
- Transcriptional profiling of mouse B cell terminal differentiation defines a signature for antibody-secreting plasma cells
- (2015) Wei Shi et al. NATURE IMMUNOLOGY
- MiXCR: software for comprehensive adaptive immunity profiling
- (2015) Dmitriy A Bolotin et al. NATURE METHODS
- The MEME Suite
- (2015) Timothy L. Bailey et al. NUCLEIC ACIDS RESEARCH
- Restricted, canonical, stereotyped and convergent immunoglobulin responses
- (2015) Carole J. Henry Dunand et al. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- The analysis of clonal expansions in normal and autoimmune B cell repertoires
- (2015) Uri Hershberg et al. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- Assigning and visualizing germline genes in antibody repertoires
- (2015) Simon D. W. Frost et al. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- Quantifying evolutionary constraints on B-cell affinity maturation
- (2015) Connor O. McCoy et al. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- The mutation patterns in B-cell immunoglobulin receptors reflect the influence of selection acting at multiple time-scales
- (2015) Gur Yaari et al. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- Ageing of the B-cell repertoire
- (2015) Victoria Martin et al. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- Automated analysis of high-throughput B-cell sequencing data reveals a high frequency of novel immunoglobulin V gene segment alleles
- (2015) Daniel Gadala-Maria et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- A bioinformatic framework for immune repertoire diversity profiling enables detection of immunological status
- (2015) Victor Greiff et al. Genome Medicine
- In-Depth Assessment of Within-Individual and Inter-Individual Variation in the B Cell Receptor Repertoire
- (2015) Jacob D. Galson et al. Frontiers in Immunology
- pRESTO: a toolkit for processing high-throughput sequencing raw reads of lymphocyte receptor repertoires
- (2014) Jason A. Vander Heiden et al. BIOINFORMATICS
- Fast multiclonal clusterization of V(D)J recombinations from high-throughput sequencing
- (2014) Mathieu Giraud et al. BMC GENOMICS
- Immunoglobulin Gene Insertions and Deletions in the Affinity Maturation of HIV-1 Broadly Reactive Neutralizing Antibodies
- (2014) Thomas B. Kepler et al. Cell Host & Microbe
- Human Responses to Influenza Vaccination Show Seroconversion Signatures and Convergent Antibody Rearrangements
- (2014) Katherine J.L. Jackson et al. Cell Host & Microbe
- Influence of seasonal exposure to grass pollen on local and peripheral blood IgE repertoires in patients with allergic rhinitis
- (2014) Yu-Chang B. Wu et al. JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY
- The promise and challenge of high-throughput sequencing of the antibody repertoire
- (2014) George Georgiou et al. NATURE BIOTECHNOLOGY
- In-depth determination and analysis of the human paired heavy- and light-chain antibody repertoire
- (2014) Brandon J DeKosky et al. NATURE MEDICINE
- Towards error-free profiling of immune repertoires
- (2014) Mikhail Shugay et al. NATURE METHODS
- Theoretical and experimental assessment of degenerate primer tagging in ultra-deep applications of next-generation sequencing
- (2014) Richard H. Liang et al. NUCLEIC ACIDS RESEARCH
- High-resolution antibody dynamics of vaccine-induced immune responses
- (2014) Uri Laserson et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Immunoglobulin class-switched B cells form an active immune axis between CNS and periphery in multiple sclerosis
- (2014) A. Palanichamy et al. Science Translational Medicine
- B cells populating the multiple sclerosis brain mature in the draining cervical lymph nodes
- (2014) J. N. H. Stern et al. Science Translational Medicine
- OMICtools: an informative directory for multi-omic data analysis
- (2014) V. J. Henry et al. Database-The Journal of Biological Databases and Curation
- Toward a more accurate view of human B-cell repertoire by next-generation sequencing, unbiased repertoire capture and single-molecule barcoding
- (2014) Linling He et al. Scientific Reports
- Reconstructing a B-Cell Clonal Lineage. II. Mutation, Selection, and Affinity Maturation
- (2014) Thomas B. Kepler et al. Frontiers in Immunology
- PEAR: a fast and accurate Illumina Paired-End reAd mergeR
- (2013) J. Zhang et al. BIOINFORMATICS
- Convergent Antibody Signatures in Human Dengue
- (2013) Poornima Parameswaran et al. Cell Host & Microbe
- Immunosequencing: applications of immune repertoire deep sequencing
- (2013) Harlan Robins CURRENT OPINION IN IMMUNOLOGY
- Rarefaction and extrapolation with Hill numbers: a framework for sampling and estimation in species diversity studies
- (2013) Anne Chao et al. ECOLOGICAL MONOGRAPHS
- Multiple Transcription Factor Binding Sites Predict AID Targeting in Non-Ig Genes
- (2013) J. L. Duke et al. JOURNAL OF IMMUNOLOGY
- Integrating B Cell Lineage Information into Statistical Tests for Detecting Selection in Ig Sequences
- (2013) M. Uduman et al. JOURNAL OF IMMUNOLOGY
- Deep Sequencing of the Murine Igh Repertoire Reveals Complex Regulation of Nonrandom V Gene Rearrangement Frequencies
- (2013) N. M. Choi et al. JOURNAL OF IMMUNOLOGY
- Cerebrospinal-fluid-derived Immunoglobulin G of Different Multiple Sclerosis Patients Shares Mutated Sequences in Complementarity Determining Regions
- (2013) Vaibhav Singh et al. MOLECULAR & CELLULAR PROTEOMICS
- Prize-based contests can provide solutions to computational biology problems
- (2013) Karim R Lakhani et al. NATURE BIOTECHNOLOGY
- High-throughput sequencing of the paired human immunoglobulin heavy and light chain repertoire
- (2013) Brandon J DeKosky et al. NATURE BIOTECHNOLOGY
- IgBLAST: an immunoglobulin variable domain sequence analysis tool
- (2013) Jian Ye et al. NUCLEIC ACIDS RESEARCH
- Genetic measurement of memory B-cell recall using antibody repertoire sequencing
- (2013) C. Vollmers et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- De novo identification of VRC01 class HIV-1-neutralizing antibodies by next-generation sequencing of B-cell transcripts
- (2013) J. Zhu et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- The Effects of Somatic Hypermutation on Neutralization and Binding in the PGT121 Family of Broadly Neutralizing HIV Antibodies
- (2013) Devin Sok et al. PLoS Pathogens
- Targeting B cells in the treatment of multiple sclerosis: recent advances and remaining challenges
- (2013) Klaus Lehmann-Horn et al. Therapeutic Advances in Neurological Disorders
- Models of Somatic Hypermutation Targeting and Substitution Based on Synonymous Mutations from High-Throughput Immunoglobulin Sequencing Data
- (2013) Gur Yaari et al. Frontiers in Immunology
- Multi Step Selection in Ig H Chains is Initially Focused on CDR3 and Then on Other CDR Regions
- (2013) Gilad Liberman et al. Frontiers in Immunology
- PANDAseq: paired-end assembler for illumina sequences
- (2012) Andre P Masella et al. BMC BIOINFORMATICS
- The immunoglobulin heavy chain locus: genetic variation, missing data and implications for human disease
- (2012) C T Watson et al. GENES AND IMMUNITY
- Germinal centers
- (2012) Mark J. Shlomchik et al. IMMUNOLOGICAL REVIEWS
- B cell exchange across the blood-brain barrier in multiple sclerosis
- (2012) H.-Christian von Büdingen et al. JOURNAL OF CLINICAL INVESTIGATION
- Shaping of Human Germline IgH Repertoires Revealed by Deep Sequencing
- (2012) K. Larimore et al. JOURNAL OF IMMUNOLOGY
- Skewed Primary Ig Repertoire and V-J Joining in C57BL/6 Mice: Implications for Recombination Accessibility and Receptor Editing
- (2012) M. Aoki-Ota et al. JOURNAL OF IMMUNOLOGY
- A proteomics approach for the identification and cloning of monoclonal antibodies from serum
- (2012) Wan Cheung Cheung et al. NATURE BIOTECHNOLOGY
- Quantifying selection in high-throughput Immunoglobulin sequencing data sets
- (2012) Gur Yaari et al. NUCLEIC ACIDS RESEARCH
- Vaccination-induced changes in human B-cell repertoire and pneumococcal IgM and IgA antibody at different ages
- (2011) Alexander Ademokun et al. AGING CELL
- Genomic screening by 454 pyrosequencing identifies a new human IGHV gene and sixteen other new IGHV allelic variants
- (2011) Yan Wang et al. IMMUNOGENETICS
- Rep-Seq: uncovering the immunological repertoire through next-generation sequencing
- (2011) Jennifer Benichou et al. IMMUNOLOGY
- The Inference of Phased Haplotypes for the Immunoglobulin H Chain V Region Gene Loci by Analysis of VDJ Gene Rearrangements
- (2011) M. J. Kidd et al. JOURNAL OF IMMUNOLOGY
- MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods
- (2011) K. Tamura et al. MOLECULAR BIOLOGY AND EVOLUTION
- A Preliminary Analysis of the Immunoglobulin Genes in the African Elephant (Loxodonta africana)
- (2011) Yongchen Guo et al. PLoS One
- High-Resolution Description of Antibody Heavy-Chain Repertoires in Humans
- (2011) Ramy Arnaout et al. PLoS One
- Naive antibody gene-segment frequencies are heritable and unaltered by chronic lymphocyte ablation
- (2011) J. Glanville et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Focused Evolution of HIV-1 Neutralizing Antibodies Revealed by Structures and Deep Sequencing
- (2011) X. Wu et al. SCIENCE
- SoDA2: a Hidden Markov Model approach for identification of immunoglobulin rearrangements
- (2010) S. Munshaw et al. BIOINFORMATICS
- Search and clustering orders of magnitude faster than BLAST
- (2010) Robert C. Edgar BIOINFORMATICS
- High-throughput immunoglobulin repertoire analysis distinguishes between human IgM memory and switched memory B-cell populations
- (2010) Y.-C. Wu et al. BLOOD
- B cell repertoire and ageing
- (2010) Deborah K Dunn-Walters et al. CURRENT OPINION IN IMMUNOLOGY
- Somatic hypermutation and antigen-driven selection of B cells are altered in autoimmune diseases
- (2010) Neta S. Zuckerman et al. JOURNAL OF AUTOIMMUNITY
- Individual Variation in the Germline Ig Gene Repertoire Inferred from Variable Region Gene Rearrangements
- (2010) S. D. Boyd et al. JOURNAL OF IMMUNOLOGY
- Monoclonal antibodies isolated without screening by analyzing the variable-gene repertoire of plasma cells
- (2010) Sai T Reddy et al. NATURE BIOTECHNOLOGY
- A consistent terminology for quantifying species diversity? Yes, it does exist
- (2010) Hanna Tuomisto OECOLOGIA
- Unlocking Short Read Sequencing for Metagenomics
- (2010) Sébastien Rodrigue et al. PLoS One
- Potential of a unique antibody gene signature to predict conversion to clinically definite multiple sclerosis☆
- (2009) Elizabeth M. Cameron et al. JOURNAL OF NEUROIMMUNOLOGY
- BioNumbers—the database of key numbers in molecular and cell biology
- (2009) Ron Milo et al. NUCLEIC ACIDS RESEARCH
- The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants
- (2009) Peter J. A. Cock et al. NUCLEIC ACIDS RESEARCH
- V-region mutation in vitro, in vivo, and in silico reveal the importance of the enzymatic properties of AID and the sequence environment
- (2009) T. MacCarthy et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- B-cell diversity decreases in old age and is correlated with poor health status
- (2008) Kate L. Gibson et al. AGING CELL
- The Biochemistry of Somatic Hypermutation
- (2008) Jonathan U. Peled et al. Annual Review of Immunology
- B-cell clonal diversification and gut-lymph node trafficking in ulcerative colitis revealed using lineage tree analysis
- (2008) Hilla Tabibian-Keissar et al. EUROPEAN JOURNAL OF IMMUNOLOGY
- Improved methods for detecting selection by mutation analysis of Ig V region sequences
- (2008) Uri Hershberg et al. INTERNATIONAL IMMUNOLOGY
- IgTree©: Creating Immunoglobulin variable region gene lineage trees
- (2008) Michal Barak et al. JOURNAL OF IMMUNOLOGICAL METHODS
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