Overlapping hotspots in CDRs are critical sites for V region diversification (Q35128767)

6 August 2017

title

Overlapping hotspots in CDRs are critical sites for V region diversification (English)

1 reference

6 August 2017

Richard Chahwan

2

0 references

Thomas MacCarthy

9

object named as

Thomas MacCarthy

1 reference

6 August 2017

8

Matthew D Scharff

1 reference

6 August 2017

7

Aviv Bergman

1 reference

6 August 2017

Lirong Wei

1

1 reference

6 August 2017

Shanzhi Wang

3

1 reference

6 August 2017

Xiaohua Wang

4

1 reference

6 August 2017

Phuong T Pham

5

1 reference

6 August 2017

Myron F Goodman

6

1 reference

6 August 2017

language of work or name

English

0 references

publication date

2 February 2015

1 reference

Proceedings of the National Academy of Sciences of the United States of America

6 August 2017

published in

1 reference

6 August 2017

volume

112

1 reference

6 August 2017

issue

7

1 reference

6 August 2017

page(s)

E728-37

1 reference

Key mutations stabilize antigen-binding conformation during affinity maturation of a broadly neutralizing influenza antibody lineage

6 August 2017

cites work

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The strength of an Ig switch region is determined by its ability to drive R loop formation and its number of WGCW sites

13 July 2018

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Differential expression of APE1 and APE2 in germinal centers promotes error-prone repair and A:T mutations during somatic hypermutation

13 July 2018

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Clonal selection in the germinal centre by regulated proliferation and hypermutation

13 July 2018

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Somatic hypermutation at A/T-rich oligonucleotide substrates shows different strand polarities in Ung-deficient or -proficient backgrounds.

13 July 2018

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13 July 2018

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Structural insights on the role of antibodies in HIV-1 vaccine and therapy

13 July 2018

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A mathematical model for scanning and catalysis on single-stranded DNA, illustrated with activation-induced deoxycytidine deaminase

13 July 2018

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The IgH 3' regulatory region controls somatic hypermutation in germinal center B cells

13 July 2018

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Mechanism of somatic hypermutation at the WA motif by human DNA polymerase η.

13 July 2018

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Transcriptional stalling in B-lymphocytes: a mechanism for antibody diversification and maintenance of genomic integrity

13 July 2018

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Rational HIV Immunogen Design to Target Specific Germline B Cell Receptors

13 July 2018

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Somatic hypermutation maintains antibody thermodynamic stability during affinity maturation

13 July 2018

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High levels of AID cause strand bias of mutations at A versus T in Burkitt's lymphoma cells

13 July 2018

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Lineage structure of the human antibody repertoire in response to influenza vaccination

13 July 2018

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Regulation of AID, the B-cell genome mutator

13 July 2018

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Preconfiguration of the antigen-binding site during affinity maturation of a broadly neutralizing influenza virus antibody

13 July 2018

1 reference

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A role for the RNA pol II-associated PAF complex in AID-induced immune diversification

13 July 2018

1 reference

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Structural and genetic basis for development of broadly neutralizing influenza antibodies

13 July 2018

1 reference

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A Structural Basis for the Biochemical Behavior of Activation-induced Deoxycytidine Deaminase Class-switch Recombination-defective Hyper-IgM-2 Mutants

13 July 2018

1 reference

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AIDing antibody diversity by error-prone mismatch repair

13 July 2018

1 reference

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Activation induced deaminase: How much and where?

13 July 2018

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B-cell-lineage immunogen design in vaccine development with HIV-1 as a case study

13 July 2018

1 reference

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Nucleosome Stability Dramatically Impacts the Targeting of Somatic Hypermutation

13 July 2018

1 reference

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Recombinase-Mediated Cassette Exchange as a Novel Method To Study Somatic Hypermutation in Ramos Cells

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

AID recruits UNG and Msh2 to Ig switch regions dependent upon the AID C terminus [corrected].

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Epigenetic tethering of AID to the donor switch region during immunoglobulin class switch recombination.

13 July 2018

1 reference

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Overlapping activation-induced cytidine deaminase hotspot motifs in Ig class-switch recombination

13 July 2018

1 reference

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Analysis of a Single-stranded DNA-scanning Process in Which Activation-induced Deoxycytidine Deaminase (AID) Deaminates C to U Haphazardly and Inefficiently to Ensure Mutational Diversity

13 July 2018

1 reference

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B-cell receptor, clinical course and prognosis in chronic lymphocytic leukaemia: the growing saga of the IGHV3 subgroup gene usage

13 July 2018

1 reference

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Deep-sequencing identification of the genomic targets of the cytidine deaminase AID and its cofactor RPA in B lymphocytes

13 July 2018

1 reference

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A new clustering of antibody CDR loop conformations

13 July 2018

1 reference

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Activation-induced cytidine deaminase targets DNA at sites of RNA polymerase II stalling by interaction with Spt5

13 July 2018

1 reference

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S region sequence, RNA polymerase II, and histone modifications create chromatin accessibility during class switch recombination

13 July 2018

1 reference

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The concerted action of Msh2 and UNG stimulates somatic hypermutation at A . T base pairs

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

V-region mutation in vitro, in vivo, and in silico reveal the importance of the enzymatic properties of AID and the sequence environment

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

SHMTool: a webserver for comparative analysis of somatic hypermutation datasets

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

The biochemistry of somatic hypermutation

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Molecular mechanisms of antibody somatic hypermutation.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

The mismatch repair protein Msh6 influences the in vivo AID targeting to the Ig locus

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Intricate targeting of immunoglobulin somatic hypermutation maximizes the efficiency of affinity maturation

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

MSH2-MSH6 stimulates DNA polymerase eta, suggesting a role for A:T mutations in antibody genes

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Cutting edge: DGYW/WRCH is a better predictor of mutability at G:C bases in Ig hypermutation than the widely accepted RGYW/WRCY motif and probably reflects a two-step activation-induced cytidine deaminase-triggered process

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Induction of somatic hypermutation is associated with modifications in immunoglobulin variable region chromatin

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Activation-induced cytidine deaminase deaminates deoxycytidine on single-stranded DNA but requires the action of RNase

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Altering the pathway of immunoglobulin hypermutation by inhibiting uracil-DNA glycosylase.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

AID-dependent somatic hypermutation occurs as a DNA single-strand event in the BL2 cell line

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Clonal instability of V region hypermutation in the Ramos Burkitt's lymphoma cell line

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Palindromic but not G-rich sequences are targets of class switch recombination

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

TdT-accessible breaks are scattered over the immunoglobulin V domain in a constitutively hypermutating B cell line

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

The complete nucleotide sequence of the human immunoglobulin heavy chain variable region locus

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

The targeting of somatic hypermutation

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

In situ studies of the primary immune response to (4-hydroxy-3-nitrophenyl)acetyl. III. The kinetics of V region mutation and selection in germinal center B cells

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Human autoantibody recognition of DNA

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Generation of antibody diversity in the immune response of BALB/c mice to influenza virus hemagglutinin

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

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

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Localization of two additional hypervariable regions in immunoglobulin heavy chains

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Patterns of somatic mutations in immunoglobulin variable genes

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Affinity maturation of B cells involves not only a few but a whole spectrum of relevant mutations.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Somatic hypermutation: processivity of the cytosine deaminase AID and error-free repair of the resulting uracils

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Two levels of protection for the B cell genome during somatic hypermutation.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Analysis of 6912 unselected somatic hypermutations in human VDJ rearrangements reveals lack of strand specificity and correlation between phase II substitution rates and distance to the nearest 3' activation-induced cytidine deaminase target.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

AID associates with single-stranded DNA with high affinity and a long complex half-life in a sequence-independent manner.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

No evidence for the use of DIR, D-D fusions, chromosome 15 open reading frames or VH replacement in the peripheral repertoire was found on application of an improved algorithm, JointML, to 6329 human immunoglobulin H rearrangements

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Hypermutation at A-T base pairs: the A nucleotide replacement spectrum is affected by adjacent nucleotides and there is no reverse complementarity of sequences flanking mutated A and T nucleotides.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

The mutation spectrum of purified AID is similar to the mutability index in Ramos cells and in ung(-/-)msh2(-/-) mice

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

An evolutionarily conserved target motif for immunoglobulin class-switch recombination

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Transcription-coupled events associating with immunoglobulin switch region chromatin

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

DNA substrate length and surrounding sequence affect the activation-induced deaminase activity at cytidine

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Processive AID-catalysed cytosine deamination on single-stranded DNA simulates somatic hypermutation

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Analysis of the heavy chain repertoire of human peripheral B cells using single-cell polymerase chain reaction

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4343087

Codon bias targets mutation.

27 September 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073/PNAS.1500788112

Somatic hypermutation of immunoglobulin genes is linked to transcription initiation

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25646473

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Evolution of Ig DNA sequence to target specific base positions within codons for somatic hypermutation

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25646473

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The E box motif CAGGTG enhances somatic hypermutation without enhancing transcription

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25646473

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1073/PNAS.1500788112

1 reference

6 August 2017

0 references

1 reference

6 August 2017

1 reference