Nucleosome stability dramatically impacts the targeting of somatic hypermutation (Q39384701)

11 September 2017

Nucleosome stability dramatically impacts the targeting of somatic hypermutation (English)

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11 September 2017

Prashant Kodgire

1

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11 September 2017

Priyanka Mukkawar

2

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11 September 2017

Justin A North

3

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11 September 2017

Michael G Poirier

4

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11 September 2017

Ursula Storb

5

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11 September 2017

language of work or name

English

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publication date

5 March 2012

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Molecular and Cellular Biology

11 September 2017

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11 September 2017

32

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11 September 2017

10

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11 September 2017

2030-2040

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describes a project that uses

11 September 2017

ImageQuant

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11 June 2022

https://www.ebi.ac.uk/europepmc/webservices/rest/PMC3347409/fullTextXML

inferred from PubMed Central ID database lookup

cites work

AID and partners: for better and (not) for worse

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

A polar barrier to transcription can be circumvented by remodeler-induced nucleosome translocation

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

High-throughput sequencing reveals a simple model of nucleosome energetics

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Cytidine deaminases: AIDing DNA demethylation?

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

An in vitro-identified high-affinity nucleosome-positioning signal is capable of transiently positioning a nucleosome in vivo

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

The histone shuffle: histone chaperones in an energetic dance

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Genome-wide erasure of DNA methylation in mouse primordial germ cells is affected by AID deficiency.

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Acetylation of histone H3 at the nucleosome dyad alters DNA-histone binding.

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Using DNA mechanics to predict in vitro nucleosome positions and formation energies.

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

The activation-induced cytidine deaminase (AID) efficiently targets DNA in nucleosomes but only during transcription

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

The biology of chromatin remodeling complexes

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Primary B cell immunodeficiencies: comparisons and contrasts

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Epigenetic reprogramming and induced pluripotency

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

DNA demethylation in zebrafish involves the coupling of a deaminase, a glycosylase, and gadd45.

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Spontaneous access to DNA target sites in folded chromatin fibers

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Oncogenic events triggered by AID, the adverse effect of antibody diversification

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

A genomic code for nucleosome positioning

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Targeting of the activation-induced cytosine deaminase is strongly influenced by the sequence and structure of the targeted DNA.

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

ATP-dependent chromatin remodeling

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Rapid spontaneous accessibility of nucleosomal DNA.

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Activation-induced cytidine deaminase deaminates 5-methylcytosine in DNA and is expressed in pluripotent tissues: implications for epigenetic reprogramming

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Nucleosomes facilitate their own invasion

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Activation-induced cytidine deaminase initiates immunoglobulin gene conversion and hypermutation by a common intermediate

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

AID mediates hypermutation by deaminating single stranded DNA.

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Transcription-targeted DNA deamination by the AID antibody diversification enzyme

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

A new mathematical model for relative quantification in real-time RT-PCR

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Crystal structure of the nucleosome core particle at 2.8 A resolution

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Structural features of a phased nucleosome core particle

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

A relationship between the helical twist of DNA and the ordered positioning of nucleosomes in all eukaryotic cells

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Sequence motifs and free energies of selected natural and non-natural nucleosome positioning DNA sequences.

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Chromatin remodelers act globally, sequence positions nucleosomes locally

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Synergistic action of RNA polymerases in overcoming the nucleosomal barrier.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

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

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

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

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3347409

Mechanism of protein access to specific DNA sequences in chromatin: a dynamic equilibrium model for gene regulation

21 August 2018

1 reference

12 December 2020

Somatic hypermutation of immunoglobulin genes is linked to transcription initiation

1 reference

12 December 2020

Elements regulating somatic hypermutation of an immunoglobulin κ gene: Critical role for the intron enhancer/matrix attachment region

1 reference

12 December 2020

Identification and characterization of genomic nucleosome-positioning sequences

1 reference

12 December 2020

Sequence and position-dependence of the equilibrium accessibility of nucleosomal DNA target sites

1 reference

12 December 2020

New DNA sequence rules for high affinity binding to histone octamer and sequence-directed nucleosome positioning

1 reference

12 December 2020

Effects of Sequence and Structure on the Hypermutability of Immunoglobulin Genes

1 reference

12 December 2020

A histone octamer can step around a transcribing polymerase without leaving the template

1 reference

12 December 2020

Identifiers

DOI

10.1128/MCB.06722-11

1 reference

11 September 2017

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11 September 2017

1 reference