DNA Supercoiling, Topoisomerases, and Cohesin: Partners in Regulating Chromatin Architecture? (Q52652232)

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20 March 2020

review article

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title

DNA Supercoiling, Topoisomerases, and Cohesin: Partners in Regulating Chromatin Architecture? (English)

1 reference

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20 March 2020

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2 August 2019

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28 September 2019

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12 October 2019

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10 December 2019

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19 December 2019

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20 December 2019

Camilla Sjögren Björkegren

series ordinal

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20 March 2020

Laura Baranello

2 references

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20 March 2020

http://europepmc.org/abstract/PMC/5877745

5 May 2018

language of work or name

English

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publication date

16 March 2018

7 references

2 August 2019

28 September 2019

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10 December 2019

19 December 2019

20 December 2019

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29547555%20AND%20SRC:MED&resulttype=core&format=json

International Journal of Molecular Sciences

20 March 2020

published in

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2 August 2019

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12 October 2019

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19 December 2019

20 December 2019

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20 March 2020

volume

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Creative Commons Attribution

20 March 2020

6 references

2 August 2019

28 September 2019

12 October 2019

10 December 2019

19 December 2019

20 December 2019

0 references

Transcription-induced supercoiling explains formation of self-interacting chromatin domains in S. pombe

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Genome Organization Drives Chromosome Fragility

22 May 2018

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Phase separation drives heterochromatin domain formation

22 May 2018

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A Phase Separation Model for Transcriptional Control.

22 May 2018

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TOP2 synergizes with BAF chromatin remodeling for both resolution and formation of facultative heterochromatin

22 May 2018

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Permanganate/S1 Nuclease Footprinting Reveals Non-B DNA Structures with Regulatory Potential across a Mammalian Genome

22 May 2018

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Biomolecular condensates: organizers of cellular biochemistry

22 May 2018

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The transcriptional regulator Aire binds to and activates super-enhancers

22 May 2018

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22 May 2018

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Topoisomerase II beta interacts with cohesin and CTCF at topological domain borders

22 May 2018

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Formation of Chromosomal Domains by Loop Extrusion.

22 May 2018

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RNA Polymerase II Regulates Topoisomerase 1 Activity to Favor Efficient Transcription

22 May 2018

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Hepatitis B virus X protein identifies the Smc5/6 complex as a host restriction factor.

22 May 2018

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The 3D Genome as Moderator of Chromosomal Communication

22 May 2018

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The three-dimensional genome: principles and roles of long-distance interactions.

22 May 2018

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The Hierarchy of Transcriptional Activation: From Enhancer to Promoter

22 May 2018

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An Overview of Genome Organization and How We Got There: from FISH to Hi-C

22 May 2018

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Mapping Nucleosome Resolution Chromosome Folding in Yeast by Micro-C

22 May 2018

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Inverse size scaling of the nucleolus by a concentration-dependent phase transition

22 May 2018

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Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells

22 May 2018

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Ligand-dependent enhancer activation regulated by topoisomerase-I activity

22 May 2018

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A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping

22 May 2018

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Cohesin-dependent globules and heterochromatin shape 3D genome architecture in S. pombe

22 May 2018

1 reference

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Architectural proteins: regulators of 3D genome organization in cell fate

22 May 2018

1 reference

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Effects of supercoiling on enhancer-promoter contacts

22 May 2018

1 reference

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Chromatin regulates DNA torsional energy via topoisomerase II-mediated relaxation of positive supercoils

22 May 2018

1 reference

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DNA topology and transcription

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5877745

Models that include supercoiling of topological domains reproduce several known features of interphase chromosomes

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5877745

Cohesin and CTCF differentially affect chromatin architecture and gene expression in human cells

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5877745

Transcription-generated torsional stress destabilizes nucleosomes.

22 May 2018

1 reference

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High-resolution mapping of the spatial organization of a bacterial chromosome

22 May 2018

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DNA topoisomerases beyond the standard role.

22 May 2018

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Transcription under torsion

22 May 2018

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Architectural protein subclasses shape 3D organization of genomes during lineage commitment

22 May 2018

1 reference

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Master transcription factors and mediator establish super-enhancers at key cell identity genes

22 May 2018

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Transcription-dependent dynamic supercoiling is a short-range genomic force

22 May 2018

1 reference

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Transcription forms and remodels supercoiling domains unfolding large-scale chromatin structures

22 May 2018

1 reference

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Self-organization of domain structures by DNA-loop-extruding enzymes

22 May 2018

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Topological domains in mammalian genomes identified by analysis of chromatin interactions

22 May 2018

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The importance of being supercoiled: how DNA mechanics regulate dynamic processes

22 May 2018

1 reference

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Conserved, developmentally regulated mechanism couples chromosomal looping and heterochromatin barrier activity at the homeobox gene A locus

22 May 2018

1 reference

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Mediator and cohesin connect gene expression and chromatin architecture

22 May 2018

1 reference

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Non-specific (entropic) forces as major determinants of the structure of mammalian chromosomes.

22 May 2018

1 reference

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Positional dependence of transcriptional inhibition by DNA torsional stress in yeast chromosomes

22 May 2018

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Cohesin is required for higher-order chromatin conformation at the imprinted IGF2-H19 locus

22 May 2018

1 reference

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Comprehensive mapping of long-range interactions reveals folding principles of the human genome

22 May 2018

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Cohesins form chromosomal cis-interactions at the developmentally regulated IFNG locus

22 May 2018

1 reference

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Virus Infection Induces NF-kappaB-dependent interchromosomal associations mediating monoallelic IFN-beta gene expression

22 May 2018

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Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome

22 May 2018

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The FUSE/FBP/FIR/TFIIH system is a molecular machine programming a pulse of c-myc expression

22 May 2018

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Structural plasticity of single chromatin fibers revealed by torsional manipulation

22 May 2018

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Chromosomal cohesin forms a ring

22 May 2018

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Cellular roles of dna topoisomerases: a molecular perspective

22 May 2018

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Molecular architecture of SMC proteins and the yeast cohesin complex

22 May 2018

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Disseminating the genome: joining, resolving, and separating sister chromatids during mitosis and meiosis

22 May 2018

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CTCF is a uniquely versatile transcription regulator linked to epigenetics and disease

22 May 2018

1 reference

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Unrestraining genetic processes with a protein-DNA hinge

22 May 2018

1 reference

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A direct link between sister chromatid cohesion and chromosome condensation revealed through the analysis of MCD1 in S. cerevisiae

22 May 2018

1 reference

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Cohesins: chromosomal proteins that prevent premature separation of sister chromatids

22 May 2018

1 reference

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Differential control of transcription-induced and overall DNA supercoiling by eukaryotic topoisomerases in vitro.

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5877745

Stably maintained microdomain of localized unrestrained supercoiling at a Drosophila heat shock gene locus

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5877745

Supercoiling of the DNA template during transcription

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5877745

Real-time imaging of DNA loop extrusion by condensin.

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5877745

Sub-kb Hi-C in D. melanogaster reveals conserved characteristics of TADs between insect and mammalian cells

13 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5877745

Transcription-induced supercoiling as the driving force of chromatin loop extrusion during formation of TADs in interphase chromosomes

13 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5877745

Two independent modes of chromatin organization revealed by cohesin removal

13 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5877745

Cohesin Loss Eliminates All Loop Domains

13 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5877745

The condensin complex is a mechanochemical motor that translocates along DNA.

13 August 2018

1 reference

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Evolutionarily Conserved Principles Predict 3D Chromatin Organization

13 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5877745

Cohesin is positioned in mammalian genomes by transcription, CTCF and Wapl.

13 August 2018

1 reference

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The functional response of upstream DNA to dynamic supercoiling in vivo

13 August 2018

1 reference

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Friction and torque govern the relaxation of DNA supercoils by eukaryotic topoisomerase IB.

13 August 2018

1 reference

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The probabilities of supercoil removal and decatenation by yeast DNA topoisomerase II.

13 August 2018

1 reference

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Chromosome length influences replication-induced topological stress

13 August 2018

1 reference

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Torsional stress promotes the DNAase I sensitivity of active genes

30 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/29547555

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Torsional tension in the DNA double helix measured with trimethylpsoralen in living E. coli cells: analogous measurements in insect and human cells

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/29547555

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

DNA torsional stress propagates through chromatin fiber and participates in transcriptional regulation

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/29547555

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.3390/IJMS19030884

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29547555%20AND%20SRC:MED&resulttype=core&format=json

20 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29547555%20AND%20SRC:MED&resulttype=core&format=json

20 March 2020

PubMed publication ID

29547555

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29547555%20AND%20SRC:MED&resulttype=core&format=json