(Q27324074)

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Simulated binding of transcription factors to active and inactive regions folds human chromosomes into loops, rosettes and topological domains

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Europe PubMed Central

PubMed publication ID

26 June 2017

Simulated binding of transcription factors to active and inactive regions folds human chromosomes into loops, rosettes and topological domains (English)

1 reference

Europe PubMed Central

PubMed publication ID

26 June 2017

Davide Marenduzzo

5

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27060145%20AND%20SRC:MED&resulttype=core&format=json

3 June 2020

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Chris A Brackley

1

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Europe PubMed Central

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27060145%20AND%20SRC:MED&resulttype=core&format=json

3 June 2020

James Johnson

2

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27060145%20AND%20SRC:MED&resulttype=core&format=json

3 June 2020

Steven Kelly

3

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27060145%20AND%20SRC:MED&resulttype=core&format=json

3 June 2020

Peter R Cook

4

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27060145%20AND%20SRC:MED&resulttype=core&format=json

3 June 2020

language of work or name

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publication date

8 April 2016

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Europe PubMed Central

PubMed publication ID

26 June 2017

Nucleic Acids Research

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Europe PubMed Central

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27060145%20AND%20SRC:MED&resulttype=core&format=json

3 June 2020

44

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Europe PubMed Central

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27060145%20AND%20SRC:MED&resulttype=core&format=json

3 June 2020

8

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27060145%20AND%20SRC:MED&resulttype=core&format=json

3 June 2020

3503-3512

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27060145%20AND%20SRC:MED&resulttype=core&format=json

3 June 2020

A simple biophysical model emulates budding yeast chromosome condensation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

21 March 2017

Spatial and topological organization of DNA chains induced by gene co-localization

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

21 March 2017

On the demultiplexing of chromosome capture conformation data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

21 March 2017

The role of loops on the order of eukaryotes and prokaryotes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

21 March 2017

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

21 March 2017

Topological domains in mammalian genomes identified by analysis of chromatin interactions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

21 March 2017

Single-cell Hi-C reveals cell-to-cell variability in chromosome structure

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

7 April 2017

An oestrogen-receptor-α-bound human chromatin interactome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

7 April 2017

Mapping and analysis of chromatin state dynamics in nine human cell types

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

7 April 2017

Spatial partitioning of the regulatory landscape of the X-inactivation centre

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

7 April 2017

Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

7 April 2017

Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Mapping Nucleosome Resolution Chromosome Folding in Yeast by Micro-C

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Multivalency governs HP1α association dynamics with the silent chromatin state.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Restraint-based three-dimensional modeling of genomes and genomic domains

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Mapping long-range promoter contacts in human cells with high-resolution capture Hi-C.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Topology, structures, and energy landscapes of human chromosomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Assessing the limits of restraint-based 3D modeling of genomes and genomic domains

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

The role of chromosome domains in shaping the functional genome.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Depletion of the chromatin looping proteins CTCF and cohesin causes chromatin compaction: insight into chromatin folding by polymer modelling

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Genome-wide map of regulatory interactions in the human genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Modeling epigenome folding: formation and dynamics of topologically associated chromatin domains.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Predictive polymer modeling reveals coupled fluctuations in chromosome conformation and transcription

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Nuclear bodies: new insights into assembly/dynamics and disease relevance.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Supercoiling in DNA and chromatin.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Large-scale reconstruction of 3D structures of human chromosomes from chromosomal contact data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Chromatin connectivity maps reveal dynamic promoter-enhancer long-range associations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Organization of the mitotic chromosome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

A high-resolution map of the three-dimensional chromatin interactome in human cells

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Nonspecific bridging-induced attraction drives clustering of DNA-binding proteins and genome organization.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Transcription factories: genome organization and gene regulation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Functional implications of genome topology.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

TNFα signals through specialized factories where responsive coding and miRNA genes are transcribed

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Complexity of chromatin folding is captured by the strings and binders switch model

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Genome structure determination via 3C-based data integration by the Integrative Modeling Platform

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Three-dimensional folding and functional organization principles of the Drosophila genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Genome architectures revealed by tethered chromosome conformation capture and population-based modeling

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Three-dimensional modeling of chromatin structure from interaction frequency data using Markov chain Monte Carlo sampling

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

A three-dimensional model of the yeast genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Cell type specificity of chromatin organization mediated by CTCF and cohesin.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Structure and dynamics of interphase chromosomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C).

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

The organization of replication and transcription

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

A chromomeric model for nuclear and chromosome structure.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

28 September 2017

CRISPR Inversion of CTCF Sites Alters Genome Topology and Enhancer/Promoter Function

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

2 June 2018

Entropy-driven genome organization

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

2 June 2018

Probabilistic modeling of Hi-C contact maps eliminates systematic biases to characterize global chromosomal architecture.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

27 November 2018

Influence of mobile DNA-protein-DNA bridges on DNA configurations: coarse-grained Monte-Carlo simulations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

27 November 2018

The colocalization transition of homologous chromosomes at meiosis.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

27 November 2018

Regional specialization in human nuclei: visualization of discrete sites of transcription by RNA polymerase III.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4856988

27 November 2018

A simple model for DNA bridging proteins and bacterial or human genomes: bridging-induced attraction and genome compaction

1 reference

https://pubmed.ncbi.nlm.nih.gov/27060145

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Formation of Chromosomal Domains by Loop Extrusion.

1 reference

https://pubmed.ncbi.nlm.nih.gov/27060145

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A structural analysis of the role of the nuclear matrix and DNA loops in the organization of the nucleus and chromosome

1 reference

https://pubmed.ncbi.nlm.nih.gov/27060145

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Replication and transcription sites are colocalized in human cells

1 reference

https://pubmed.ncbi.nlm.nih.gov/27060145

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1093/NAR/GKW135

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27060145%20AND%20SRC:MED&resulttype=core&format=json

3 June 2020

OpenCitations bibliographic resource ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

PMC publication ID

2 references

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27060145%20AND%20SRC:MED&resulttype=core&format=json

3 June 2020

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27060145%20AND%20SRC:MED&resulttype=core&format=json

3 June 2020

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