A simple biophysical model emulates budding yeast chromosome condensation (Q21128628)

15 August 2022

Paul A Bates

Paul A

Bates

1 reference

15 August 2022

Carmay Lim

Carmay

Lim

1 reference

15 August 2022

Tammy M K Cheng

Tammy M K

Cheng

1 reference

15 August 2022

Sebastian Heeger

Sebastian

Heeger

1 reference

15 August 2022

Raphaël A G Chaleil

Raphaël A G

Chaleil

1 reference

15 August 2022

Nik Matthews

Nik

Matthews

1 reference

15 August 2022

Aengus Stewart

Aengus

Stewart

1 reference

15 August 2022

Jon Wright

Jon

Wright

1 reference

Nucleosomes, linker DNA, and linker histone form a unique structural motif that directs the higher-order folding and compaction of chromatin

15 August 2022

language of work or name

English

0 references

publication date

2015

0 references

0 references

0 references

e05565

0 references

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Crystal structure of the nucleosome core particle at 2.8 A resolution

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Condensin aids sister chromatid decatenation by topoisomerase II.

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Budding yeast Wapl controls sister chromatid cohesion maintenance and chromosome condensation

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Identification of cis-acting sites for condensin loading onto budding yeast chromosomes

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Clustering of yeast tRNA genes is mediated by specific association of condensin with tRNA gene transcription complexes.

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

In vivo analysis of chromosome condensation in Saccharomyces cerevisiae

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Condensin binding at distinct and specific chromosomal sites in the Saccharomyces cerevisiae genome

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

SMC2, a Saccharomyces cerevisiae gene essential for chromosome segregation and condensation, defines a subgroup within the SMC family

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Topological domains in mammalian genomes identified by analysis of chromatin interactions

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

The structure and function of SMC and kleisin complexes

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Condensin and cohesin display different arm conformations with characteristic hinge angles

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Asymmetric unwrapping of nucleosomes under tension directed by DNA local flexibility

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

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

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Predictive polymer modeling reveals coupled fluctuations in chromosome conformation and transcription

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Chromatin as dynamic 10-nm fibers

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Biochemical reconstitution of topological DNA binding by the cohesin ring

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Organization of the mitotic chromosome

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

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

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

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

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Local nucleosome dynamics facilitate chromatin accessibility in living mammalian cells.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Condensin, chromatin crossbarring and chromosome condensation

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

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

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Human mitotic chromosomes consist predominantly of irregularly folded nucleosome fibres without a 30-nm chromatin structure

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Loops determine the mechanical properties of mitotic chromosomes

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Condensin association with histone H2A shapes mitotic chromosomes

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Monte Carlo Simulations indicate that Chromati: Nanostructure is accessible by Light Microscopy

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Mesoscale simulations of two nucleosome-repeat length oligonucleosomes

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Evidence for heteromorphic chromatin fibers from analysis of nucleosome interactions

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

The condensin I subunit Barren/CAP-H is essential for the structural integrity of centromeric heterochromatin during mitosis

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Distinct functions of condensin I and II in mitotic chromosome assembly

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Long-range compaction and flexibility of interphase chromatin in budding yeast analyzed by high-resolution imaging techniques.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Force fields for protein simulations

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Condensin is required for nonhistone protein assembly and structural integrity of vertebrate mitotic chromosomes

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

The making of the mitotic chromosome: modern insights into classical questions

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Mitotic chromosomes are chromatin networks without a mechanically contiguous protein scaffold

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Visualizing chromatin dynamics in interphase nuclei.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Polymer models of meiotic and mitotic chromosomes

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

A chromatin folding model that incorporates linker variability generates fibers resembling the native structures

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Chromosome condensation and sister chromatid pairing in budding yeast

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Fission yeast cut3 and cut14, members of a ubiquitous protein family, are required for chromosome condensation and segregation in mitosis

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

A heterodimeric coiled-coil protein required for mitotic chromosome condensation in vitro

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Dynamical modeling of three-dimensional genome organization in interphase budding yeast.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

A three-dimensional model of the yeast genome

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Maximal chromosome compaction occurs by axial shortening in anaphase and depends on Aurora kinase

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

C. elegans condensin promotes mitotic chromosome architecture, centromere organization, and sister chromatid segregation during mitosis and meiosis

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Mapping in vivo chromatin interactions in yeast suggests an extended chromatin fiber with regional variation in compaction

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

High-throughput chromatin motion tracking in living yeast reveals the flexibility of the fiber throughout the genome

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Physical tethering and volume exclusion determine higher-order genome organization in budding yeast

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Detection of gene loops by 3C in yeast.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Choreography for nucleosomes: the conformational freedom of the nucleosomal filament and its limitations

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Estimating friction coefficients of mixed globular/chain molecules, such as protein/DNA complexes

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4413874

Condensin I stabilizes chromosomes mechanically through a dynamic interaction in live cells.

30 May 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.05565

The anchor-away technique: rapid, conditional establishment of yeast mutant phenotypes

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.05565

A Two-Step Scaffolding Model for Mitotic Chromosome Assembly

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.05565

PatMaN: rapid alignment of short sequences to large databases

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.05565

Modules for cloning-free chromatin tagging in Saccharomyces cerevisae

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.05565

Determining long-range chromatin interactions for selected genomic sites using 4C-seq technology: from fixation to computation.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.05565

A Predictive Computational Model of the Dynamic 3D Interphase Yeast Nucleus

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.05565

Condensin structures chromosomal DNA through topological links

21 January 2018

1 reference

https://pubmed.ncbi.nlm.nih.gov/25922992

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Facile synthesis of budding yeast a-factor and its use to synchronize cells of α mating type

1 reference

https://pubmed.ncbi.nlm.nih.gov/25922992

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The three-dimensional structure of in vitro reconstituted Xenopus laevis chromosomes by EM tomography

1 reference

https://pubmed.ncbi.nlm.nih.gov/25922992