(Q40167701)

18 September 2017

A theoretical model for the prediction of sequence-dependent nucleosome thermodynamic stability (English)

1 reference

18 September 2017

Anselmi C

1

1 reference

18 September 2017

Bocchinfuso G

2

1 reference

18 September 2017

De Santis P

3

1 reference

18 September 2017

Savino M

4

1 reference

18 September 2017

Scipioni A

5

1 reference

18 September 2017

language of work or name

English

0 references

publication date

1 August 2000

1 reference

18 September 2017

1 reference

18 September 2017

79

1 reference

18 September 2017

2

1 reference

18 September 2017

601-613

1 reference

DNA structure: cations in charge?

18 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Localization of ammonium ions in the minor groove of DNA duplexes in solution and the origin of DNA A-tract bending

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

DNA curvature and deformation in protein-DNA complexes: a step in the right direction

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Structure of the potassium form of CGCGAATTCGCG: DNA deformation by electrostatic collapse around inorganic cations

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

An analysis of the relationship between hydration and protein-DNA interactions

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

DNA sequence-dependent deformability deduced from protein-DNA crystal complexes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

The B-DNA dodecamer at high resolution reveals a spine of water on sodium

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Crystal structure of the nucleosome core particle at 2.8 A resolution

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Improved thermodynamic parameters and helix initiation factor to predict stability of DNA duplexes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

The [(G/C)3NN]n motif: a common DNA repeat that excludes nucleosomes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

The effect of nucleosome phasing sequences and DNA topology on nucleosome spacing.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Mapping nucleosome position at single base-pair resolution by using site-directed hydroxyl radicals

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Dehydrating agents sharply reduce curvature in DNAs containing A tracts

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

The writhing number of a space curve

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Crystal lattice packing is important in determining the bend of a DNA dodecamer containing an adenine tract

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Artificial nucleosome positioning sequences

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Toward a unified model of chromatin folding

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Curved DNA without A-A: experimental estimation of all 16 DNA wedge angles

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Curved DNA fragments display retarded elution upon anion exchange HPLC

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

NMR observation of individual molecules of hydration water bound to DNA duplexes: direct evidence for a spine of hydration water present in aqueous solution

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Linking numbers and nucleosomes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

22 September 2017

Structure of Chromatin

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Crystal studies of B-DNA: the answers and the questions

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Flexible DNA: genetically unstable CTG.CAG and CGG.CCG from human hereditary neuromuscular disease genes.

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Nucleosome assembly on methylated CGG triplet repeats in the fragile X mental retardation gene 1 promoter.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

DNA bending and its relation to nucleosome positioning.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Sequence periodicities in chicken nucleosome core DNA.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Nucleoprotein complexes. DNA wrapping and writhing.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

A theoretical model of DNA curvature.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Different interactions of spermine with a "curved" and a "normal" DNA duplex: (CA4T4G)n and (CT4A4G)n. Gel electrophoresis and circular dichroism studies

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

TGGA repeats impair nucleosome formation.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

DNA superstructural features and nucleosomal organization of the two centromeres of Kluyveromyces lactis chromosome 1 and Saccharomyces cerevisiae chromosome 6.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Anomalous rapid electrophoretic mobility of DNA containing triplet repeats associated with human disease genes.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Influence of fluctuations on DNA curvature. A comparison of flexible and static wedge models of intrinsically bent DNA.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Static contributions to the persistence length of DNA and dynamic contributions to DNA curvature

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Influence of dynamic fluctuations on DNA curvature.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300961

Dual role of DNA intrinsic curvature and flexibility in determining nucleosome stability

20 August 2018

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

In vitro low propensity to form nucleosomes of four telomeric sequences

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

Validity of the nearest-neighbor approximation in the evaluation of the electrophoretic manifestations of DNA curvature

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

Theoretical prediction of the gel electrophoretic retardation changes due to point mutations in a tract of Sv40 DNA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

Structure of a B-DNA dodecamer. III. Geometry of hydration

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

Nucleosome assembly on CTG triplet repeats

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

B-DNA twisting correlates with base-pair morphology.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

A low resolution structure for the histone core of the nucleosome

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

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

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

An optimized potential function for the calculation of nucleic acid interaction energies I. base stacking

7 January 2021

2 references

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

7 January 2021

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

inferred from DOI database lookup

7 January 2021

based on heuristic

Structure of the nucleosome core particle at 7 Å resolution

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

Nucleosome assembly on telomeric sequences

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

Effects of DNA sequence and histone-histone interactions on nucleosome placement

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

Long CCG triplet repeat blocks exclude nucleosomes: a possible mechanism for the nature of fragile sites in chromosomes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

Identification and characterization of genomic nucleosome-positioning sequences

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976319-3

10.1016/S0006-3495(00)76319-3

7 January 2021

Identifiers

DOI

1 reference

18 September 2017

1 reference

18 September 2017

PubMed publication ID

10919995

1 reference