Nucleosome positioning signals in genomic DNA (Q35914766)

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scientific article published on 9 July 2007

Language	Label	Description	Also known as
English	Nucleosome positioning signals in genomic DNA	scientific article published on 9 July 2007

Statements

scholarly article

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

Nucleosome positioning signals in genomic DNA (English)

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

John Stamatoyannopoulos

4

object named as

John A Stamatoyannopoulos

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

William S. Noble

5

object named as

William Stafford Noble

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

author name string

Heather E Peckham

1

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

Robert E Thurman

2

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

Yutao Fu

3

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

Kevin Struhl

6

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

Zhiping Weng

7

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

publication date

9 July 2007

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

Genome Research

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

17

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

8

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

1170-1177

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

A novel roll-and-slide mechanism of DNA folding in chromatin: implications for nucleosome positioning

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Flexibility and constraint in the nucleosome core landscape of Caenorhabditis elegans chromatin

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

A genomic code for nucleosome positioning

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Genome-scale identification of nucleosome positions in S. cerevisiae

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Evidence for histone eviction in trans upon induction of the yeast PHO5 promoter

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Evidence for eviction and rapid deposition of histones upon transcriptional elongation by RNA polymerase II.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Evidence for distinct mechanisms facilitating transcript elongation through chromatin in vivo

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Measurement of histone-DNA interaction free energy in nucleosomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

The structure of DNA in the nucleosome core

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

What positions nucleosomes?--A model

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Role of DNA sequence in nucleosome stability and dynamics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Histone acetylation at promoters is differentially affected by specific activators and repressors

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Poly(dA.dT) sequences exist as rigid DNA structures in nucleosome-free yeast promoters in vivo

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Sequence-dependent DNA structure: tetranucleotide conformational maps

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

A signal encoded in vertebrate DNA that influences nucleosome positioning and alignment

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Crystal structure of the nucleosome core particle at 2.8 A resolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Nucleosome DNA sequence pattern revealed by multiple alignment of experimentally mapped sequences

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Nucleosome positioning and gene regulation.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Nucleosome positioning and modification: chromatin structures that potentiate transcription

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Poly(dA:dT), a ubiquitous promoter element that stimulates transcription via its intrinsic DNA structure.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

The meaning and use of the area under a receiver operating characteristic (ROC) curve

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

DNA bending and its relation to nucleosome positioning.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Naturally occurring poly(dA-dT) sequences are upstream promoter elements for constitutive transcription in yeast

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Sequence periodicities in chicken nucleosome core DNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Nucleosome positioning: occurrence, mechanisms, and functional consequences

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

Nucleosome positioning

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

11 July 2018

In Vitro and in Vivo nucleosome positioning on the ovine beta-lactoglobulin gene are related

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

Yeast nucleosome DNA pattern: deconvolution from genome sequences of S. cerevisiae.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

Evidence for nucleosome depletion at active regulatory regions genome-wide

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

Removal of promoter nucleosomes by disassembly rather than sliding in vivo

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

Nucleosomal locations of dominant DNA sequence motifs for histone-DNA interactions and nucleosome positioning

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

Support vector machine classification on the web.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

Histone-DNA binding free energy cannot be measured in dilution-driven dissociation experiments

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

Histones are first hyperacetylated and then lose contact with the activated PHO5 promoter.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

Nucleosomes unfold completely at a transcriptionally active promoter.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

Nucleosome formation potential of eukaryotic DNA: calculation and promoters analysis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

TGGA repeats impair nucleosome formation.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

Naturally occurring nucleosome positioning signals in human exons and introns

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

Translational positioning of nucleosomes on DNA: the role of sequence-dependent isotropic DNA bending stiffness.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

Definitions and nomenclature of nucleic acid structure parameters.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933512

24 September 2018

Identification and characterization of genomic nucleosome-positioning sequences

1 reference

https://pubmed.ncbi.nlm.nih.gov/17620451

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

[Genetic level of DNA sequences is determined by superposition of many codes]

1 reference

https://pubmed.ncbi.nlm.nih.gov/17620451

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/17620451

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/17620451

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Nucleosomal DNA property database

1 reference

https://pubmed.ncbi.nlm.nih.gov/17620451

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Intrinsic histone-DNA interactions and low nucleosome density are important for preferential accessibility of promoter regions in yeast

1 reference

https://pubmed.ncbi.nlm.nih.gov/17620451

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Nucleosome structural features and intrinsic properties of the TATAAACGCC repeat sequence

1 reference

https://pubmed.ncbi.nlm.nih.gov/17620451

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Sequence-dependent DNA structure: dinucleotide conformational maps

1 reference

https://pubmed.ncbi.nlm.nih.gov/17620451

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

DNA sequences of two yeast promoter-up mutants

1 reference

https://pubmed.ncbi.nlm.nih.gov/17620451

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Distinguishing between mechanisms of eukaryotic transcriptional activation with bacteriophage T7 RNA polymerase

1 reference

https://pubmed.ncbi.nlm.nih.gov/17620451

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Nucleosome positions predicted through comparative genomics

1 reference

https://pubmed.ncbi.nlm.nih.gov/17620451

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1101/GR.6101007

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

11 August 2017

ResearchGate publication ID

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