(Q36782127)

16 August 2017

Probing DNA shape and methylation state on a genomic scale with DNase I. (English)

1 reference

16 August 2017

6

1 reference

16 August 2017

John Stamatoyannopoulos

10

object named as

John A Stamatoyannopoulos

1 reference

16 August 2017

Allan Lazarovici

1

1 reference

16 August 2017

Tianyin Zhou

2

1 reference

16 August 2017

Anthony Shafer

3

1 reference

16 August 2017

Ana Carolina Dantas Machado

4

1 reference

16 August 2017

Todd R Riley

5

1 reference

16 August 2017

Peter J Sabo

7

1 reference

16 August 2017

Yan Lu

8

1 reference

16 August 2017

Remo Rohs

9

1 reference

16 August 2017

Harmen J Bussemaker

11

1 reference

16 August 2017

language of work or name

English

0 references

publication date

1 April 2013

1 reference

Proceedings of the National Academy of Sciences of the United States of America

16 August 2017

1 reference

16 August 2017

110

1 reference

16 August 2017

16

1 reference

16 August 2017

6376-6381

1 reference

Genome-wide mapping of nucleosome positioning and DNA methylation within individual DNA molecules

16 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

An expansive human regulatory lexicon encoded in transcription factor footprints

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

A map of minor groove shape and electrostatic potential from hydroxyl radical cleavage patterns of DNA.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Chromatin accessibility pre-determines glucocorticoid receptor binding patterns.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

CpG methylation of half-CRE sequences creates C/EBPalpha binding sites that activate some tissue-specific genes

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Diversity in DNA recognition by p53 revealed by crystal structures with Hoogsteen base pairs

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Origins of specificity in protein-DNA recognition.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Electrostatic interactions between arginines and the minor groove in the nucleosome.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

The role of DNA shape in protein-DNA recognition

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Human DNA methylomes at base resolution show widespread epigenomic differences

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

DNA Binding Site Sequence Directs Glucocorticoid Receptor Structure and Activity

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Nuance in the double-helix and its role in protein-DNA recognition.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Global mapping of protein-DNA interactions in vivo by digital genomic footprinting

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

DNA methylation landscapes: provocative insights from epigenomics

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Using RNase sequence specificity to refine the identification of RNA-protein binding regions

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Transient cyclical methylation of promoter DNA.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

All and only CpG containing sequences are enriched in promoters abundantly bound by RNA polymerase II in multiple tissues

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Functional Specificity of a Hox Protein Mediated by the Recognition of Minor Groove Structure

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

DNA methylation profiling of human chromosomes 6, 20 and 22

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

DNA methylation, nucleosome formation and positioning

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

High-throughput localization of functional elements by quantitative chromatin profiling

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Discovery of functional noncoding elements by digital analysis of chromatin structure

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

DNA methylation patterns and epigenetic memory

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Differences in the accessibility of methylated and unmethylated DNA to DNase I.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

DNA recognition by DNase I.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Sequence-dependent bending propensity of DNA as revealed by DNase I: parameters for trinucleotides

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Structure refined to 2Å of a nicked DNA octanucleotide complex with DNase I

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

DNA flexibility variation may dominate DNase I cleavage

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

DNA methylation. The effect of minor bases on DNA-protein interactions

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Sequence-dependent structural variations of DNA revealed by DNase I.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

DNase I-induced DNA conformation. 2 A structure of a DNase I-octamer complex

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

X-ray structure of the DNase I-d(GGTATACC)2 complex at 2.3 A resolution

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

DNAase footprinting a simple method for the detection of protein-DNA binding specificity

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Cofactor binding evokes latent differences in DNA binding specificity between Hox proteins

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Increased methylation variation in epigenetic domains across cancer types

27 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Relationship between nucleosome positioning and DNA methylation

27 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Sequence-dependent variation in the conformation of DNA

27 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

The effect of HhaI methylation on DNA local structure

27 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Sequence-dependent DNA flexibility mediates DNase I cleavage

27 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Genome-scale mapping of DNase I sensitivity in vivo using tiling DNA microarrays.

5 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

DNase I behaves as a transcription factor which modulates Fas expression in human cells

5 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3631675

Impact of C5-cytosine methylation on the solution structure of d(GAAAACGTTTTC)2. An NMR and molecular modelling investigation

5 September 2018

1 reference

12 December 2020

DNA structural variations in the E. coli tyrT promoter

1 reference

12 December 2020

Characterization of preferred deoxyribonuclease I cleavage sites

1 reference

12 December 2020

DNase I - DNA interaction alters DNA and protein conformations

1 reference

12 December 2020

Identifiers

DOI

10.1073/PNAS.1216822110

1 reference

release_2jyxvavvnrh2lmz6tym2kg4mgi

16 August 2017

0 references

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/2jyxvavvnrh2lmz6tym2kg4mgi

24 November 2022

mapped directly with Wikidata item

1 reference

16 August 2017

PubMed publication ID

23576721

1 reference