Home
Random
Nearby
Log in
Settings
Donate
About Wikidata
Disclaimers
Search
(Q35935489)
Watch
English
Genome-wide footprinting: ready for prime time?
scientific article
In more languages
edit
Statements
instance of
scholarly article
1 reference
stated in
Europe PubMed Central
PMC publication ID
5140282
retrieved
11 August 2017
title
Genome-wide footprinting: ready for prime time?
(English)
1 reference
stated in
Europe PubMed Central
PMC publication ID
5140282
retrieved
11 August 2017
author
Myong-Hee Sung
series ordinal
1
1 reference
stated in
Europe PubMed Central
PMC publication ID
5140282
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26914206%20AND%20SRC:MED&resulttype=core&format=json
retrieved
31 May 2020
Gordon L. Hager
series ordinal
3
object named as
Gordon L Hager
1 reference
stated in
Europe PubMed Central
PMC publication ID
5140282
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26914206%20AND%20SRC:MED&resulttype=core&format=json
retrieved
31 May 2020
author name string
Songjoon Baek
series ordinal
2
1 reference
stated in
Europe PubMed Central
PMC publication ID
5140282
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26914206%20AND%20SRC:MED&resulttype=core&format=json
retrieved
31 May 2020
publication date
1 February 2016
1 reference
stated in
Europe PubMed Central
PMC publication ID
5140282
retrieved
11 August 2017
published in
Nature Methods
1 reference
stated in
Europe PubMed Central
PMC publication ID
5140282
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26914206%20AND%20SRC:MED&resulttype=core&format=json
retrieved
31 May 2020
volume
13
1 reference
stated in
Europe PubMed Central
PMC publication ID
5140282
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26914206%20AND%20SRC:MED&resulttype=core&format=json
retrieved
31 May 2020
issue
3
1 reference
stated in
Europe PubMed Central
PMC publication ID
5140282
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26914206%20AND%20SRC:MED&resulttype=core&format=json
retrieved
31 May 2020
page(s)
222-228
1 reference
stated in
Europe PubMed Central
PMC publication ID
5140282
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26914206%20AND%20SRC:MED&resulttype=core&format=json
retrieved
31 May 2020
cites work
Single-cell chromatin accessibility reveals principles of regulatory variation
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Cistrome of the aldosterone-activated mineralocorticoid receptor in human renal cells.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Multiplex single cell profiling of chromatin accessibility by combinatorial cellular indexing
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Low affinity binding site clusters confer hox specificity and regulatory robustness.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Conservation of trans-acting circuitry during mammalian regulatory evolution
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Explicit DNase sequence bias modeling enables high-resolution transcription factor footprint detection
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
DNase footprint signatures are dictated by factor dynamics and DNA sequence
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Detection of active transcription factor binding sites with the combination of DNase hypersensitivity and histone modifications
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Transient estrogen receptor binding and p300 redistribution support a squelching mechanism for estradiol-repressed genes
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Single-molecule analysis of transcription factor binding at transcription sites in live cells
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Quantitation of glucocorticoid receptor DNA-binding dynamics by single-molecule microscopy and FRAP
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Single-molecule dynamics of enhanceosome assembly in embryonic stem cells
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Androgen receptor complexes probe DNA for recognition sequences by short random interactions
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Discovery of directional and nondirectional pioneer transcription factors by modeling DNase profile magnitude and shape
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Dynamic regulation of transcriptional states by chromatin and transcription factors.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Overlapping chromatin-remodeling systems collaborate genome wide at dynamic chromatin transitions.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Refined DNase-seq protocol and data analysis reveals intrinsic bias in transcription factor footprint identification
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Measuring chromatin interaction dynamics on the second time scale at single-copy genes
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Wellington: a novel method for the accurate identification of digital genomic footprints from DNase-seq data
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
A genome-wide map of CTCF multivalency redefines the CTCF code
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Probing DNA shape and methylation state on a genomic scale with DNase I.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Single-molecule imaging of transcription factor binding to DNA in live mammalian cells
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Using DNase digestion data to accurately identify transcription factor binding sites
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Evaluation of methods for modeling transcription factor sequence specificity
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
DNA-binding specificities of human transcription factors
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Architecture of the human regulatory network derived from ENCODE data
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
An expansive human regulatory lexicon encoded in transcription factor footprints
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
The accessible chromatin landscape of the human genome
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Rapid genome-scale mapping of chromatin accessibility in tissue
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Genome-wide protein-DNA binding dynamics suggest a molecular clutch for transcription factor function
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Epigenetic priors for identifying active transcription factor binding sites
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
The human mitochondrial transcriptome
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Dynamic exchange at regulatory elements during chromatin remodeling underlies assisted loading mechanism
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Transcription factor AP1 potentiates chromatin accessibility and glucocorticoid receptor binding
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
FIMO: scanning for occurrences of a given motif
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Chromatin accessibility pre-determines glucocorticoid receptor binding patterns.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Live cell imaging and systems biology.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
An integrated network of androgen receptor, polycomb, and TMPRSS2-ERG gene fusions in prostate cancer progression
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Heterodimerization with different Jun proteins controls c-Fos intranuclear dynamics and distribution
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Transcription dynamics
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
MEME SUITE: tools for motif discovery and searching
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Diversity and complexity in DNA recognition by transcription factors
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Global mapping of protein-DNA interactions in vivo by digital genomic footprinting
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Sumoylation and proteasomal activity determine the transactivation properties of the mineralocorticoid receptor
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
A hyper-dynamic equilibrium between promoter-bound and nucleoplasmic dimers controls NF-kappaB-dependent gene activity
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Glutamine rich and basic region/leucine zipper (bZIP) domains stabilize cAMP-response element-binding protein (CREB) binding to chromatin.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
The glucocorticoid receptor: rapid exchange with regulatory sites in living cells
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Cell-type-specific contacts to immunoglobulin enhancers in nuclei
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
A method for mapping intranuclear protein-DNA interactions and its application to a nuclease hypersensitive site
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Physical studies of protein-DNA complexes by footprinting
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
2 October 2017
Circuitry and dynamics of human transcription factor regulatory networks
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
11 July 2018
Transcriptional activation by the thyroid hormone receptor through ligand-dependent receptor recruitment and chromatin remodelling.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
24 September 2018
Quantitative analysis of genome-wide chromatin remodeling
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
24 September 2018
Quantifying effects of ligands on androgen receptor nuclear translocation, intranuclear dynamics, and solubility.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5140282
retrieved
24 September 2018
Estrogen-receptor-alpha exchange and chromatin dynamics are ligand- and domain-dependent
1 reference
stated in
PubMed
reference URL
https://pubmed.ncbi.nlm.nih.gov/26914206
retrieved
12 December 2020
based on heuristic
inferred from PubMed ID database lookup
Identifiers
DOI
10.1038/NMETH.3766
1 reference
stated in
Europe PubMed Central
PMC publication ID
5140282
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26914206%20AND%20SRC:MED&resulttype=core&format=json
retrieved
31 May 2020
Dimensions Publication ID
1004644360
0 references
PMC publication ID
5140282
1 reference
stated in
Europe PubMed Central
PMC publication ID
5140282
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26914206%20AND%20SRC:MED&resulttype=core&format=json
retrieved
31 May 2020
PubMed publication ID
26914206
1 reference
stated in
Europe PubMed Central
PMC publication ID
5140282
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26914206%20AND%20SRC:MED&resulttype=core&format=json
retrieved
31 May 2020
Sitelinks
Wikipedia
(0 entries)
edit
Wikibooks
(0 entries)
edit
Wikinews
(0 entries)
edit
Wikiquote
(0 entries)
edit
Wikisource
(0 entries)
edit
Wikiversity
(0 entries)
edit
Wikivoyage
(0 entries)
edit
Wiktionary
(0 entries)
edit
Multilingual sites
(0 entries)
edit