Positional specificity of different transcription factor classes within enhancers
Published 2018 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Positional specificity of different transcription factor classes within enhancers
Authors
Keywords
-
Journal
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
Volume -, Issue -, Pages 201804663
Publisher
Proceedings of the National Academy of Sciences
Online
2018-07-10
DOI
10.1073/pnas.1804663115
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Resolving systematic errors in widely used enhancer activity assays in human cells
- (2017) Felix Muerdter et al. NATURE METHODS
- Systematic dissection of genomic features determining transcription factor binding and enhancer function
- (2017) Sharon R. Grossman et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Nfib Promotes Metastasis through a Widespread Increase in Chromatin Accessibility
- (2016) Sarah K. Denny et al. CELL
- Stable Binding of the Conserved Transcription Factor Grainy Head to its Target Genes Throughout Drosophila melanogaster Development
- (2016) Markus Nevil et al. GENETICS
- The Pioneer Transcription Factor FoxA Maintains an Accessible Nucleosome Configuration at Enhancers for Tissue-Specific Gene Activation
- (2016) Makiko Iwafuchi-Doi et al. MOLECULAR CELL
- Lineage-specific and single-cell chromatin accessibility charts human hematopoiesis and leukemia evolution
- (2016) M Ryan Corces et al. NATURE GENETICS
- The BioGRID interaction database: 2017 update
- (2016) Andrew Chatr-aryamontri et al. NUCLEIC ACIDS RESEARCH
- KEGG: new perspectives on genomes, pathways, diseases and drugs
- (2016) Minoru Kanehisa et al. NUCLEIC ACIDS RESEARCH
- Stable Binding of the Conserved Transcription Factor Grainy Head to its Target Genes Throughout Drosophila melanogaster Development
- (2016) Markus Nevil et al. GENETICS
- Pioneer Transcription Factors Target Partial DNA Motifs on Nucleosomes to Initiate Reprogramming
- (2015) Abdenour Soufi et al. CELL
- Identification of Lineage-SpecificCis-Regulatory Modules Associated with Variation in Transcription Factor Binding and Chromatin Activity Using Ornstein–Uhlenbeck Models
- (2015) Marina Naval-Sánchez et al. MOLECULAR BIOLOGY AND EVOLUTION
- Bidirectional Transcription Arises from Two Distinct Hubs of Transcription Factor Binding and Active Chromatin
- (2015) Benjamin S. Scruggs et al. MOLECULAR CELL
- Transcriptional regulators form diverse groups with context-dependent regulatory functions
- (2015) Gerald Stampfel et al. NATURE
- Integrative analysis of 111 reference human epigenomes
- (2015) Anshul Kundaje et al. NATURE
- Single-cell chromatin accessibility reveals principles of regulatory variation
- (2015) Jason D. Buenrostro et al. NATURE
- Determination and Inference of Eukaryotic Transcription Factor Sequence Specificity
- (2014) Matthew T. Weirauch et al. CELL
- DNase Footprint Signatures Are Dictated by Factor Dynamics and DNA Sequence
- (2014) Myong-Hee Sung et al. MOLECULAR CELL
- Enhancer–core-promoter specificity separates developmental and housekeeping gene regulation
- (2014) Muhammad A. Zabidi et al. NATURE
- Targeting transcription regulation in cancer with a covalent CDK7 inhibitor
- (2014) Nicholas Kwiatkowski et al. NATURE
- Discovery of directional and nondirectional pioneer transcription factors by modeling DNase profile magnitude and shape
- (2014) Richard I Sherwood et al. NATURE BIOTECHNOLOGY
- Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancers
- (2014) Leighton J Core et al. NATURE GENETICS
- The Sox Family of Transcription Factors: Versatile Regulators of Stem and Progenitor Cell Fate
- (2013) Abby Sarkar et al. Cell Stem Cell
- C/EBP maintains chromatin accessibility in liver and facilitates glucocorticoid receptor recruitment to steroid response elements
- (2013) Lars Grøntved et al. EMBO JOURNAL
- Systematic dissection of regulatory motifs in 2000 predicted human enhancers using a massively parallel reporter assay
- (2013) P. Kheradpour et al. GENOME RESEARCH
- DAF-16 employs the chromatin remodeller SWI/SNF to promote stress resistance and longevity
- (2013) Christian G. Riedel et al. NATURE CELL BIOLOGY
- The MIntAct project—IntAct as a common curation platform for 11 molecular interaction databases
- (2013) Sandra Orchard et al. NUCLEIC ACIDS RESEARCH
- JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles
- (2013) Anthony Mathelier et al. NUCLEIC ACIDS RESEARCH
- Massively parallel in vivo enhancer assay reveals that highly local features determine the cis-regulatory function of ChIP-seq peaks
- (2013) M. A. White et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- The Xist lncRNA Exploits Three-Dimensional Genome Architecture to Spread Across the X Chromosome
- (2013) J. M. Engreitz et al. SCIENCE
- A Genome-wide Map of CTCF Multivalency Redefines the CTCF Code
- (2013) Hirotaka Nakahashi et al. Cell Reports
- Multiple modes of chromatin remodeling by Forkhead box proteins
- (2012) Avin S. Lalmansingh et al. Biochimica et Biophysica Acta-Gene Regulatory Mechanisms
- A model of spatially restricted transcription in opposing gradients of activators and repressors
- (2012) Michael A White et al. Molecular Systems Biology
- HIF2α-Sp1 interaction mediates a deacetylation-dependent FVII- gene activation under hypoxic conditions in ovarian cancer cells
- (2012) Shiro Koizume et al. NUCLEIC ACIDS RESEARCH
- A benchmark for chromatin binding measurements in live cells
- (2012) Davide Mazza et al. NUCLEIC ACIDS RESEARCH
- Role of Architecture in the Function and Specificity of Two Notch-Regulated Transcriptional Enhancer Modules
- (2012) Feng Liu et al. PLoS Genetics
- FIMO: scanning for occurrences of a given motif
- (2011) Charles E. Grant et al. BIOINFORMATICS
- Dynamic Exchange at Regulatory Elements during Chromatin Remodeling Underlies Assisted Loading Mechanism
- (2011) Ty C. Voss et al. CELL
- Extensive chromatin remodelling and establishment of transcription factor ‘hotspots’ during early adipogenesis
- (2011) Rasmus Siersbaek et al. EMBO JOURNAL
- Transcription Factor AP1 Potentiates Chromatin Accessibility and Glucocorticoid Receptor Binding
- (2011) Simon C. Biddie et al. MOLECULAR CELL
- Chromatin accessibility pre-determines glucocorticoid receptor binding patterns
- (2011) Sam John et al. NATURE GENETICS
- Genomic and chromatin signals underlying transcription start-site selection
- (2011) Eivind Valen et al. TRENDS IN GENETICS
- Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data
- (2010) Robert C McLeay et al. BMC BIOINFORMATICS
- Sp1 and KLF15 regulate basal transcription of the human LRP5 gene
- (2010) Jiangxia Li et al. BMC GENETICS
- Hox genes and regional patterning of the vertebrate body plan
- (2010) Moises Mallo et al. DEVELOPMENTAL BIOLOGY
- Foxa1 Functions as a Pioneer Transcription Factor at Transposable Elements to ActivateAfpduring Differentiation of Embryonic Stem Cells
- (2010) Joseph H. Taube et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- Nucleosome dynamics define transcriptional enhancers
- (2010) Housheng Hansen He et al. NATURE GENETICS
- The words of the regulatory code are arranged in a variable manner in highly conserved enhancers
- (2008) Sepand Rastegar et al. DEVELOPMENTAL BIOLOGY
- PPAR and C/EBP factors orchestrate adipocyte biology via adjacent binding on a genome-wide scale
- (2008) M. I. Lefterova et al. GENES & DEVELOPMENT
- C/EBP Induces Chromatin Opening at a Cell-Type-Specific Enhancer
- (2008) A. Plachetka et al. MOLECULAR AND CELLULAR BIOLOGY
- Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists
- (2008) Da Wei Huang et al. NUCLEIC ACIDS RESEARCH
- The Insulator Binding Protein CTCF Positions 20 Nucleosomes around Its Binding Sites across the Human Genome
- (2008) Yutao Fu et al. PLoS Genetics
- Model-based Analysis of ChIP-Seq (MACS)
- (2008) Yong Zhang et al. GENOME BIOLOGY
Find Funding. Review Successful Grants.
Explore over 25,000 new funding opportunities and over 6,000,000 successful grants.
ExploreAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started