A Model for Aryl Hydrocarbon Receptor-Activated Gene Expression Shows Potency and Efficacy Changes and Predicts Squelching Due to Competition for Transcription Co-Activators

The use of mode of action information in risk assessment: Quantitative key events/dose-response framework for modeling the dose-response for key events

(2014) Ted W. Simon et al.   CRITICAL REVIEWS IN TOXICOLOGY

Aryl Hydrocarbon Receptor Repressor and TiPARP (ARTD14) Use Similar, but also Distinct Mechanisms to Repress Aryl Hydrocarbon Receptor Signaling

(2014) Laura MacPherson et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

A 155-plex high-throughput in vitro coregulator binding assay for (anti-)estrogenicity testing evaluated with 23 reference compounds

(2014) Si Wang   ALTEX-Alternatives to Animal Experimentation

The aryl hydrocarbon receptor interacts with nuclear factor erythroid 2-related factor 2 to mediate induction of NAD(P)H:quinoneoxidoreductase 1 by 2,3,7,8-tetrachlorodibenzo-p-dioxin

(2013) Liping Wang et al.   ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS

Robust Array-Based Coregulator Binding Assay Predicting ERα-Agonist Potency and Generating Binding Profiles Reflecting Ligand Structure

(2013) Jac M. M. J. G. Aarts et al.   CHEMICAL RESEARCH IN TOXICOLOGY

Profiling 976 ToxCast Chemicals across 331 Enzymatic and Receptor Signaling Assays

(2013) Nisha S. Sipes et al.   CHEMICAL RESEARCH IN TOXICOLOGY

Mode of action and dose–response framework analysis for receptor-mediated toxicity: The aryl hydrocarbon receptor as a case study

(2013) R. A. Budinsky et al.   CRITICAL REVIEWS IN TOXICOLOGY

Cross-talk between Aryl Hydrocarbon Receptor and the Inflammatory Response

(2013) Christoph F. A. Vogel et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Stochastic models of transcription: From single molecules to single cells

(2013) Alvaro Sanchez et al.   METHODS

Eukaryotic transcriptional dynamics: from single molecules to cell populations

(2013) Antoine Coulon et al.   NATURE REVIEWS GENETICS

Dynamic regulation of transcriptional states by chromatin and transcription factors

(2013) Ty C. Voss et al.   NATURE REVIEWS GENETICS

Use and validation of HT/HC assays to support 21st century toxicity evaluations

(2013) Grace Patlewicz et al.   REGULATORY TOXICOLOGY AND PHARMACOLOGY

Potency matters: Thresholds govern endocrine activity

(2013) Christopher J. Borgert et al.   REGULATORY TOXICOLOGY AND PHARMACOLOGY

Genome-Wide RNAi High-Throughput Screen Identifies Proteins Necessary for the AHR-Dependent Induction of CYP1A1 by 2,3,7,8-Tetrachlorodibenzo-p-dioxin

(2013) Parrisa Solaimani et al.   TOXICOLOGICAL SCIENCES

The aryl hydrocarbon receptor and estrogen receptor alpha differentially modulate nuclear factor erythroid-2-related factor 2 transactivation in MCF-7 breast cancer cells

(2013) Raymond Lo et al.   TOXICOLOGY AND APPLIED PHARMACOLOGY

Scientifically unfounded precaution drives European Commission’s recommendations on EDC regulation, while defying common sense, well-established science and risk assessment principles

(2013) Daniel R. Dietrich et al.   TOXICOLOGY IN VITRO

AhR signalling and dioxin toxicity

(2013) Olivier Sorg   TOXICOLOGY LETTERS

Measurement and Modeling of Signaling at the Single-Cell Level

(2012) Sarah E. Kolitz et al.   BIOCHEMISTRY

Crosstalk and Competition in Signaling Networks

(2012) Michael A. Rowland et al.   BIOPHYSICAL JOURNAL

A model of estrogen-related gene expression reveals non-linear effects in transcriptional response to tamoxifen

(2012) Galina Lebedeva et al.   BMC Systems Biology

TGF-β1 signaling plays a dominant role in the crosstalk between TGF-β1 and the aryl hydrocarbon receptor ligand in prostate epithelial cells

(2012) Andrea Staršíchová et al.   CELLULAR SIGNALLING

The Aryl Hydrocarbon Receptor Complex and the Control of Gene Expression

(2012) Timothy V. Beischlag et al.   CRITICAL REVIEWS IN EUKARYOTIC GENE EXPRESSION

Architectural Genetic and Epigenetic Control of Regulatory Networks: Compartmentalizing Machinery for Transcription and chromatin remodeling in nuclear Microenvironments

(2012) Gary Stein et al.   CRITICAL REVIEWS IN EUKARYOTIC GENE EXPRESSION

Transcription factories: genetic programming in three dimensions

(2012) Lucas Brandon Edelman et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Hormones and Endocrine-Disrupting Chemicals: Low-Dose Effects and Nonmonotonic Dose Responses

(2012) Laura N. Vandenberg et al.   ENDOCRINE REVIEWS

Environmental Chemicals: Evaluating Low-Dose Effects

(2012) Linda S. Birnbaum   ENVIRONMENTAL HEALTH PERSPECTIVES

Using in Vitro High Throughput Screening Assays to Identify Potential Endocrine-Disrupting Chemicals

(2012) Daniel M. Rotroff et al.   ENVIRONMENTAL HEALTH PERSPECTIVES

Identification of Location and Kinetically Defined Mechanism of Cofactors and Reporter Genes in the Cascade of Steroid-regulated Transactivation

(2012) John A. Blackford et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

PA1 Protein, a New Competitive Decelerator Acting at More than One Step to Impede Glucocorticoid Receptor-mediated Transactivation

(2012) Zhenhuan Zhang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Aryl Hydrocarbon Receptor Repressor (AhRR) Function Revisited: Repression of CYP1 Activity in Human Skin Fibroblasts Is Not Related to AhRR Expression

(2012) Julia Tigges et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

2,3,7,8-Tetrachlorodibenzo-p-dioxin poly(ADP-ribose) polymerase (TiPARP, ARTD14) is a mono-ADP-ribosyltransferase and repressor of aryl hydrocarbon receptor transactivation

(2012) Laura MacPherson et al.   NUCLEIC ACIDS RESEARCH

Computing with Competition in Biochemical Networks

(2012) Anthony J. Genot et al.   PHYSICAL REVIEW LETTERS

Competition for Catalytic Resources Alters Biological Network Dynamics

(2012) Yannick Rondelez   PHYSICAL REVIEW LETTERS

Inhibition of cytochrome P4501-dependent clearance of the endogenous agonist FICZ as a mechanism for activation of the aryl hydrocarbon receptor

(2012) E. Wincent et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Low-dose effects and nonmonotonic dose–responses of endocrine disrupting chemicals: Has the case been made?

(2012) Lorenz R. Rhomberg et al.   REGULATORY TOXICOLOGY AND PHARMACOLOGY

High-Resolution Genome-wide Mapping of AHR and ARNT Binding Sites by ChIP-Seq

(2012) Raymond Lo et al.   TOXICOLOGICAL SCIENCES

Differential ligand-dependent activation and a role for Y322 in aryl hydrocarbon receptor-mediated regulation of gene expression

(2011) Melanie Powis et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Fitting Experimental Transcription Data with a Comprehensive Template-Dependent Modular Kinetic Model

(2011) Sandra J. Greive et al.   BIOPHYSICAL JOURNAL

Development of a “Modular” Scheme to Describe the Kinetics of Transcript Elongation by RNA Polymerase

(2011) Sandra J. Greive et al.   BIOPHYSICAL JOURNAL

Mulcom: a multiple comparison statistical test for microarray data in Bioconductor

(2011) Claudio Isella et al.   BMC BIOINFORMATICS

Integration of Genome-Wide Computation DRE Search, AhR ChIP-chip and Gene Expression Analyses of TCDD-Elicited Responses in the Mouse Liver

(2011) Edward Dere et al.   BMC GENOMICS

Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

(2011) Edward Dere et al.   BMC GENOMICS

Analysis of the Human Endogenous Coregulator Complexome

(2011) Anna Malovannaya et al.   CELL

Recent advances in single-cell studies of gene regulation

(2011) Jangir Selimkhanov et al.   CURRENT OPINION IN BIOTECHNOLOGY

Quantitative measurement of single cell dynamics

(2011) Denise Bakstad et al.   CURRENT OPINION IN BIOTECHNOLOGY

Nuclear export dynamics of RNA–protein complexes

(2011) David Grünwald et al.   NATURE

How Molecular Competition Influences Fluxes in Gene Expression Networks

(2011) Dirk De Vos et al.   PLoS One

Mediator-dependent nuclear receptor function

(2011) Wei Chen et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Exactly the Same but Different: Promiscuity and Diversity in the Molecular Mechanisms of Action of the Aryl Hydrocarbon (Dioxin) Receptor

(2011) Michael S. Denison et al.   TOXICOLOGICAL SCIENCES

Identification of aryl hydrocarbon receptor binding targets in mouse hepatic tissue treated with 2,3,7,8-tetrachlorodibenzo-p-dioxin

(2011) Raymond Lo et al.   TOXICOLOGY AND APPLIED PHARMACOLOGY

Emergence of structural patterns out of synchronization in networks with competitive interactions

(2011) Salvatore Assenza et al.   Scientific Reports

A Dynamical Model Reveals Gene Co-Localizations in Nucleus

(2011) Jing Kang et al.   PLoS Computational Biology

When NRF2 Talks, Who's Listening?

(2010) Nobunao Wakabayashi et al.   ANTIOXIDANTS & REDOX SIGNALING

Novel statistical framework to identify differentially expressed genes allowing transcriptomic background differences

(2010) Zhi-Qiang Ling et al.   BIOINFORMATICS

Endocrine Profiling and Prioritization of Environmental Chemicals Using ToxCast Data

(2010) David M. Reif et al.   ENVIRONMENTAL HEALTH PERSPECTIVES

The life of an mRNA in space and time

(2010) Y. Ben-Ari et al.   JOURNAL OF CELL SCIENCE

Gene expression variations are predictive for stochastic noise

(2010) Dong Dong et al.   NUCLEIC ACIDS RESEARCH

Processivity and Coupling in Messenger RNA Transcription

(2010) Stuart Aitken et al.   PLoS One

A theoretical framework for gene induction and experimental comparisons

(2010) K. M. Ong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA Processing and Export

(2010) S. Hocine et al.   Cold Spring Harbor Perspectives in Biology

Delayed Stochastic Model of Transcription at the Single Nucleotide Level

(2009) Andre S. Ribeiro et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Stochastic and delayed stochastic models of gene expression and regulation

(2009) Andre S. Ribeiro   MATHEMATICAL BIOSCIENCES

The Active Form of Human Aryl Hydrocarbon Receptor (AHR) Repressor Lacks Exon 8, and Its Pro185 and Ala185 Variants Repress both AHR and Hypoxia-Inducible Factor

(2009) S. I. Karchner et al.   MOLECULAR AND CELLULAR BIOLOGY

Transcription Dynamics

(2009) Gordon L. Hager et al.   MOLECULAR CELL

An oestrogen-receptor-α-bound human chromatin interactome

(2009) Melissa J. Fullwood et al.   NATURE

Importance of steroid receptor coactivators in the modulation of steroid action on brain and behavior

(2009) Thierry D. Charlier   PSYCHONEUROENDOCRINOLOGY

Cross-talk between Transcription Factors AhR and Nrf2: Lessons for Cancer Chemoprevention from Dioxin

(2009) John D. Hayes et al.   TOXICOLOGICAL SCIENCES

Introducing the “TCDD-Inducible AhR-Nrf2 Gene Battery”

(2009) Ronnie L. Yeager et al.   TOXICOLOGICAL SCIENCES

The aryl hydrocarbon receptor cross-talks with multiple signal transduction pathways

(2008) Alvaro Puga et al.   BIOCHEMICAL PHARMACOLOGY

What goes on behind closed doors: physiological versus pharmacological steroid hormone actions

(2008) S. Stoney Simons   BIOESSAYS

The Suggested Physiologic Aryl Hydrocarbon Receptor Activator and Cytochrome P4501 Substrate 6-Formylindolo[3,2-b]carbazole Is Present in Humans

(2008) Emma Wincent et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Using molecular tethering to analyze the role of nuclear compartmentalization in the regulation of mammalian gene activity

(2008) K.L. Reddy et al.   METHODS

The Dynamic Range of Transcription

(2008) Xavier Darzacq et al.   MOLECULAR CELL

Modulation of RNA Polymerase Assembly Dynamics in Transcriptional Regulation

(2008) Stanislaw A. Gorski et al.   MOLECULAR CELL

Variability and Robustness in T Cell Activation from Regulated Heterogeneity in Protein Levels

(2008) O. Feinerman et al.   SCIENCE

Fluctuations, Pauses, and Backtracking in DNA Transcription

(2007) Margaritis Voliotis et al.   BIOPHYSICAL JOURNAL

Dynamics of coactivator recruitment and chromatin modifications during nuclear receptor mediated transcription

(2007) Sayura Aoyagi et al.   MOLECULAR AND CELLULAR ENDOCRINOLOGY

The Transcription Factor Aryl Hydrocarbon Receptor Nuclear Translocator Functions as an Estrogen Receptor β-Selective Coactivator, and Its Recruitment to Alternative Pathways Mediates Antiestrogenic Effects of Dioxin

(2007) Joëlle Rüegg et al.   MOLECULAR ENDOCRINOLOGY