Reciprocal regulation between mRNA and microRNA enables a bistable switch that directs cell fate decisions

Competing endogenous RNA networks: tying the essential knots for cancer biology and therapeutics

(2015) Avencia Sanchez-Mejias et al.   Journal of Hematology & Oncology

Model-guided quantitative analysis of microRNA-mediated regulation on competing endogenous RNAs using a synthetic gene circuit

(2015) Ye Yuan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An Ovol2-Zeb1 Mutual Inhibitory Circuit Governs Bidirectional and Multi-step Transition between Epithelial and Mesenchymal States

(2015) Tian Hong et al.   PLoS Computational Biology

RNA-Based Regulation: Dynamics and Response to Perturbations of Competing RNAs

(2014) Matteo Figliuzzi et al.   BIOPHYSICAL JOURNAL

IL-6R/STAT3/miR-34a feedback loop promotes EMT-mediated colorectal cancer invasion and metastasis

(2014) Matjaz Rokavec et al.   JOURNAL OF CLINICAL INVESTIGATION

Endogenous miRNA and Target Concentrations Determine Susceptibility to Potential ceRNA Competition

(2014) Andrew D. Bosson et al.   MOLECULAR CELL

The multilayered complexity of ceRNA crosstalk and competition

(2014) Yvonne Tay et al.   NATURE

Statistical Mechanics Model for the Dynamics of Collective Epigenetic Histone Modification

(2014) Hang Zhang et al.   PHYSICAL REVIEW LETTERS

Ultrasensitivity part II: multisite phosphorylation, stoichiometric inhibitors, and positive feedback

(2014) James E. Ferrell et al.   TRENDS IN BIOCHEMICAL SCIENCES

Interplay of microRNA and epigenetic regulation in the human regulatory network

(2014) Matteo Osella et al.   Frontiers in Genetics

Coupled Reversible and Irreversible Bistable Switches Underlying TGFβ-induced Epithelial to Mesenchymal Transition

(2013) Xiao-Jun Tian et al.   BIOPHYSICAL JOURNAL

MicroRNAs as a Selective Channel of Communication between Competing RNAs: a Steady-State Theory

(2013) Matteo Figliuzzi et al.   BIOPHYSICAL JOURNAL

A microRNA miR-34a-Regulated Bimodal Switch Targets Notch in Colon Cancer Stem Cells

(2013) Pengcheng Bu et al.   Cell Stem Cell

Regulation of epithelial–mesenchymal and mesenchymal–epithelial transitions by microRNAs

(2013) Samy Lamouille et al.   CURRENT OPINION IN CELL BIOLOGY

Control of metastatic progression by microRNA regulatory networks

(2013) Nora Pencheva et al.   NATURE CELL BIOLOGY

Diversifying microRNA sequence and function

(2013) Stefan L. Ameres et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

PolymiRTS Database 3.0: linking polymorphisms in microRNAs and their target sites with human diseases and biological pathways

(2013) Anindya Bhattacharya et al.   NUCLEIC ACIDS RESEARCH

MicroRNAs and cancer stem cells: the sword and the shield

(2013) X Sun et al.   ONCOGENE

Modelling Competing Endogenous RNA Networks

(2013) Carla Bosia et al.   PLoS One

MicroRNA-based regulation of epithelial-hybrid-mesenchymal fate determination

(2013) M. Lu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Integrated transcriptional and competitive endogenous RNA networks are cross-regulated in permissive molecular environments

(2013) U. Ala et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ultrasensitive response motifs: basic amplifiers in molecular signalling networks

(2013) Q. Zhang et al.   Open Biology

Roles for MicroRNAs in Conferring Robustness to Biological Processes

(2012) Margaret S. Ebert et al.   CELL

miR-34 and SNAIL form a double-negative feedback loop to regulate epithelial-mesenchymal transitions

(2012) Helge Siemens et al.   CELL CYCLE

The functions of microRNAs in pluripotency and reprogramming

(2012) Trevor R. Leonardo et al.   NATURE CELL BIOLOGY

Mechanisms generating bistability and oscillations in microRNA-mediated motifs

(2012) Peipei Zhou et al.   PHYSICAL REVIEW E

MicroRNA turnover: when, how, and why

(2012) Stefan Rüegger et al.   TRENDS IN BIOCHEMICAL SCIENCES

Hybrid Models and Biological Model Reduction with PyDSTool

(2012) Robert Clewley   PLoS Computational Biology

MODELING AND ANALYSIS OF BIOPATHWAYS DYNAMICS

(2012) BING LIU et al.   Journal of Bioinformatics and Computational Biology

In Vivo Identification of Tumor- Suppressive PTEN ceRNAs in an Oncogenic BRAF-Induced Mouse Model of Melanoma

(2011) Florian A. Karreth et al.   CELL

A ceRNA Hypothesis: The Rosetta Stone of a Hidden RNA Language?

(2011) Leonardo Salmena et al.   CELL

MiR-34, SIRT1, and p53: The feedback loop

(2011) Munekazu Yamakuchi et al.   CELL CYCLE

Kinetic Analysis Reveals the Fate of a MicroRNA following Target Regulation in Mammalian Cells

(2011) Alessia Baccarini et al.   CURRENT BIOLOGY

Target-Mediated Protection of Endogenous MicroRNAs in C. elegans

(2011) Saibal Chatterjee et al.   DEVELOPMENTAL CELL

MicroRNAs can generate thresholds in target gene expression

(2011) Shankar Mukherji et al.   NATURE GENETICS

Gene silencing by microRNAs: contributions of translational repression and mRNA decay

(2011) Eric Huntzinger et al.   NATURE REVIEWS GENETICS

The Role of Incoherent MicroRNA-Mediated Feedforward Loops in Noise Buffering

(2011) Matteo Osella et al.   PLoS Computational Biology

The ZEB/miR-200 feedback loop—a motor of cellular plasticity in development and cancer?

(2010) Simone Brabletz et al.   EMBO REPORTS

Genome-wide Dissection of MicroRNA Functions and Cotargeting Networks Using Gene Set Signatures

(2010) John S. Tsang et al.   MOLECULAR CELL

MicroRNA assassins: factors that regulate the disappearance of miRNAs

(2010) Zoya S Kai et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Down-Regulation of a Host MicroRNA by a Herpesvirus saimiri Noncoding RNA

(2010) D. Cazalla et al.   SCIENCE

Target RNA-Directed Trimming and Tailing of Small Silencing RNAs

(2010) S. L. Ameres et al.   SCIENCE

Small RNAs and Their Roles in Plant Development

(2009) Xuemei Chen   Annual Review of Cell and Developmental Biology

MicroRNAs: Target Recognition and Regulatory Functions

(2009) David P. Bartel   CELL

Mechanisms of miRNA-mediated post-transcriptional regulation in animal cells

(2009) Marina Chekulaeva et al.   CURRENT OPINION IN CELL BIOLOGY

Active turnover modulates mature microRNA activity in Caenorhabditis elegans

(2009) Saibal Chatterjee et al.   NATURE

Interlinking positive and negative feedback loops creates a tunable motif in gene regulatory networks

(2009) Xiao-Jun Tian et al.   PHYSICAL REVIEW E

Molecular Titration and Ultrasensitivity in Regulatory Networks

(2008) Nicolas E. Buchler et al.   JOURNAL OF MOLECULAR BIOLOGY

The impact of microRNAs on protein output

(2008) Daehyun Baek et al.   NATURE

Widespread changes in protein synthesis induced by microRNAs

(2008) Matthias Selbach et al.   NATURE

Design principles of biochemical oscillators

(2008) Béla Novák et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY