Computational analysis of target hub gene repression regulated by multiple and cooperative miRNAs

MIR@NT@N: a framework integrating transcription factors, microRNAs and their targets to identify sub-network motifs in a meta-regulation network model

(2011) Antony Le Béchec et al.   BMC BIOINFORMATICS

miRWalk – Database: Prediction of possible miRNA binding sites by “walking” the genes of three genomes

(2011) Harsh Dweep et al.   JOURNAL OF BIOMEDICAL INFORMATICS

Mitotic catastrophe: a mechanism for avoiding genomic instability

(2011) Ilio Vitale et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The IntAct molecular interaction database in 2012

(2011) S. Kerrien et al.   NUCLEIC ACIDS RESEARCH

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

(2011) Matteo Osella et al.   PLoS Computational Biology

PuTmiR: A database for extracting neighboring transcription factors of human microRNAs

(2010) Sanghamitra Bandyopadhyay et al.   BMC BIOINFORMATICS

Hsa-miR-125a-3p and hsa-miR-125a-5p are downregulated in non-small cell lung cancer and have inverse effects on invasion and migration of lung cancer cells

(2010) Lili Jiang et al.   BMC CANCER

Dynamical modeling of microRNA action on the protein translation process

(2010) Andrei Zinovyev et al.   BMC Systems Biology

An iterative identification procedure for dynamic modeling of biochemical networks

(2010) Eva Balsa-Canto et al.   BMC Systems Biology

Examination of the expanding pathways for the regulation of p21 expression and activity

(2010) Yong-Sam Jung et al.   CELLULAR SIGNALLING

MicroRNAs and gene regulatory networks: managing the impact of noise in biological systems

(2010) H. Herranz et al.   GENES & DEVELOPMENT

Investigating dynamics of inhibitory and feedback loops in ERK signalling using power-law models

(2010) Julio Vera et al.   Molecular BioSystems

MicroRNA assassins: factors that regulate the disappearance of miRNAs

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

Numerical modelling of microRNA-mediated mRNA decay identifies novel mechanism of microRNA controlled mRNA downregulation

(2010) Jiri Vohradsky et al.   NUCLEIC ACIDS RESEARCH

miRTarBase: a database curates experimentally validated microRNA–target interactions

(2010) Sheng-Da Hsu et al.   NUCLEIC ACIDS RESEARCH

The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored

(2010) D. Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

Multiple microRNAs rescue from Ras-induced senescence by inhibiting p21Waf1/Cip1

(2010) V Borgdorff et al.   ONCOGENE

Multiple microRNAs modulate p21Cip1/Waf1 expression by directly targeting its 3′ untranslated region

(2010) S Wu et al.   ONCOGENE

A model-based strategy to investigate the role of microRNA regulation in cancer signalling networks

(2010) Svetoslav Nikolov et al.   THEORY IN BIOSCIENCES

Network Modeling Identifies Molecular Functions Targeted by miR-204 to Suppress Head and Neck Tumor Metastasis

(2010) Younghee Lee et al.   PLoS Computational Biology

MicroRNAs: Target Recognition and Regulatory Functions

(2009) David P. Bartel   CELL

Dynamical effects of epigenetic silencing of 14-3-3σ expression

(2009) Julio Vera et al.   Molecular BioSystems

14-3-3σ gene silencing during melanoma progression and its role in cell cycle control and cellular senescence

(2009) Julia Schultz et al.   Molecular Cancer

The Systems Biology Graphical Notation

(2009) Nicolas Le Novère et al.   NATURE BIOTECHNOLOGY

miRGen 2.0: a database of microRNA genomic information and regulation

(2009) Panagiotis Alexiou et al.   NUCLEIC ACIDS RESEARCH

Combinatorial network of primary and secondary microRNA-driven regulatory mechanisms

(2009) Kang Tu et al.   NUCLEIC ACIDS RESEARCH

TransmiR: a transcription factor–microRNA regulation database

(2009) Juan Wang et al.   NUCLEIC ACIDS RESEARCH

Phenotypes and tolerances in the design space of biochemical systems

(2009) M. A. Savageau et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Computational Modeling of Post-Transcriptional Gene Regulation by MicroRNAs

(2008) Raya Khanin et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

p53-repressed miRNAs are involved with E2F in a feed-forward loop promoting proliferation

(2008) Ran Brosh et al.   Molecular Systems Biology

Widespread changes in protein synthesis induced by microRNAs

(2008) Matthias Selbach et al.   NATURE

Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight?

(2008) Witold Filipowicz et al.   NATURE REVIEWS GENETICS

Human Protein Reference Database--2009 update

(2008) T. S. Keshava Prasad et al.   NUCLEIC ACIDS RESEARCH

miRecords: an integrated resource for microRNA-target interactions

(2008) F. Xiao et al.   NUCLEIC ACIDS RESEARCH

MicroRNA regulation of a cancer network: Consequences of the feedback loops involving miR-17-92, E2F, and Myc

(2008) B. D. Aguda et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Computational analysis of miRNA-mediated repression of translation: Implications for models of translation initiation inhibition

(2008) T. Nissan et al.   RNA