miRTar2GO: a novel rule-based model learning method for cell line specific microRNA target prediction that integrates Ago2 CLIP-Seq and validated microRNA–target interaction data

RNA Binding Proteins in the miRNA Pathway

(2015) Patrick Connerty et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Widespread context dependency of microRNA-mediated regulation

(2014) F. Erhard et al.   GENOME RESEARCH

DIANA-TarBase v7.0: indexing more than half a million experimentally supported miRNA:mRNA interactions

(2014) Ioannis S. Vlachos et al.   NUCLEIC ACIDS RESEARCH

3′LIFE: a functional assay to detect miRNA targets in high-throughput

(2014) Justin M. Wolter et al.   NUCLEIC ACIDS RESEARCH

Direct Conversion of Fibroblasts to Neurons by Reprogramming PTB-Regulated MicroRNA Circuits

(2013) Yuanchao Xue et al.   CELL

Mapping the Human miRNA Interactome by CLASH Reveals Frequent Noncanonical Binding

(2013) Aleksandra Helwak et al.   CELL

In-Silico Algorithms for the Screening of Possible microRNA Binding Sites and Their Interactions

(2013) Harsh Dweep et al.   CURRENT GENOMICS

Biogenesis and the regulation of the maturation of miRNAs

(2013) Nham Tran et al.   Essays in Biochemistry

Remodeling of Ago2-mRNA interactions upon cellular stress reflects miRNA complementarity and correlates with altered translation rates

(2013) F. V. Karginov et al.   GENES & DEVELOPMENT

starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein–RNA interaction networks from large-scale CLIP-Seq data

(2013) Jun-Hao Li et al.   NUCLEIC ACIDS RESEARCH

Functional microRNA targets in protein coding sequences

(2012) Martin Reczko et al.   BIOINFORMATICS

EBV and human microRNAs co-target oncogenic and apoptotic viral and human genes during latency

(2012) Kasandra J Riley et al.   EMBO JOURNAL

An alternative mode of microRNA target recognition

(2012) Sung Wook Chi et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Translational inhibition by deadenylation-independent mechanisms is central to microRNA-mediated silencing in zebrafish

(2012) Y. Mishima et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Viral and Cellular MicroRNA Targetome in Lymphoblastoid Cell Lines

(2012) Rebecca L. Skalsky et al.   PLoS Pathogens

The sufficient minimal set of miRNA seed types

(2011) Daniel C. Ellwanger et al.   BIOINFORMATICS

Viral MicroRNA Targetome of KSHV-Infected Primary Effusion Lymphoma Cell Lines

(2011) Eva Gottwein et al.   Cell Host & Microbe

Practical Aspects of microRNA Target Prediction

(2011) T. M. Witkos et al.   CURRENT MOLECULAR MEDICINE

Genome-wide identification of microRNA targets in human ES cells reveals a role for miR-302 in modulating BMP response

(2011) I. Lipchina et al.   GENES & DEVELOPMENT

A quantitative analysis of CLIP methods for identifying binding sites of RNA-binding proteins

(2011) Shivendra Kishore et al.   NATURE METHODS

hiPathDB: a human-integrated pathway database with facile visualization

(2011) N. Yu et al.   NUCLEIC ACIDS RESEARCH

Experimental strategies for microRNA target identification

(2011) D. W. Thomson et al.   NUCLEIC ACIDS RESEARCH

Assessing the Utility of Thermodynamic Features for microRNA Target Prediction under Relaxed Seed and No Conservation Requirements

(2011) Parawee Lekprasert et al.   PLoS One

TargetSpy: a supervised machine learning approach for microRNA target prediction

(2010) Martin Sturm et al.   BMC BIOINFORMATICS

Transcriptome-wide Identification of RNA-Binding Protein and MicroRNA Target Sites by PAR-CLIP

(2010) Markus Hafner et al.   CELL

Desperately seeking microRNA targets

(2010) Marshall Thomas et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Efficient use of accessibility in microRNA target prediction

(2010) Ray M. Marín et al.   NUCLEIC ACIDS RESEARCH

miRTarBase: a database curates experimentally validated microRNA–target interactions

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

starBase: a database for exploring microRNA–mRNA interaction maps from Argonaute CLIP-Seq and Degradome-Seq data

(2010) Jian-Hua Yang et al.   NUCLEIC ACIDS RESEARCH

Reactome: a database of reactions, pathways and biological processes

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

TargetMiner: microRNA target prediction with systematic identification of tissue-specific negative examples

(2009) Sanghamitra Bandyopadhyay et al.   BIOINFORMATICS

Accurate microRNA target prediction correlates with protein repression levels

(2009) Manolis Maragkakis et al.   BMC BIOINFORMATICS

MicroRNAs: Target Recognition and Regulatory Functions

(2009) David P. Bartel   CELL

DIANA-microT web server: elucidating microRNA functions through target prediction

(2009) M. Maragkakis et al.   NUCLEIC ACIDS RESEARCH

Getting to the Root of miRNA-Mediated Gene Silencing

(2008) Ana Eulalio et al.   CELL

Faulty old ideas about translational regulation paved the way for current confusion about how microRNAs function

(2008) Marilyn Kozak   GENE

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

PID: the Pathway Interaction Database

(2008) Carl F. Schaefer et al.   NUCLEIC ACIDS RESEARCH

miRDB: A microRNA target prediction and functional annotation database with a wiki interface

(2008) X. Wang   RNA