Published in Nucleic Acids Res on January 01, 2006
The microRNA.org resource: targets and expression. Nucleic Acids Res (2007) 16.26
miRTarBase: a database curates experimentally validated microRNA-target interactions. Nucleic Acids Res (2010) 5.72
miRDB: a microRNA target prediction and functional annotation database with a wiki interface. RNA (2008) 5.48
MicroRNA dysregulation in cancer: diagnostics, monitoring and therapeutics. A comprehensive review. EMBO Mol Med (2012) 5.46
miRGen: a database for the study of animal microRNA genomic organization and function. Nucleic Acids Res (2006) 4.91
microRNA involvement in human cancer. Carcinogenesis (2012) 2.98
Identification of a microRNA that activates gene expression by repressing nonsense-mediated RNA decay. Mol Cell (2011) 2.73
miRGator: an integrated system for functional annotation of microRNAs. Nucleic Acids Res (2007) 2.59
RegRNA: an integrated web server for identifying regulatory RNA motifs and elements. Nucleic Acids Res (2006) 2.43
The interplay between the master transcription factor PU.1 and miR-424 regulates human monocyte/macrophage differentiation. Proc Natl Acad Sci U S A (2007) 2.34
Joint genome-wide profiling of miRNA and mRNA expression in Alzheimer's disease cortex reveals altered miRNA regulation. PLoS One (2010) 2.26
The Molecular Biology Database Collection: 2007 update. Nucleic Acids Res (2006) 2.03
fRNAdb: a platform for mining/annotating functional RNA candidates from non-coding RNA sequences. Nucleic Acids Res (2006) 1.94
MicroRNAs as effectors of brain function with roles in ischemia and injury, neuroprotection, and neurodegeneration. J Cereb Blood Flow Metab (2010) 1.92
An array-based analysis of microRNA expression comparing matched frozen and formalin-fixed paraffin-embedded human tissue samples. J Mol Diagn (2008) 1.82
Inferring microRNA activities by combining gene expression with microRNA target prediction. PLoS One (2008) 1.71
Generation of a conditionally replicating adenovirus based on targeted destruction of E1A mRNA by a cell type-specific MicroRNA. J Virol (2008) 1.58
Cellular versus viral microRNAs in host-virus interaction. Nucleic Acids Res (2008) 1.50
MiR-146b-5p suppresses EGFR expression and reduces in vitro migration and invasion of glioma. Cancer Invest (2010) 1.35
miRTar: an integrated system for identifying miRNA-target interactions in human. BMC Bioinformatics (2011) 1.30
MicroRNA-218 is deleted and downregulated in lung squamous cell carcinoma. PLoS One (2010) 1.30
Identification of novel Drosophila melanogaster microRNAs. PLoS One (2007) 1.28
miRRim: a novel system to find conserved miRNAs with high sensitivity and specificity. RNA (2007) 1.21
A new advance in alternative splicing databases: from catalogue to detailed analysis of regulation of expression and function of human alternative splicing variants. BMC Bioinformatics (2007) 1.21
ViTa: prediction of host microRNAs targets on viruses. Nucleic Acids Res (2006) 1.21
Vir-Mir db: prediction of viral microRNA candidate hairpins. Nucleic Acids Res (2007) 1.14
Shielding the messenger (RNA): microRNA-based anticancer therapies. Pharmacol Ther (2011) 1.12
Epigenetic modulation of miR-122 facilitates human embryonic stem cell self-renewal and hepatocellular carcinoma proliferation. PLoS One (2011) 1.11
Identification of candidate miRNA biomarkers from miRNA regulatory network with application to prostate cancer. J Transl Med (2014) 1.10
Evaluation of a new high-dimensional miRNA profiling platform. BMC Med Genomics (2009) 1.08
Identification of candidate regulatory sequences in mammalian 3' UTRs by statistical analysis of oligonucleotide distributions. BMC Bioinformatics (2007) 1.05
Bioinformatic tools for microRNA dissection. Nucleic Acids Res (2015) 1.02
Identification of Schistosoma mansoni microRNAs. BMC Genomics (2011) 1.00
miRNEST database: an integrative approach in microRNA search and annotation. Nucleic Acids Res (2011) 0.99
CoGemiR: a comparative genomics microRNA database. BMC Genomics (2008) 0.97
Polysome trafficking of transcripts and microRNAs in regenerating liver after partial hepatectomy. Am J Physiol Gastrointest Liver Physiol (2009) 0.97
Computational methods for the identification of microRNA targets. Open Access Bioinformatics (2010) 0.96
Investigation of miRNA biology by bioinformatic tools and impact of miRNAs in colorectal cancer--regulatory relationship of c-Myc and p53 with miRNAs. Cancer Inform (2007) 0.96
Heterogeneous ensemble approach with discriminative features and modified-SMOTEbagging for pre-miRNA classification. Nucleic Acids Res (2012) 0.93
3'UTR-located ALU elements: donors of potential miRNA target sites and mediators of network miRNA-based regulatory interactions. Evol Bioinform Online (2007) 0.90
Regulatory conservation of protein coding and microRNA genes in vertebrates: lessons from the opossum genome. Genome Biol (2007) 0.90
Quantification of small non-coding RNAs allows an accurate comparison of miRNA expression profiles. J Biomed Biotechnol (2009) 0.88
Identification of host encoded microRNAs interacting with novel swine-origin influenza A (H1N1) virus and swine influenza virus. Bioinformation (2009) 0.88
High-throughput experimental studies to identify miRNA targets directly, with special focus on the mammalian brain. Brain Res (2010) 0.86
Noninvasive micromarkers. Clin Chem (2014) 0.86
Beyond the gene. PLoS One (2007) 0.84
Prediction of altered 3'- UTR miRNA-binding sites from RNA-Seq data: the swine leukocyte antigen complex (SLA) as a model region. PLoS One (2012) 0.83
SECIS elements in the coding regions of selenoprotein transcripts are functional in higher eukaryotes. Nucleic Acids Res (2006) 0.83
Use of tiling array data and RNA secondary structure predictions to identify noncoding RNA genes. BMC Genomics (2007) 0.83
Meta-analysis and profiling of cardiac expression modules. Physiol Genomics (2008) 0.82
Evidence for association with hepatocellular carcinoma at the PAPSS1 locus on chromosome 4q25 in a family-based study. Eur J Hum Genet (2009) 0.82
Overview of microRNA biology. Semin Liver Dis (2015) 0.82
Characterization of a set of tumor suppressor microRNAs in T cell acute lymphoblastic leukemia. Sci Signal (2014) 0.82
Copy number variations burden on miRNA genes reveals layers of complexities involved in the regulation of pathways and phenotypic expression. PLoS One (2014) 0.81
Host MicroRNA miR-197 Plays a Negative Regulatory Role in the Enterovirus 71 Infectious Cycle by Targeting the RAN Protein. J Virol (2015) 0.81
Accumulated common variants in the broader fragile X gene family modulate autistic phenotypes. EMBO Mol Med (2015) 0.80
Rule discovery and distance separation to detect reliable miRNA biomarkers for the diagnosis of lung squamous cell carcinoma. BMC Genomics (2014) 0.80
Validation of miRNA-mRNA interactions by electrophoretic mobility shift assays. BMC Res Notes (2013) 0.79
Bioinformatics Resources for MicroRNA Discovery. Biomark Insights (2016) 0.78
OncomiRdbB: a comprehensive database of microRNAs and their targets in breast cancer. BMC Bioinformatics (2014) 0.77
Correlation of microsynteny conservation and disease gene distribution in mammalian genomes. BMC Genomics (2009) 0.76
Integrating omics technologies to study pulmonary physiology and pathology at the systems level. Cell Physiol Biochem (2014) 0.76
Web-based tools for microRNAs involved in human cancer. Oncol Lett (2016) 0.75
Human Ribosomal RNA-Derived Resident MicroRNAs as the Transmitter of Information upon the Cytoplasmic Cancer Stress. Biomed Res Int (2016) 0.75
Label-Free Isothermal Amplification Assay for Specific and Highly Sensitive Colorimetric miRNA Detection. ACS Omega (2016) 0.75
Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell (2005) 96.87
Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res (2003) 77.89
MicroRNA expression profiles classify human cancers. Nature (2005) 69.12
The Gene Ontology (GO) database and informatics resource. Nucleic Acids Res (2004) 54.37
Prediction of mammalian microRNA targets. Cell (2003) 53.70
Combinatorial microRNA target predictions. Nat Genet (2005) 50.48
Human MicroRNA targets. PLoS Biol (2004) 34.51
The UCSC Genome Browser Database. Nucleic Acids Res (2003) 32.84
The microRNA Registry. Nucleic Acids Res (2004) 29.45
Human microRNA genes are frequently located at fragile sites and genomic regions involved in cancers. Proc Natl Acad Sci U S A (2004) 28.29
A uniform system for microRNA annotation. RNA (2003) 20.28
Vienna RNA secondary structure server. Nucleic Acids Res (2003) 19.69
Fast and effective prediction of microRNA/target duplexes. RNA (2004) 18.10
Ensembl 2005. Nucleic Acids Res (2005) 15.13
Fast and reliable prediction of noncoding RNAs. Proc Natl Acad Sci U S A (2005) 8.15
Sizing up miRNAs as cancer genes. Nat Med (2005) 2.48
The HUGO Mutation Database Initiative. Science (1998) 1.95
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09
RNA maps reveal new RNA classes and a possible function for pervasive transcription. Science (2007) 18.59
Identification of functional elements and regulatory circuits by Drosophila modENCODE. Science (2010) 12.39
ViennaRNA Package 2.0. Algorithms Mol Biol (2011) 9.43
The Vienna RNA websuite. Nucleic Acids Res (2008) 9.02
Secondary structure prediction for aligned RNA sequences. J Mol Biol (2002) 8.80
A high-resolution map of human evolutionary constraint using 29 mammals. Nature (2011) 8.67
Fast and reliable prediction of noncoding RNAs. Proc Natl Acad Sci U S A (2005) 8.15
The primary transcriptome of the major human pathogen Helicobacter pylori. Nature (2010) 7.70
Molecular evolution of a microRNA cluster. J Mol Biol (2004) 5.94
miRTarBase: a database curates experimentally validated microRNA-target interactions. Nucleic Acids Res (2010) 5.72
Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis. PLoS Biol (2010) 5.39
Interleukin-6 dependent survival of multiple myeloma cells involves the Stat3-mediated induction of microRNA-21 through a highly conserved enhancer. Blood (2007) 5.14
tRNAdb 2009: compilation of tRNA sequences and tRNA genes. Nucleic Acids Res (2008) 4.88
Mapping of conserved RNA secondary structures predicts thousands of functional noncoding RNAs in the human genome. Nat Biotechnol (2005) 4.68
MicroRNA-122, a tumor suppressor microRNA that regulates intrahepatic metastasis of hepatocellular carcinoma. Hepatology (2009) 4.36
Inferring noncoding RNA families and classes by means of genome-scale structure-based clustering. PLoS Comput Biol (2007) 4.28
Fast mapping of short sequences with mismatches, insertions and deletions using index structures. PLoS Comput Biol (2009) 4.24
miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions. Nucleic Acids Res (2013) 4.19
Proteinortho: detection of (co-)orthologs in large-scale analysis. BMC Bioinformatics (2011) 4.15
MicroRNA-122 plays a critical role in liver homeostasis and hepatocarcinogenesis. J Clin Invest (2012) 3.46
MITOS: improved de novo metazoan mitochondrial genome annotation. Mol Phylogenet Evol (2012) 3.41
The reality of pervasive transcription. PLoS Biol (2011) 3.41
RNAalifold: improved consensus structure prediction for RNA alignments. BMC Bioinformatics (2008) 3.29
Thermodynamics of RNA-RNA binding. Bioinformatics (2006) 3.10
miRNAMap 2.0: genomic maps of microRNAs in metazoan genomes. Nucleic Acids Res (2007) 3.05
Fungal small RNAs suppress plant immunity by hijacking host RNA interference pathways. Science (2013) 2.99
A benchmark of multiple sequence alignment programs upon structural RNAs. Nucleic Acids Res (2005) 2.89
The expansion of the metazoan microRNA repertoire. BMC Genomics (2006) 2.80
The African coelacanth genome provides insights into tetrapod evolution. Nature (2013) 2.78
Memory efficient folding algorithms for circular RNA secondary structures. Bioinformatics (2006) 2.77
Partition function and base pairing probabilities of RNA heterodimers. Algorithms Mol Biol (2006) 2.74
KinasePhos 2.0: a web server for identifying protein kinase-specific phosphorylation sites based on sequences and coupling patterns. Nucleic Acids Res (2007) 2.69
Structured RNAs in the ENCODE selected regions of the human genome. Genome Res (2007) 2.69
The impact of target site accessibility on the design of effective siRNAs. Nat Biotechnol (2008) 2.51
Consensus folding of aligned sequences as a new measure for the detection of functional RNAs by comparative genomics. J Mol Biol (2004) 2.49
RegRNA: an integrated web server for identifying regulatory RNA motifs and elements. Nucleic Acids Res (2006) 2.43
Alignment of RNA base pairing probability matrices. Bioinformatics (2004) 2.42
Flow-Dependent Regulation of Kruppel-Like Factor 2 Is Mediated by MicroRNA-92a. Circulation (2011) 2.29
dbPTM: an information repository of protein post-translational modification. Nucleic Acids Res (2006) 2.28
Evolution. Transitions from nonliving to living matter. Science (2004) 2.26
miRExpress: analyzing high-throughput sequencing data for profiling microRNA expression. BMC Bioinformatics (2009) 2.22
TET1 suppresses cancer invasion by activating the tissue inhibitors of metalloproteinases. Cell Rep (2012) 2.20
Local RNA base pairing probabilities in large sequences. Bioinformatics (2005) 2.17
Rapid detection and identification of clinically important bacteria by high-resolution melting analysis after broad-range ribosomal RNA real-time PCR. Clin Chem (2006) 2.17
Hairpins in a Haystack: recognizing microRNA precursors in comparative genomics data. Bioinformatics (2006) 2.13
Small ncRNA transcriptome analysis from Aspergillus fumigatus suggests a novel mechanism for regulation of protein synthesis. Nucleic Acids Res (2008) 2.10
Recurrent mutation of the ID3 gene in Burkitt lymphoma identified by integrated genome, exome and transcriptome sequencing. Nat Genet (2012) 2.07
Arabidopsis Argonaute 2 regulates innate immunity via miRNA393(∗)-mediated silencing of a Golgi-localized SNARE gene, MEMB12. Mol Cell (2011) 2.01
Clusters of nucleotide substitutions and insertion/deletion mutations are associated with repeat sequences. PLoS Biol (2011) 1.95
Multiplex PCR system for rapid detection of pathogens in patients with presumed sepsis - a systemic review and meta-analysis. PLoS One (2013) 1.94
Locating protein-coding sequences under selection for additional, overlapping functions in 29 mammalian genomes. Genome Res (2011) 1.91
Variations on RNA folding and alignment: lessons from Benasque. J Math Biol (2007) 1.91
The RNAz web server: prediction of thermodynamically stable and evolutionarily conserved RNA structures. Nucleic Acids Res (2007) 1.88
RNAz 2.0: improved noncoding RNA detection. Pac Symp Biocomput (2010) 1.87
A survey of nematode SmY RNAs. RNA Biol (2009) 1.85
Conserved RNA secondary structures in Flaviviridae genomes. J Gen Virol (2004) 1.81
RNAplex: a fast tool for RNA-RNA interaction search. Bioinformatics (2008) 1.80
miR-103/107 promote metastasis of colorectal cancer by targeting the metastasis suppressors DAPK and KLF4. Cancer Res (2012) 1.77
Evolution of microRNAs located within Hox gene clusters. J Exp Zool B Mol Dev Evol (2005) 1.77
Centers of complex networks. J Theor Biol (2003) 1.74
RNAcentral: A vision for an international database of RNA sequences. RNA (2011) 1.73
DbPTM 3.0: an informative resource for investigating substrate site specificity and functional association of protein post-translational modifications. Nucleic Acids Res (2012) 1.71
The mechanism of growth-inhibitory effect of DOC-2/DAB2 in prostate cancer. Characterization of a novel GTPase-activating protein associated with N-terminal domain of DOC-2/DAB2. J Biol Chem (2002) 1.68
PlantPAN: Plant promoter analysis navigator, for identifying combinatorial cis-regulatory elements with distance constraint in plant gene groups. BMC Genomics (2008) 1.68
Identifying transcriptional start sites of human microRNAs based on high-throughput sequencing data. Nucleic Acids Res (2011) 1.64
DDX3, a DEAD box RNA helicase with tumor growth-suppressive property and transcriptional regulation activity of the p21waf1/cip1 promoter, is a candidate tumor suppressor. Cancer Res (2006) 1.61
A multi-split mapping algorithm for circular RNA, splicing, trans-splicing and fusion detection. Genome Biol (2014) 1.60
AREsite: a database for the comprehensive investigation of AU-rich elements. Nucleic Acids Res (2010) 1.58
Evidence for human microRNA-offset RNAs in small RNA sequencing data. Bioinformatics (2009) 1.55
The "fish-specific" Hox cluster duplication is coincident with the origin of teleosts. Mol Biol Evol (2005) 1.54
Phosphorylation and stabilization of HURP by Aurora-A: implication of HURP as a transforming target of Aurora-A. Mol Cell Biol (2005) 1.54
SnoReport: computational identification of snoRNAs with unknown targets. Bioinformatics (2007) 1.51