Published in Genome Res on October 27, 2008
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Mammalian microRNAs predominantly act to decrease target mRNA levels. Nature (2010) 22.04
Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP. Cell (2010) 17.87
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A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA. Cell (2011) 9.24
Circular RNAs are a large class of animal RNAs with regulatory potency. Nature (2013) 8.54
MicroRNAs are transported in plasma and delivered to recipient cells by high-density lipoproteins. Nat Cell Biol (2011) 8.21
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miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades. Nucleic Acids Res (2011) 5.83
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In vivo identification of tumor- suppressive PTEN ceRNAs in an oncogenic BRAF-induced mouse model of melanoma. Cell (2011) 5.19
MicroRNA functions in stress responses. Mol Cell (2010) 4.46
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miR-328 functions as an RNA decoy to modulate hnRNP E2 regulation of mRNA translation in leukemic blasts. Cell (2010) 4.07
MicroRNA regulation by RNA-binding proteins and its implications for cancer. Nat Rev Cancer (2011) 3.91
MicroRNAs can generate thresholds in target gene expression. Nat Genet (2011) 3.90
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MicroRNAs in cancer. Annu Rev Pathol (2013) 3.50
Viruses, microRNAs, and host interactions. Annu Rev Microbiol (2010) 3.30
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miR-200 enhances mouse breast cancer cell colonization to form distant metastases. PLoS One (2009) 2.97
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MicroRNA sponges: progress and possibilities. RNA (2010) 2.96
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Many families of C. elegans microRNAs are not essential for development or viability. Curr Biol (2010) 2.90
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Genetics of circadian rhythms in Mammalian model organisms. Adv Genet (2011) 2.80
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MicroRNAs in the p53 network: micromanagement of tumour suppression. Nat Rev Cancer (2012) 2.78
Expression profiling of microRNAs by deep sequencing. Brief Bioinform (2009) 2.71
MicroRNA-29 regulates T-box transcription factors and interferon-γ production in helper T cells. Immunity (2011) 2.71
miRNA-mRNA integrated analysis reveals roles for miRNAs in primary breast tumors. PLoS One (2011) 2.70
Practical Aspects of microRNA Target Prediction. Curr Mol Med (2011) 2.64
Zcchc11-dependent uridylation of microRNA directs cytokine expression. Nat Cell Biol (2009) 2.63
Mechanisms of age-related macular degeneration. Neuron (2012) 2.62
Extracellular microRNA: a new source of biomarkers. Mutat Res (2011) 2.55
MicroRNA miR-125a controls hematopoietic stem cell number. Proc Natl Acad Sci U S A (2010) 2.53
Retracted HMGA2 functions as a competing endogenous RNA to promote lung cancer progression. Nature (2013) 2.47
The viral and cellular microRNA targetome in lymphoblastoid cell lines. PLoS Pathog (2012) 2.45
Genome-wide RNA-mediated interference screen identifies miR-19 targets in Notch-induced T-cell acute lymphoblastic leukaemia. Nat Cell Biol (2010) 2.40
Maintenance of muscle stem-cell quiescence by microRNA-489. Nature (2012) 2.39
The miR-17-92 microRNA cluster regulates multiple components of the TGF-β pathway in neuroblastoma. Mol Cell (2010) 2.38
Piwi induces piRNA-guided transcriptional silencing and establishment of a repressive chromatin state. Genes Dev (2013) 2.34
NF-kappaB p65-dependent transactivation of miRNA genes following Cryptosporidium parvum infection stimulates epithelial cell immune responses. PLoS Pathog (2009) 2.32
The mammalian ovary from genesis to revelation. Endocr Rev (2009) 2.31
Regulation of MicroRNA Biogenesis: A miRiad of mechanisms. Cell Commun Signal (2009) 2.27
MicroRNAs: Processing, Maturation, Target Recognition and Regulatory Functions. Mol Cell Pharmacol (2011) 2.25
Towards a molecular understanding of microRNA-mediated gene silencing. Nat Rev Genet (2015) 2.21
Mir193b-365 is essential for brown fat differentiation. Nat Cell Biol (2011) 2.20
Molecular profiling uncovers a p53-associated role for microRNA-31 in inhibiting the proliferation of serous ovarian carcinomas and other cancers. Cancer Res (2010) 2.16
A biophysical miRNA-mRNA interaction model infers canonical and noncanonical targets. Nat Methods (2013) 2.16
miRcode: a map of putative microRNA target sites in the long non-coding transcriptome. Bioinformatics (2012) 2.13
Expander: from expression microarrays to networks and functions. Nat Protoc (2010) 2.12
Regulation of angiogenesis and choroidal neovascularization by members of microRNA-23~27~24 clusters. Proc Natl Acad Sci U S A (2011) 2.10
Proinflammatory role for let-7 microRNAS in experimental asthma. J Biol Chem (2010) 2.08
Extensive alternative polyadenylation during zebrafish development. Genome Res (2012) 2.07
Argonaute divides its RNA guide into domains with distinct functions and RNA-binding properties. Cell (2012) 2.07
Modulation of the osteosarcoma expression phenotype by microRNAs. PLoS One (2012) 2.06
Interactions of miR-323/miR-326/miR-329 and miR-130a/miR-155/miR-210 as prognostic indicators for clinical outcome of glioblastoma patients. J Transl Med (2013) 2.04
Proliferation and tumorigenesis of a murine sarcoma cell line in the absence of DICER1. Cancer Cell (2012) 2.04
Inhibition of microRNA function by antimiR oligonucleotides. Silence (2012) 2.02
Capture of microRNA-bound mRNAs identifies the tumor suppressor miR-34a as a regulator of growth factor signaling. PLoS Genet (2011) 2.00
A cooperative microRNA-tumor suppressor gene network in acute T-cell lymphoblastic leukemia (T-ALL). Nat Genet (2011) 1.99
Expression of versican 3'-untranslated region modulates endogenous microRNA functions. PLoS One (2010) 1.94
MiRNA-miRNA synergistic network: construction via co-regulating functional modules and disease miRNA topological features. Nucleic Acids Res (2010) 1.94
A link between mir-100 and FRAP1/mTOR in clear cell ovarian cancer. Mol Endocrinol (2010) 1.94
Renal medullary microRNAs in Dahl salt-sensitive rats: miR-29b regulates several collagens and related genes. Hypertension (2010) 1.94
DIANA-LncBase: experimentally verified and computationally predicted microRNA targets on long non-coding RNAs. Nucleic Acids Res (2012) 1.94
EBV and human microRNAs co-target oncogenic and apoptotic viral and human genes during latency. EMBO J (2012) 1.91
MicroRNA-7 targets IGF1R (insulin-like growth factor 1 receptor) in tongue squamous cell carcinoma cells. Biochem J (2010) 1.91
A developmental taxonomy of glioblastoma defined and maintained by MicroRNAs. Cancer Res (2011) 1.89
DroID 2011: a comprehensive, integrated resource for protein, transcription factor, RNA and gene interactions for Drosophila. Nucleic Acids Res (2010) 1.86
MicroRNA in TLR signaling and endotoxin tolerance. Cell Mol Immunol (2011) 1.86
Vigilance and validation: Keys to success in RNAi screening. ACS Chem Biol (2010) 1.85
Quantitative and stoichiometric analysis of the microRNA content of exosomes. Proc Natl Acad Sci U S A (2014) 1.85
Intercellular transport of microRNAs. Arterioscler Thromb Vasc Biol (2013) 1.84
The loop position of shRNAs and pre-miRNAs is critical for the accuracy of dicer processing in vivo. Cell (2012) 1.84
Platelet microRNA-mRNA coexpression profiles correlate with platelet reactivity. Blood (2011) 1.83
MicroRNA-125b expands hematopoietic stem cells and enriches for the lymphoid-balanced and lymphoid-biased subsets. Proc Natl Acad Sci U S A (2010) 1.82
miR-150 influences B-cell receptor signaling in chronic lymphocytic leukemia by regulating expression of GAB1 and FOXP1. Blood (2014) 1.82
Human platelet microRNA-mRNA networks associated with age and gender revealed by integrated plateletomics. Blood (2014) 1.81
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Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell (2005) 96.87
Prediction of mammalian microRNA targets. Cell (2003) 53.70
Combinatorial microRNA target predictions. Nat Genet (2005) 50.48
Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs. Nature (2005) 48.95
MicroRNA targeting specificity in mammals: determinants beyond seed pairing. Mol Cell (2007) 38.42
NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res (2005) 37.39
A mammalian microRNA expression atlas based on small RNA library sequencing. Cell (2007) 34.03
The impact of microRNAs on protein output. Nature (2008) 32.39
Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals. Nature (2005) 31.60
Widespread changes in protein synthesis induced by microRNAs. Nature (2008) 31.44
Aligning multiple genomic sequences with the threaded blockset aligner. Genome Res (2004) 24.52
Principles of microRNA-target recognition. PLoS Biol (2005) 23.70
The UCSC Genome Browser Database: 2008 update. Nucleic Acids Res (2007) 23.13
The widespread impact of mammalian MicroRNAs on mRNA repression and evolution. Science (2005) 20.51
MicroRNA-directed cleavage of HOXB8 mRNA. Science (2004) 18.33
Zebrafish MiR-430 promotes deadenylation and clearance of maternal mRNAs. Science (2006) 18.14
Requirement of bic/microRNA-155 for normal immune function. Science (2007) 16.24
Animal MicroRNAs confer robustness to gene expression and have a significant impact on 3'UTR evolution. Cell (2005) 15.38
Large-scale sequencing reveals 21U-RNAs and additional microRNAs and endogenous siRNAs in C. elegans. Cell (2006) 15.12
Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures. Nature (2007) 11.66
A genome-wide map of conserved microRNA targets in C. elegans. Curr Biol (2006) 10.14
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Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs. Genome Res (2007) 9.61
The C. elegans microRNA let-7 binds to imperfect let-7 complementary sites from the lin-41 3'UTR. Genes Dev (2004) 8.42
Mutation rates differ among regions of the mammalian genome. Nature (1989) 7.63
Bayesian Markov chain Monte Carlo sequence analysis reveals varying neutral substitution patterns in mammalian evolution. Proc Natl Acad Sci U S A (2004) 7.42
microRNA target predictions across seven Drosophila species and comparison to mammalian targets. PLoS Comput Biol (2005) 6.77
Determinants of targeting by endogenous and exogenous microRNAs and siRNAs. RNA (2007) 6.44
28-way vertebrate alignment and conservation track in the UCSC Genome Browser. Genome Res (2007) 6.42
MicroRNA control of PHABULOSA in leaf development: importance of pairing to the microRNA 5' region. EMBO J (2004) 6.27
Inference of miRNA targets using evolutionary conservation and pathway analysis. BMC Bioinformatics (2007) 6.21
Spatial preferences of microRNA targets in 3' untranslated regions. BMC Genomics (2007) 4.99
Reliable prediction of regulator targets using 12 Drosophila genomes. Genome Res (2007) 4.89
Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes. Genome Res (2007) 4.28
Micro-RNA regulation of the mammalian lin-28 gene during neuronal differentiation of embryonal carcinoma cells. Mol Cell Biol (2005) 4.19
Where the crossovers are: recombination distributions in mammals. Nat Rev Genet (2004) 3.82
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Alternative isoform regulation in human tissue transcriptomes. Nature (2008) 52.76
Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs. Nature (2005) 48.95
MicroRNA targeting specificity in mammals: determinants beyond seed pairing. Mol Cell (2007) 38.42
The impact of microRNAs on protein output. Nature (2008) 32.39
MicroRNAs modulate hematopoietic lineage differentiation. Science (2003) 30.05
Control of developmental regulators by Polycomb in human embryonic stem cells. Cell (2006) 28.21
Mammalian microRNAs predominantly act to decrease target mRNA levels. Nature (2010) 22.04
The widespread impact of mammalian MicroRNAs on mRNA repression and evolution. Science (2005) 20.51
A uniform system for microRNA annotation. RNA (2003) 20.28
MicroRNAs in plants. Genes Dev (2002) 20.12
Prediction of plant microRNA targets. Cell (2002) 19.20
MicroRNA-directed cleavage of HOXB8 mRNA. Science (2004) 18.33
The microRNAs of Caenorhabditis elegans. Genes Dev (2003) 17.70
Vertebrate microRNA genes. Science (2003) 17.42
Predictive identification of exonic splicing enhancers in human genes. Science (2002) 16.86
Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells. Cell (2008) 16.38
Large-scale sequencing reveals 21U-RNAs and additional microRNAs and endogenous siRNAs in C. elegans. Cell (2006) 15.12
MicroRNAS and their regulatory roles in plants. Annu Rev Plant Biol (2006) 14.44
Microarray profiling of microRNAs reveals frequent coexpression with neighboring miRNAs and host genes. RNA (2005) 14.14
Computational identification of plant microRNAs and their targets, including a stress-induced miRNA. Mol Cell (2004) 12.97
Disrupting the pairing between let-7 and Hmga2 enhances oncogenic transformation. Science (2007) 12.42
A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana. Genes Dev (2006) 11.71
Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures. Nature (2007) 11.66
c-Myc regulates transcriptional pause release. Cell (2010) 11.64
Proliferating cells express mRNAs with shortened 3' untranslated regions and fewer microRNA target sites. Science (2008) 11.33
MicroRNAs regulate brain morphogenesis in zebrafish. Science (2005) 11.16
Widespread shortening of 3'UTRs by alternative cleavage and polyadenylation activates oncogenes in cancer cells. Cell (2009) 10.50
Analysis and design of RNA sequencing experiments for identifying isoform regulation. Nat Methods (2010) 10.13
A biochemical framework for RNA silencing in plants. Genes Dev (2003) 9.95
Intronic microRNA precursors that bypass Drosha processing. Nature (2007) 9.65
Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs. Genome Res (2007) 9.61
Passenger-strand cleavage facilitates assembly of siRNA into Ago2-containing RNAi enzyme complexes. Cell (2005) 9.35
Maximum entropy modeling of short sequence motifs with applications to RNA splicing signals. J Comput Biol (2004) 9.00
Systematic identification and analysis of exonic splicing silencers. Cell (2004) 8.50
Transcriptional amplification in tumor cells with elevated c-Myc. Cell (2012) 8.24
Characterization of the piRNA complex from rat testes. Science (2006) 7.86
Endogenous trans-acting siRNAs regulate the accumulation of Arabidopsis mRNAs. Mol Cell (2004) 7.68
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An abundance of ubiquitously expressed genes revealed by tissue transcriptome sequence data. PLoS Comput Biol (2009) 7.47
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Mouse ES cells express endogenous shRNAs, siRNAs, and other Microprocessor-independent, Dicer-dependent small RNAs. Genes Dev (2008) 7.07
Early origins and evolution of microRNAs and Piwi-interacting RNAs in animals. Nature (2008) 6.81
The action of ARGONAUTE1 in the miRNA pathway and its regulation by the miRNA pathway are crucial for plant development. Genes Dev (2004) 6.69
lincRNAs: genomics, evolution, and mechanisms. Cell (2013) 6.50
Determinants of targeting by endogenous and exogenous microRNAs and siRNAs. RNA (2007) 6.44
Splicing regulation: from a parts list of regulatory elements to an integrated splicing code. RNA (2008) 6.29
MicroRNA control of PHABULOSA in leaf development: importance of pairing to the microRNA 5' region. EMBO J (2004) 6.27
Small RNAs correspond to centromere heterochromatic repeats. Science (2002) 5.96
The let-7 MicroRNA family members mir-48, mir-84, and mir-241 function together to regulate developmental timing in Caenorhabditis elegans. Dev Cell (2005) 5.90
Variation in alternative splicing across human tissues. Genome Biol (2004) 5.70
Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution. Cell (2011) 5.65
A two-hit trigger for siRNA biogenesis in plants. Cell (2006) 5.60
Weak seed-pairing stability and high target-site abundance decrease the proficiency of lsy-6 and other microRNAs. Nat Struct Mol Biol (2011) 5.57
Most Caenorhabditis elegans microRNAs are individually not essential for development or viability. PLoS Genet (2007) 5.33
Identification and analysis of alternative splicing events conserved in human and mouse. Proc Natl Acad Sci U S A (2005) 5.26
The Drosophila hairpin RNA pathway generates endogenous short interfering RNAs. Nature (2008) 5.05
Endogenous siRNA and miRNA targets identified by sequencing of the Arabidopsis degradome. Curr Biol (2008) 5.00
Partially redundant functions of Arabidopsis DICER-like enzymes and a role for DCL4 in producing trans-acting siRNAs. Curr Biol (2005) 4.98
Dynamic regulation of miRNA expression in ordered stages of cellular development. Genes Dev (2007) 4.79
Evolutionary dynamics of gene and isoform regulation in Mammalian tissues. Science (2012) 4.52
PRG-1 and 21U-RNAs interact to form the piRNA complex required for fertility in C. elegans. Mol Cell (2008) 4.48
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miR-150, a microRNA expressed in mature B and T cells, blocks early B cell development when expressed prematurely. Proc Natl Acad Sci U S A (2007) 4.15
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Antiquity of microRNAs and their targets in land plants. Plant Cell (2005) 3.88
Formation, regulation and evolution of Caenorhabditis elegans 3'UTRs. Nature (2010) 3.87
The microRNA miR-196 acts upstream of Hoxb8 and Shh in limb development. Nature (2005) 3.78
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Biased chromatin signatures around polyadenylation sites and exons. Mol Cell (2009) 3.74
RESCUE-ESE identifies candidate exonic splicing enhancers in vertebrate exons. Nucleic Acids Res (2004) 3.70
MicroRNA regulation of NAC-domain targets is required for proper formation and separation of adjacent embryonic, vegetative, and floral organs. Curr Biol (2004) 3.63
Revisiting global gene expression analysis. Cell (2012) 3.63
MicroRNA-directed regulation of Arabidopsis AUXIN RESPONSE FACTOR17 is essential for proper development and modulates expression of early auxin response genes. Plant Cell (2005) 3.62
Braveheart, a long noncoding RNA required for cardiovascular lineage commitment. Cell (2013) 3.35
Variation in sequence and organization of splicing regulatory elements in vertebrate genes. Proc Natl Acad Sci U S A (2004) 3.34
A postnatal switch of CELF and MBNL proteins reprograms alternative splicing in the developing heart. Proc Natl Acad Sci U S A (2008) 3.33
Common functions for diverse small RNAs of land plants. Plant Cell (2007) 3.30
Transcriptome-wide regulation of pre-mRNA splicing and mRNA localization by muscleblind proteins. Cell (2012) 3.20
An EMT-driven alternative splicing program occurs in human breast cancer and modulates cellular phenotype. PLoS Genet (2011) 2.99
TRAMP-mediated RNA surveillance prevents spurious entry of RNAs into the Schizosaccharomyces pombe siRNA pathway. Nat Struct Mol Biol (2008) 2.98
AGO1 homeostasis entails coexpression of MIR168 and AGO1 and preferential stabilization of miR168 by AGO1. Mol Cell (2006) 2.94
Widespread selection for local RNA secondary structure in coding regions of bacterial genes. Genome Res (2003) 2.81
Single nucleotide polymorphism-based validation of exonic splicing enhancers. PLoS Biol (2004) 2.77
Promoter directionality is controlled by U1 snRNP and polyadenylation signals. Nature (2013) 2.63
Direct measurement of DNA affinity landscapes on a high-throughput sequencing instrument. Nat Biotechnol (2011) 2.60
Identification of let-7-regulated oncofetal genes. Cancer Res (2008) 2.56
MBNL proteins repress ES-cell-specific alternative splicing and reprogramming. Nature (2013) 2.49
A combinatorial code for splicing silencing: UAGG and GGGG motifs. PLoS Biol (2005) 2.48
A single Hox locus in Drosophila produces functional microRNAs from opposite DNA strands. Genes Dev (2008) 2.45