Published in Genome Res on January 18, 2013
The multilayered complexity of ceRNA crosstalk and competition. Nature (2014) 4.15
The Regulatory Role of MicroRNAs in EMT and Cancer. J Oncol (2015) 1.22
Transcriptome-wide discovery of microRNA binding sites in human brain. Neuron (2014) 1.13
Comprehensive analysis of the functional microRNA-mRNA regulatory network identifies miRNA signatures associated with glioma malignant progression. Nucleic Acids Res (2013) 1.11
Imperfect centered miRNA binding sites are common and can mediate repression of target mRNAs. Genome Biol (2014) 1.08
Frac-seq reveals isoform-specific recruitment to polyribosomes. Genome Res (2013) 1.01
MiR-103a-3p targets the 5' UTR of GPRC5A in pancreatic cells. RNA (2014) 0.97
Translational landscape of photomorphogenic Arabidopsis. Plant Cell (2013) 0.97
MiR-9 promotes microglial activation by targeting MCPIP1. Nat Commun (2014) 0.94
Potential regulatory role of microRNAs in the development of bovine gastrointestinal tract during early life. PLoS One (2014) 0.94
A tale of two sequences: microRNA-target chimeric reads. Genet Sel Evol (2016) 0.94
Comprehensive analysis of microRNA (miRNA) targets in breast cancer cells. J Biol Chem (2013) 0.93
MicroRNA-21 inhibits p57Kip2 expression in prostate cancer. Mol Cancer (2014) 0.92
MOV10 and FMRP regulate AGO2 association with microRNA recognition elements. Cell Rep (2014) 0.91
A viral genome landscape of RNA polyadenylation from KSHV latent to lytic infection. PLoS Pathog (2013) 0.91
Guidelines for the functional annotation of microRNAs using the Gene Ontology. RNA (2016) 0.89
A critical analysis of codon optimization in human therapeutics. Trends Mol Med (2014) 0.88
MicroRNA in diabetic nephropathy: renin angiotensin, aGE/RAGE, and oxidative stress pathway. J Diabetes Res (2013) 0.88
miR455 is linked to hypoxia signaling and is deregulated in preeclampsia. Cell Death Dis (2014) 0.87
Principles of miRNA-target regulation in metazoan models. Int J Mol Sci (2013) 0.86
Accurate transcriptome-wide prediction of microRNA targets and small interfering RNA off-targets with MIRZA-G. Nucleic Acids Res (2015) 0.85
Identifying microRNA targets in different gene regions. BMC Bioinformatics (2014) 0.83
miR-23∼27∼24 clusters control effector T cell differentiation and function. J Exp Med (2016) 0.82
Early targets of miR-34a in neuroblastoma. Mol Cell Proteomics (2014) 0.82
miR-25 and miR-92a regulate insulin I biosynthesis in rats. RNA Biol (2013) 0.82
Search for signatures in miRNAs associated with cancer. Bioinformation (2013) 0.81
The characterization of microRNA-mediated gene regulation as impacted by both target site location and seed match type. PLoS One (2014) 0.81
The miR-200 Family: Versatile Players in Epithelial Ovarian Cancer. Int J Mol Sci (2015) 0.81
MiR-3960 binding sites with mRNA of human genes. Bioinformation (2014) 0.80
The PUF binding landscape in metazoan germ cells. RNA (2016) 0.80
Tiny giants of gene regulation: experimental strategies for microRNA functional studies. Wiley Interdiscip Rev Dev Biol (2016) 0.80
Identification of cold-inducible microRNAs in grapevine. Front Plant Sci (2015) 0.79
Epstein-Barr virus induces global changes in cellular mRNA isoform usage that are important for the maintenance of latency. J Virol (2013) 0.79
Roles of small RNAs in the effects of nutrition on apoptosis and spermatogenesis in the adult testis. Sci Rep (2015) 0.79
MicroRNAs in the Stressed Heart: Sorting the Signal from the Noise. Cells (2014) 0.79
MtiBase: a database for decoding microRNA target sites located within CDS and 5'UTR regions from CLIP-Seq and expression profile datasets. Database (Oxford) (2015) 0.79
Cardiac Disease Status Dictates Functional mRNA Targeting Profiles of Individual MicroRNAs. Circ Cardiovasc Genet (2015) 0.78
ComiRNet: a web-based system for the analysis of miRNA-gene regulatory networks. BMC Bioinformatics (2015) 0.78
Embryonic Stem Cells Exhibit mRNA Isoform Specific Translational Regulation. PLoS One (2016) 0.78
MicroRNA Dysregulation in Cystic Fibrosis. Mediators Inflamm (2015) 0.78
Functional changes in mRNA expression and alternative pre-mRNA splicing associated with the effects of nutrition on apoptosis and spermatogenesis in the adult testis. BMC Genomics (2017) 0.77
The Emerging Function and Mechanism of ceRNAs in Cancer. Trends Genet (2016) 0.77
Transcriptome dynamics of the microRNA inhibition response. Nucleic Acids Res (2015) 0.76
Comprehensive Transcriptome Analysis of Sex-Biased Expressed Genes Reveals Discrete Biological and Physiological Features of Male and Female Schistosoma japonicum. PLoS Negl Trop Dis (2016) 0.76
MicroRNA-mRNA regulatory networking fine-tunes the porcine muscle fiber type, muscular mitochondrial respiratory and metabolic enzyme activities. BMC Genomics (2016) 0.76
Genetics and Epigenetics of Diabetic Nephropathy. Kidney Dis (Basel) (2015) 0.76
Cryptosporidium parvum induces SIRT1 expression in host epithelial cells through downregulating let-7i. Hum Immunol (2014) 0.76
Hybrid-polymerase chain reaction to identify novel target genes of miR-134 in paclitaxel resistant human ovarian carcinoma cells. Oncol Lett (2015) 0.76
KLRG1 restricts memory T cell antitumor immunity. Oncotarget (2016) 0.75
MiR-193a-5p Targets the Coding Region of AP-2α mRNA and Induces Cisplatin Resistance in Bladder Cancers. J Cancer (2016) 0.75
Common Variant in Glycoprotein Ia Increases Long-Term Adverse Events Risk After Coronary Artery Bypass Graft Surgery. J Am Heart Assoc (2016) 0.75
Cis-acting single nucleotide polymorphisms alter MicroRNA-mediated regulation of human brain-expressed transcripts. Hum Mol Genet (2016) 0.75
Elucidation of transcriptome-wide microRNA binding sites in human cardiac tissues by Ago2 HITS-CLIP. Nucleic Acids Res (2016) 0.75
Identification of targets of tumor suppressor microRNA-34a using a reporter library system. Proc Natl Acad Sci U S A (2017) 0.75
MicroRNA mir-34 provides robustness to environmental stress response via the DAF-16 network in C. elegans. Sci Rep (2016) 0.75
Methylated microRNA genes of the developing murine palate. Microrna (2014) 0.75
Herpesvirus saimiri MicroRNAs Preferentially Target Host Cell Cycle Regulators. J Virol (2015) 0.75
Both Maintenance and Avoidance of RNA-Binding Protein Interactions Constrain Coding Sequence Evolution. Mol Biol Evol (2017) 0.75
RIsearch2: suffix array-based large-scale prediction of RNA-RNA interactions and siRNA off-targets. Nucleic Acids Res (2017) 0.75
MicroRNA regulation of CYP 1A2, CYP3A4 and CYP2E1 expression in acetaminophen toxicity. Sci Rep (2017) 0.75
Combining Results from Distinct MicroRNA Target Prediction Tools Enhances the Performance of Analyses. Front Genet (2017) 0.75
Estimating the prevalence of functional exonic splice regulatory information. Hum Genet (2017) 0.75
let-7b and let-7c microRNAs promote histone H2B ubiquitylation and inhibit cell migration by targeting multiple components of the H2B deubiquitylation machinery. Oncogene (2017) 0.75
Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell (2005) 96.87
MicroRNAs: target recognition and regulatory functions. Cell (2009) 92.17
The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14. Cell (1993) 64.62
Combinatorial microRNA target predictions. Nat Genet (2005) 50.48
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res (2005) 44.08
A microRNA polycistron as a potential human oncogene. Nature (2005) 40.21
MicroRNA targeting specificity in mammals: determinants beyond seed pairing. Mol Cell (2007) 38.42
Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C. elegans. Cell (1993) 33.79
The impact of microRNAs on protein output. Nature (2008) 32.39
Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight? Nat Rev Genet (2008) 32.08
Widespread changes in protein synthesis induced by microRNAs. Nature (2008) 31.44
The miR-200 family and miR-205 regulate epithelial to mesenchymal transition by targeting ZEB1 and SIP1. Nat Cell Biol (2008) 24.27
Mammalian microRNAs predominantly act to decrease target mRNA levels. Nature (2010) 22.04
Zebrafish MiR-430 promotes deadenylation and clearance of maternal mRNAs. Science (2006) 18.14
Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP. Cell (2010) 17.87
microRNA functions. Annu Rev Cell Dev Biol (2007) 15.74
Regulation by let-7 and lin-4 miRNAs results in target mRNA degradation. Cell (2005) 15.26
MicroRNAS and their regulatory roles in plants. Annu Rev Plant Biol (2006) 14.44
Argonaute HITS-CLIP decodes microRNA-mRNA interaction maps. Nature (2009) 14.07
Relief of microRNA-mediated translational repression in human cells subjected to stress. Cell (2006) 12.73
Targeted deletion reveals essential and overlapping functions of the miR-17 through 92 family of miRNA clusters. Cell (2008) 12.29
A genetic screen implicates miRNA-372 and miRNA-373 as oncogenes in testicular germ cell tumors. Cell (2006) 11.01
Human embryonic stem cells express a unique set of microRNAs. Dev Biol (2004) 8.87
The microRNAs miR-373 and miR-520c promote tumour invasion and metastasis. Nat Cell Biol (2008) 7.86
Widespread translational inhibition by plant miRNAs and siRNAs. Science (2008) 7.51
Getting to the root of miRNA-mediated gene silencing. Cell (2008) 7.17
RNA-binding protein Dnd1 inhibits microRNA access to target mRNA. Cell (2007) 7.06
Transcripts targeted by the microRNA-16 family cooperatively regulate cell cycle progression. Mol Cell Biol (2007) 6.43
Inference of miRNA targets using evolutionary conservation and pathway analysis. BMC Bioinformatics (2007) 6.21
A biochemical approach to identifying microRNA targets. Proc Natl Acad Sci U S A (2007) 5.16
A search for conserved sequences in coding regions reveals that the let-7 microRNA targets Dicer within its coding sequence. Proc Natl Acad Sci U S A (2008) 5.11
miR-19 is a key oncogenic component of mir-17-92. Genes Dev (2009) 4.95
Ribosome profiling shows that miR-430 reduces translation before causing mRNA decay in zebrafish. Science (2012) 4.61
miRNA-mediated gene silencing by translational repression followed by mRNA deadenylation and decay. Science (2012) 4.44
A quantitative analysis of CLIP methods for identifying binding sites of RNA-binding proteins. Nat Methods (2011) 4.06
Biological basis for restriction of microRNA targets to the 3' untranslated region in mammalian mRNAs. Nat Struct Mol Biol (2009) 3.70
Lost in translation: an assessment and perspective for computational microRNA target identification. Bioinformatics (2009) 3.34
MicroRNA miR-137 regulates neuronal maturation by targeting ubiquitin ligase mind bomb-1. Stem Cells (2010) 2.89
Transcriptional regulatory circuits: predicting numbers from alphabets. Science (2009) 2.61
Biochemical evidence for translational repression by Arabidopsis microRNAs. Plant Cell (2009) 2.27
Induction of microRNAs, mir-155, mir-222, mir-424 and mir-503, promotes monocytic differentiation through combinatorial regulation. Leukemia (2009) 2.24
miR-24 regulates apoptosis by targeting the open reading frame (ORF) region of FAF1 in cancer cells. PLoS One (2010) 2.15
Transition from maternal to embryonic control in early mammalian development: a comparison of several species. Mol Reprod Dev (1990) 2.07
Relative contribution of sequence and structure features to the mRNA binding of Argonaute/EIF2C-miRNA complexes and the degradation of miRNA targets. Genome Res (2009) 1.98
miR-141 and miR-200a act on ovarian tumorigenesis by controlling oxidative stress response. Nat Med (2011) 1.94
CLIPZ: a database and analysis environment for experimentally determined binding sites of RNA-binding proteins. Nucleic Acids Res (2010) 1.88
The impact of miRNA target sites in coding sequences and in 3'UTRs. PLoS One (2011) 1.82
MicroRNA-301 mediates proliferation and invasion in human breast cancer. Cancer Res (2011) 1.75
miR-137 forms a regulatory loop with nuclear receptor TLX and LSD1 in neural stem cells. Nat Commun (2011) 1.67
Characterization of microRNAs involved in embryonic stem cell states. Stem Cells Dev (2010) 1.62
Conserved microRNA targeting in Drosophila is as widespread in coding regions as in 3'UTRs. Proc Natl Acad Sci U S A (2010) 1.62
Unusually effective microRNA targeting within repeat-rich coding regions of mammalian mRNAs. Genome Res (2011) 1.53
Kinetic analysis reveals successive steps leading to miRNA-mediated silencing in mammalian cells. EMBO Rep (2012) 1.52
Interplay between microRNAs and RNA-binding proteins determines developmental processes. Cell Cycle (2008) 1.51
Postfertilization deadenylation of mRNAs in Xenopus laevis embryos is sufficient to cause their degradation at the blastula stage. Mol Cell Biol (1997) 1.44
TargetSpy: a supervised machine learning approach for microRNA target prediction. BMC Bioinformatics (2010) 1.43
MicroRNAs differentially expressed in postnatal aortic development downregulate elastin via 3' UTR and coding-sequence binding sites. PLoS One (2011) 1.41
Limiting Ago protein restricts RNAi and microRNA biogenesis during early development in Xenopus laevis. Genes Dev (2011) 1.30
Characterization of B- and T-lineage acute lymphoblastic leukemia by integrated analysis of MicroRNA and mRNA expression profiles. Genes Chromosomes Cancer (2009) 1.21
MicroRNAs dysregulation in human malignant pleural mesothelioma. J Thorac Oncol (2011) 1.06
Target prediction and a statistical sampling algorithm for RNA-RNA interaction. Bioinformatics (2009) 1.01
Preliminary assessment of the impact of microRNA-mediated regulation on coding sequence evolution in mammals. J Mol Evol (2006) 0.99
Differential regulation of the translation and the stability of two maternal transcripts in preimplantation rabbit embryos. Mol Reprod Dev (2000) 0.79
miRNAs' strict schedule. Nat Rev Mol Cell Biol (2012) 0.77
A mammalian microRNA expression atlas based on small RNA library sequencing. Cell (2007) 34.03
Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP. Cell (2010) 17.87
Identification of microRNAs of the herpesvirus family. Nat Methods (2005) 12.98
Identification of virus-encoded microRNAs. Science (2004) 12.56
The small RNA profile during Drosophila melanogaster development. Dev Cell (2003) 11.46
A novel class of small RNAs bind to MILI protein in mouse testes. Nature (2006) 8.80
Cell-type-specific signatures of microRNAs on target mRNA expression. Proc Natl Acad Sci U S A (2006) 7.11
Cellular cofactors affecting hepatitis C virus infection and replication. Proc Natl Acad Sci U S A (2007) 6.79
Inference of miRNA targets using evolutionary conservation and pathway analysis. BMC Bioinformatics (2007) 6.21
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. Nat Genet (2009) 6.02
Molecular characterization of human Argonaute-containing ribonucleoprotein complexes and their bound target mRNAs. RNA (2008) 4.53
Decay rates of human mRNAs: correlation with functional characteristics and sequence attributes. Genome Res (2003) 4.07
A quantitative analysis of CLIP methods for identifying binding sites of RNA-binding proteins. Nat Methods (2011) 4.06
MicroRNAs 103 and 107 regulate insulin sensitivity. Nature (2011) 3.98
MicroRNAs control de novo DNA methylation through regulation of transcriptional repressors in mouse embryonic stem cells. Nat Struct Mol Biol (2008) 3.98
miR-375 maintains normal pancreatic alpha- and beta-cell mass. Proc Natl Acad Sci U S A (2009) 3.89
Quantitative technologies establish a novel microRNA profile of chronic lymphocytic leukemia. Blood (2007) 3.64
Comparative analysis of mRNA targets for human PUF-family proteins suggests extensive interaction with the miRNA regulatory system. PLoS One (2008) 3.09
miRNA in situ hybridization in formaldehyde and EDC-fixed tissues. Nat Methods (2009) 3.03
Effects of Dicer and Argonaute down-regulation on mRNA levels in human HEK293 cells. Nucleic Acids Res (2006) 2.96
The developmental miRNA profiles of zebrafish as determined by small RNA cloning. Genes Dev (2005) 2.94
Identification of clustered microRNAs using an ab initio prediction method. BMC Bioinformatics (2005) 2.76
PAR-CliP--a method to identify transcriptome-wide the binding sites of RNA binding proteins. J Vis Exp (2010) 2.23
A biophysical miRNA-mRNA interaction model infers canonical and noncanonical targets. Nat Methods (2013) 2.16
MicroRNA activity is suppressed in mouse oocytes. Curr Biol (2010) 2.15
Genome-wide analysis of pre-mRNA 3' end processing reveals a decisive role of human cleavage factor I in the regulation of 3' UTR length. Cell Rep (2012) 2.07
Elevated expression of the miR-17-92 polycistron and miR-21 in hepadnavirus-associated hepatocellular carcinoma contributes to the malignant phenotype. Am J Pathol (2008) 2.03
Relative contribution of sequence and structure features to the mRNA binding of Argonaute/EIF2C-miRNA complexes and the degradation of miRNA targets. Genome Res (2009) 1.98
Computational analysis of small RNA cloning data. Methods (2008) 1.96
CLIPZ: a database and analysis environment for experimentally determined binding sites of RNA-binding proteins. Nucleic Acids Res (2010) 1.88
The snoRNA MBII-52 (SNORD 115) is processed into smaller RNAs and regulates alternative splicing. Hum Mol Genet (2010) 1.83
Probabilistic clustering of sequences: inferring new bacterial regulons by comparative genomics. Proc Natl Acad Sci U S A (2002) 1.78
Strand-specific 5'-O-methylation of siRNA duplexes controls guide strand selection and targeting specificity. RNA (2007) 1.61
A simple physical model predicts small exon length variations. PLoS Genet (2006) 1.59
MirZ: an integrated microRNA expression atlas and target prediction resource. Nucleic Acids Res (2009) 1.44
Marek's disease virus type 2 (MDV-2)-encoded microRNAs show no sequence conservation with those encoded by MDV-1. J Virol (2007) 1.38
ISMARA: automated modeling of genomic signals as a democracy of regulatory motifs. Genome Res (2014) 1.37
SPA: a probabilistic algorithm for spliced alignment. PLoS Genet (2006) 1.37
Virus-encoded microRNAs: novel regulators of gene expression. Trends Microbiol (2006) 1.36
Kaposi's sarcoma herpesvirus microRNAs target caspase 3 and regulate apoptosis. PLoS Pathog (2011) 1.33
Systematic characterization of the zinc-finger-containing proteins in the mouse transcriptome. Genome Res (2003) 1.31
Expression and processing of a small nucleolar RNA from the Epstein-Barr virus genome. PLoS Pathog (2009) 1.28
Translation-dependent displacement of UPF1 from coding sequences causes its enrichment in 3' UTRs. Nat Struct Mol Biol (2013) 1.26
MicroRNA-7a regulates pancreatic β cell function. J Clin Invest (2014) 1.18
Deciphering the role of RNA-binding proteins in the post-transcriptional control of gene expression. Brief Funct Genomics (2010) 1.14
Expression proteomics of UPF1 knockdown in HeLa cells reveals autoregulation of hnRNP A2/B1 mediated by alternative splicing resulting in nonsense-mediated mRNA decay. BMC Genomics (2010) 1.07
Analysis of in situ pre-mRNA targets of human splicing factor SF1 reveals a function in alternative splicing. Nucleic Acids Res (2010) 0.99
PAPD5, a noncanonical poly(A) polymerase with an unusual RNA-binding motif. RNA (2011) 0.99
Insights into snoRNA biogenesis and processing from PAR-CLIP of snoRNA core proteins and small RNA sequencing. Genome Biol (2013) 0.99
Genome-wide transcriptional reorganization associated with senescence-to-immortality switch during human hepatocellular carcinogenesis. PLoS One (2013) 0.95
Analysis of human immunodeficiency virus cytopathicity by using a new method for quantitating viral dynamics in cell culture. J Virol (2005) 0.95
MicroRNA-194 is a target of transcription factor 1 (Tcf1, HNF1α) in adult liver and controls expression of frizzled-6. Hepatology (2012) 0.95
Argonaute CLIP--a method to identify in vivo targets of miRNAs. Methods (2012) 0.92
Timescales and bottlenecks in miRNA-dependent gene regulation. Mol Syst Biol (2013) 0.91
Means to an end: mechanisms of alternative polyadenylation of messenger RNA precursors. Wiley Interdiscip Rev RNA (2013) 0.91
Conserved generation of short products at piRNA loci. BMC Genomics (2011) 0.87
TSSer: an automated method to identify transcription start sites in prokaryotic genomes from differential RNA sequencing data. Bioinformatics (2013) 0.83
Regulation of human liver delta-aminolevulinic acid synthase by bile acids. Hepatology (2007) 0.83
Seq and CLIP through the miRNA world. Genome Biol (2014) 0.81
Modulation of epigenetic regulators and cell fate decisions by miRNAs. Epigenomics (2013) 0.80
Computational analysis of full-length cDNAs reveals frequent coupling between transcriptional and splicing programs. DNA Res (2008) 0.80
3'-UTR poly(T/U) tract deletions and altered expression of EWSR1 are a hallmark of mismatch repair-deficient cancers. Cancer Res (2013) 0.78
Dicer partners expand the repertoire of miRNA targets. Genome Biol (2012) 0.76
Accurate transcriptome-wide prediction of microRNA targets and small interfering RNA off-targets with MIRZA-G. Nucleic Acids Res (2015) 0.75