Published in Nucleic Acids Res on May 11, 2009
miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades. Nucleic Acids Res (2011) 5.83
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Changes in the expression of miR-381 and miR-495 are inversely associated with the expression of the MDR1 gene and development of multi-drug resistance. PLoS One (2013) 0.97
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Characterization of microRNAs expression during maize seed development. BMC Genomics (2012) 0.96
A computational approach for identifying microRNA-target interactions using high-throughput CLIP and PAR-CLIP sequencing. BMC Genomics (2013) 0.96
MicroRNAs and essential components of the microRNA processing machinery are not encoded in the genome of the ctenophore Mnemiopsis leidyi. BMC Genomics (2012) 0.96
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Computational prediction of the localization of microRNAs within their pre-miRNA. Nucleic Acids Res (2013) 0.94
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MiRNA expression profile for the human gastric antrum region using ultra-deep sequencing. PLoS One (2014) 0.91
Prioritizing and selecting likely novel miRNAs from NGS data. Nucleic Acids Res (2015) 0.91
Extending the sRNAome of apple by next-generation sequencing. PLoS One (2014) 0.90
MicroRNAs in the pineal gland: miR-483 regulates melatonin synthesis by targeting arylalkylamine N-acetyltransferase. J Biol Chem (2012) 0.90
Diverse human extracellular RNAs are widely detected in human plasma. Nat Commun (2016) 0.90
The transcriptional consequences of somatic amplifications, deletions, and rearrangements in a human lung squamous cell carcinoma. Neoplasia (2012) 0.88
Combined deep microRNA and mRNA sequencing identifies protective transcriptomal signature of enhanced PI3Kα signaling in cardiac hypertrophy. J Mol Cell Cardiol (2012) 0.87
YM500v2: a small RNA sequencing (smRNA-seq) database for human cancer miRNome research. Nucleic Acids Res (2014) 0.87
High-throughput sequencing reveals small RNAs involved in ASGV infection. BMC Genomics (2014) 0.87
miRspring: a compact standalone research tool for analyzing miRNA-seq data. Nucleic Acids Res (2013) 0.87
Next-generation sequencing identifies deregulation of microRNAs involved in both innate and adaptive immune response in ALK+ ALCL. PLoS One (2015) 0.87
Genome-wide, integrative analysis implicates microRNA dysregulation in autism spectrum disorder. Nat Neurosci (2016) 0.86
Expression of herpes simplex virus 1 microRNAs in cell culture models of quiescent and latent infection. J Virol (2013) 0.86
Discovery of novel microRNAs in rat kidney using next generation sequencing and microarray validation. PLoS One (2012) 0.86
NGSmethDB: an updated genome resource for high quality, single-cytosine resolution methylomes. Nucleic Acids Res (2013) 0.86
miRFam: an effective automatic miRNA classification method based on n-grams and a multiclass SVM. BMC Bioinformatics (2011) 0.86
Distinctive profile of IsomiR expression and novel microRNAs in rat heart left ventricle. PLoS One (2013) 0.85
Optimization of miRNA-seq data preprocessing. Brief Bioinform (2015) 0.85
Profiling of T helper cell-derived small RNAs reveals unique antisense transcripts and differential association of miRNAs with argonaute proteins 1 and 2. Nucleic Acids Res (2012) 0.85
Systematic characterization of small RNAome during zebrafish early developmental stages. BMC Genomics (2014) 0.84
Identification of RNase L-dependent, 3'-end-modified, viral small RNAs in Sindbis virus-infected mammalian cells. MBio (2013) 0.84
miRge - A Multiplexed Method of Processing Small RNA-Seq Data to Determine MicroRNA Entropy. PLoS One (2015) 0.84
A cross-species analysis of microRNAs in the developing avian face. PLoS One (2012) 0.84
Integrated microRNA, mRNA, and protein expression profiling reveals microRNA regulatory networks in rat kidney treated with a carcinogenic dose of aristolochic acid. BMC Genomics (2015) 0.84
Discovery and validation of Barrett's esophagus microRNA transcriptome by next generation sequencing. PLoS One (2013) 0.83
Use of RNA sequencing to evaluate rheumatic disease patients. Arthritis Res Ther (2015) 0.82
miR-BAG: bagging based identification of microRNA precursors. PLoS One (2012) 0.82
Computational approaches in detecting non- coding RNA. Curr Genomics (2013) 0.82
Next-generation sequencing identifies microRNAs that associate with pathogenic autoimmune neuroinflammation in rats. J Immunol (2013) 0.82
MiRduplexSVM: A High-Performing MiRNA-Duplex Prediction and Evaluation Methodology. PLoS One (2015) 0.81
Computational dissection of Arabidopsis smRNAome leads to discovery of novel microRNAs and short interfering RNAs associated with transcription start sites. Genomics (2011) 0.81
Integrative omics reveals MYCN as a global suppressor of cellular signalling and enables network-based therapeutic target discovery in neuroblastoma. Oncotarget (2015) 0.81
High-throughput sequencing of plasma microRNA in chronic fatigue syndrome/myalgic encephalomyelitis. PLoS One (2014) 0.80
miRFANs: an integrated database for Arabidopsis thaliana microRNA function annotations. BMC Plant Biol (2012) 0.80
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Accuracy of microRNA discovery pipelines in non-model organisms using closely related species genomes. PLoS One (2014) 0.80
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Deep sequencing identification of novel glucocorticoid-responsive miRNAs in apoptotic primary lymphocytes. PLoS One (2013) 0.79
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Sources of individual variability: miRNAs that predispose to neuropathic pain identified using genome-wide sequencing. Mol Pain (2014) 0.78
Transcriptome analysis in calorie-restricted rats implicates epigenetic and post-translational mechanisms in neuroprotection and aging. Genome Biol (2015) 0.78
plantDARIO: web based quantitative and qualitative analysis of small RNA-seq data in plants. Front Plant Sci (2014) 0.78
Plant MicroRNA Prediction by Supervised Machine Learning Using C5.0 Decision Trees. J Nucleic Acids (2012) 0.78
DeAnnIso: a tool for online detection and annotation of isomiRs from small RNA sequencing data. Nucleic Acids Res (2016) 0.78
isomiR-SEA: an RNA-Seq analysis tool for miRNAs/isomiRs expression level profiling and miRNA-mRNA interaction sites evaluation. BMC Bioinformatics (2016) 0.78
High-Throughput miRNA Sequencing Reveals a Field Effect in Gastric Cancer and Suggests an Epigenetic Network Mechanism. Bioinform Biol Insights (2015) 0.78
An integrative approach to identify hexaploid wheat miRNAome associated with development and tolerance to abiotic stress. BMC Genomics (2015) 0.77
Dicer and microRNA expression in multiple sclerosis and response to interferon therapy. J Neuroimmunol (2016) 0.77
miFRame: analysis and visualization of miRNA sequencing data in neurological disorders. J Transl Med (2015) 0.77
iSRAP - a one-touch research tool for rapid profiling of small RNA-seq data. J Extracell Vesicles (2015) 0.77
Dengue virus infection alters post-transcriptional modification of microRNAs in the mosquito vector Aedes aegypti. Sci Rep (2015) 0.77
Circulating microRNAs and Bioinformatics Tools to Discover Novel Diagnostic Biomarkers of Pediatric Diseases. Genes (Basel) (2017) 0.77
High-Throughput Sequencing of miRNAs Reveals a Tissue Signature in Gastric Cancer and Suggests Novel Potential Biomarkers. Bioinform Biol Insights (2015) 0.76
High-Throughput Profiling of Caenorhabditis elegans Starvation-Responsive microRNAs. PLoS One (2015) 0.76
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MicroRNA expression profiles classify human cancers. Nature (2005) 69.12
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A mammalian microRNA expression atlas based on small RNA library sequencing. Cell (2007) 34.03
MicroRNA targets in Drosophila. Genome Biol (2003) 23.59
Repbase Update, a database of eukaryotic repetitive elements. Cytogenet Genome Res (2005) 23.41
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Identification of hundreds of conserved and nonconserved human microRNAs. Nat Genet (2005) 15.96
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Discovering microRNAs from deep sequencing data using miRDeep. Nat Biotechnol (2008) 10.17
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Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis. PLoS Biol (2010) 5.39
Loss of the glycine N-methyltransferase gene leads to steatosis and hepatocellular carcinoma in mice. Hepatology (2008) 2.91
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Targeted disruption of the Walker-Warburg syndrome gene Pomt1 in mouse results in embryonic lethality. Proc Natl Acad Sci U S A (2004) 1.35
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DARIO: a ncRNA detection and analysis tool for next-generation sequencing experiments. Nucleic Acids Res (2011) 1.16
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Prelamin A accumulation and stress conditions induce impaired Oct-1 activity and autophagy in prematurely aged human mesenchymal stem cell. Aging (Albany NY) (2014) 0.95
Tau overexpression results in its secretion via membrane vesicles. Neurodegener Dis (2012) 0.94
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Comparative analysis of late functional outcome following preoperative radiation therapy or chemoradiotherapy and surgery or surgery alone in rectal cancer. Int J Colorectal Dis (2013) 0.91
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Hepatoma cells from mice deficient in glycine N-methyltransferase have increased RAS signaling and activation of liver kinase B1. Gastroenterology (2012) 0.83
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Fine mapping of a major histocompatibility complex in ankylosing spondylitis: association of the HLA-DPA1 and HLA-DPB1 regions. Arthritis Rheum (2011) 0.82
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Cell-derived extracellular vesicles as a platform to identify low-invasive disease biomarkers. Expert Rev Mol Diagn (2015) 0.81
Synthesis, dihydrofolate reductase inhibition, anti-proliferative testing, and saturation transfer difference ¹H-NMR study of some new 2-substituted-4,6-diaminopyrimidine derivatives. Chem Pharm Bull (Tokyo) (2012) 0.80
Probing the phosphoproteome of HeLa cells using nanocast metal oxide microspheres for phosphopeptide enrichment. Anal Chem (2010) 0.79
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ITGA4 polymorphisms and susceptibility to multiple sclerosis. J Neuroimmunol (2007) 0.78
Solute carrier family 2 member 1 is involved in the development of nonalcoholic fatty liver disease. Hepatology (2012) 0.78
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Meeting report of the European mouse complex genetics network SYSGENET. Mamm Genome (2013) 0.76
Optimizing the performance of tin dioxide microspheres for phosphopeptide enrichment. Anal Chim Acta (2009) 0.75
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