Published in Nat Biotechnol on April 01, 2008
miRBase: integrating microRNA annotation and deep-sequencing data. Nucleic Acids Res (2010) 25.85
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miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades. Nucleic Acids Res (2011) 5.83
Probabilistic base calling of Solexa sequencing data. BMC Bioinformatics (2008) 5.00
TarBase 6.0: capturing the exponential growth of miRNA targets with experimental support. Nucleic Acids Res (2011) 4.54
Posttranscriptional crossregulation between Drosha and DGCR8. Cell (2009) 3.54
The monarch butterfly genome yields insights into long-distance migration. Cell (2011) 3.51
Noncoding RNA in development. Mamm Genome (2008) 3.42
Regulation of microRNA expression and abundance during lymphopoiesis. Immunity (2010) 3.29
Widespread regulatory activity of vertebrate microRNA* species. RNA (2010) 2.97
miRanalyzer: a microRNA detection and analysis tool for next-generation sequencing experiments. Nucleic Acids Res (2009) 2.90
Many families of C. elegans microRNAs are not essential for development or viability. Curr Biol (2010) 2.90
Dynamic expression of small non-coding RNAs, including novel microRNAs and piRNAs/21U-RNAs, during Caenorhabditis elegans development. Genome Biol (2009) 2.81
Analysis of 13 cell types reveals evidence for the expression of numerous novel primate- and tissue-specific microRNAs. Proc Natl Acad Sci U S A (2015) 2.72
Expression profiling of microRNAs by deep sequencing. Brief Bioinform (2009) 2.71
Conserved vertebrate mir-451 provides a platform for Dicer-independent, Ago2-mediated microRNA biogenesis. Proc Natl Acad Sci U S A (2010) 2.67
A pilot study of circulating miRNAs as potential biomarkers of early stage breast cancer. PLoS One (2010) 2.64
Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence. Genome Res (2010) 2.56
Identification of nutrient-responsive Arabidopsis and rapeseed microRNAs by comprehensive real-time polymerase chain reaction profiling and small RNA sequencing. Plant Physiol (2009) 2.33
Characterization of human plasma-derived exosomal RNAs by deep sequencing. BMC Genomics (2013) 2.27
miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data. Genome Biol (2010) 2.18
Deep sequencing of the small RNA transcriptome of normal and malignant human B cells identifies hundreds of novel microRNAs. Blood (2010) 2.15
miRDeepFinder: a miRNA analysis tool for deep sequencing of plant small RNAs. Plant Mol Biol (2012) 2.14
Current tools for the identification of miRNA genes and their targets. Nucleic Acids Res (2009) 2.12
Deep sequencing of human nuclear and cytoplasmic small RNAs reveals an unexpectedly complex subcellular distribution of miRNAs and tRNA 3' trailers. PLoS One (2010) 2.12
MicroRNAs both promote and antagonize longevity in C. elegans. Curr Biol (2010) 1.99
Characterization and comparative profiling of the small RNA transcriptomes in two phases of locust. Genome Biol (2009) 1.96
A distinct class of small RNAs arises from pre-miRNA-proximal regions in a simple chordate. Nat Struct Mol Biol (2009) 1.90
In-depth analysis of Kaposi's sarcoma-associated herpesvirus microRNA expression provides insights into the mammalian microRNA-processing machinery. J Virol (2009) 1.90
Cell-type-based analysis of microRNA profiles in the mouse brain. Neuron (2012) 1.85
Analysis of microRNA transcriptome by deep sequencing of small RNA libraries of peripheral blood. BMC Genomics (2010) 1.84
Virally induced cellular microRNA miR-155 plays a key role in B-cell immortalization by Epstein-Barr virus. J Virol (2010) 1.83
Large-scale sorting of C. elegans embryos reveals the dynamics of small RNA expression. Nat Methods (2009) 1.82
Performance comparison and evaluation of software tools for microRNA deep-sequencing data analysis. Nucleic Acids Res (2012) 1.80
Ultra-high throughput sequencing-based small RNA discovery and discrete statistical biomarker analysis in a collection of cervical tumours and matched controls. BMC Biol (2010) 1.80
deepBase: a database for deeply annotating and mining deep sequencing data. Nucleic Acids Res (2009) 1.78
Deep sequencing reveals differential expression of microRNAs in favorable versus unfavorable neuroblastoma. Nucleic Acids Res (2010) 1.77
Sequence features associated with microRNA strand selection in humans and flies. BMC Genomics (2009) 1.76
Next-generation sequencing identifies the natural killer cell microRNA transcriptome. Genome Res (2010) 1.75
mirTools: microRNA profiling and discovery based on high-throughput sequencing. Nucleic Acids Res (2010) 1.70
Ago2 immunoprecipitation identifies predicted microRNAs in human embryonic stem cells and neural precursors. PLoS One (2009) 1.70
Birth and expression evolution of mammalian microRNA genes. Genome Res (2012) 1.64
Analysis of human alphaherpesvirus microRNA expression in latently infected human trigeminal ganglia. J Virol (2009) 1.63
Discovery of hundreds of mirtrons in mouse and human small RNA data. Genome Res (2012) 1.63
MiRenSVM: towards better prediction of microRNA precursors using an ensemble SVM classifier with multi-loop features. BMC Bioinformatics (2010) 1.63
Comprehensive survey of human brain microRNA by deep sequencing. BMC Genomics (2010) 1.59
Identification of microRNAs expressed in two mosquito vectors, Aedes albopictus and Culex quinquefasciatus. BMC Genomics (2010) 1.59
The fate of miRNA* strand through evolutionary analysis: implication for degradation as merely carrier strand or potential regulatory molecule? PLoS One (2010) 1.58
Next generation sequencing in clinical medicine: Challenges and lessons for pathology and biomedical informatics. J Pathol Inform (2012) 1.58
Lowly expressed human microRNA genes evolve rapidly. Mol Biol Evol (2009) 1.58
High-resolution profiling and discovery of planarian small RNAs. Proc Natl Acad Sci U S A (2009) 1.53
Ago HITS-CLIP expands understanding of Kaposi's sarcoma-associated herpesvirus miRNA function in primary effusion lymphomas. PLoS Pathog (2012) 1.53
Differential expression of circulating microRNAs according to severity of colorectal neoplasia. Transl Res (2015) 1.50
DSAP: deep-sequencing small RNA analysis pipeline. Nucleic Acids Res (2010) 1.41
Computational approaches for microRNA studies: a review. Mamm Genome (2009) 1.39
In-depth characterization of microRNA transcriptome in melanoma. PLoS One (2013) 1.38
Barcoded cDNA library preparation for small RNA profiling by next-generation sequencing. Methods (2012) 1.37
miRDeep*: an integrated application tool for miRNA identification from RNA sequencing data. Nucleic Acids Res (2012) 1.37
Parallel DNA pyrosequencing unveils new zebrafish microRNAs. BMC Genomics (2009) 1.36
Identifying miRNAs, targets and functions. Brief Bioinform (2012) 1.35
Age-related changes in microRNA levels in serum. Aging (Albany NY) (2013) 1.35
Reduced expression of brain-enriched microRNAs in glioblastomas permits targeted regulation of a cell death gene. PLoS One (2011) 1.34
microRNA profiling in Epstein-Barr virus-associated B-cell lymphoma. Nucleic Acids Res (2010) 1.32
Stars and symbiosis: microRNA- and microRNA*-mediated transcript cleavage involved in arbuscular mycorrhizal symbiosis. Plant Physiol (2011) 1.32
microRNAs and genetic diseases. Pathogenetics (2009) 1.32
Computational and experimental identification of mirtrons in Drosophila melanogaster and Caenorhabditis elegans. Genome Res (2010) 1.31
Age-associated changes in expression of small, noncoding RNAs, including microRNAs, in C. elegans. RNA (2011) 1.31
MicroRNA transcriptome in the newborn mouse ovaries determined by massive parallel sequencing. Mol Hum Reprod (2010) 1.31
Deciphering the porcine intestinal microRNA transcriptome. BMC Genomics (2010) 1.30
Discovery of microRNAs and other small RNAs in solid tumors. Nucleic Acids Res (2010) 1.28
miR-221 is required for endothelial tip cell behaviors during vascular development. Dev Cell (2012) 1.28
Influenza A virus expresses high levels of an unusual class of small viral leader RNAs in infected cells. MBio (2010) 1.27
High-resolution experimental and computational profiling of tissue-specific known and novel miRNAs in Arabidopsis. Genome Res (2011) 1.27
miREvo: an integrative microRNA evolutionary analysis platform for next-generation sequencing experiments. BMC Bioinformatics (2012) 1.27
Discovery of novel microRNAs in female reproductive tract using next generation sequencing. PLoS One (2010) 1.26
Evidence for the biogenesis of more than 1,000 novel human microRNAs. Genome Biol (2014) 1.23
Discovery of porcine microRNAs in multiple tissues by a Solexa deep sequencing approach. PLoS One (2011) 1.22
MatureBayes: a probabilistic algorithm for identifying the mature miRNA within novel precursors. PLoS One (2010) 1.21
Novel microRNAs differentially expressed during aging in the mouse brain. PLoS One (2012) 1.20
A systematic analysis of the skeletal muscle miRNA transcriptome of chicken varieties with divergent skeletal muscle growth identifies novel miRNAs and differentially expressed miRNAs. BMC Genomics (2011) 1.20
Deep sequencing reveals novel microRNAs and regulation of microRNA expression during cell senescence. PLoS One (2011) 1.18
Diverse and tissue-enriched small RNAs in the plant pathogenic fungus, Magnaporthe oryzae. BMC Genomics (2011) 1.18
MicroRNA-31 predicts the presence of lymph node metastases and survival in patients with lung adenocarcinoma. Clin Cancer Res (2013) 1.17
DARIO: a ncRNA detection and analysis tool for next-generation sequencing experiments. Nucleic Acids Res (2011) 1.16
A novel biochemical method to identify target genes of individual microRNAs: identification of a new Caenorhabditis elegans let-7 target. RNA (2008) 1.16
Identification and characterization of microRNAs in Phaseolus vulgaris by high-throughput sequencing. BMC Genomics (2012) 1.16
MicroRNAs as immune regulators: implications for transplantation. Am J Transplant (2010) 1.16
MicroRNAs: small RNAs with big effects. Transplantation (2010) 1.15
Comparison of microRNA deep sequencing of matched formalin-fixed paraffin-embedded and fresh frozen cancer tissues. PLoS One (2013) 1.14
Transcriptome-wide analysis of small RNA expression in early zebrafish development. RNA (2012) 1.13
RNPomics: defining the ncRNA transcriptome by cDNA library generation from ribonucleo-protein particles. Nucleic Acids Res (2010) 1.13
Characterization of statistical features for plant microRNA prediction. BMC Genomics (2011) 1.13
Next Generation Sequencing of miRNAs - Strategies, Resources and Methods. Genes (Basel) (2010) 1.12
MicroRNAs in C. elegans Aging: Molecular Insurance for Robustness? Curr Genomics (2009) 1.11
Bioinformatic prediction, deep sequencing of microRNAs and expression analysis during phenotypic plasticity in the pea aphid, Acyrthosiphon pisum. BMC Genomics (2010) 1.11
Prediction of novel precursor miRNAs using a context-sensitive hidden Markov model (CSHMM). BMC Bioinformatics (2010) 1.11
Insights into the evolution of longevity from the bowhead whale genome. Cell Rep (2015) 1.09
Methods and matrices: approaches to identifying miRNAs for nasopharyngeal carcinoma. J Transl Med (2014) 1.09
Revealing stable processing products from ribosome-associated small RNAs by deep-sequencing data analysis. Nucleic Acids Res (2012) 1.08
Genome of the house fly, Musca domestica L., a global vector of diseases with adaptations to a septic environment. Genome Biol (2014) 1.08
Combinatorial microRNA target predictions. Nat Genet (2005) 50.48
A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science (2002) 42.78
Silencing of microRNAs in vivo with 'antagomirs'. Nature (2005) 32.56
Widespread changes in protein synthesis induced by microRNAs. Nature (2008) 31.44
A genome-wide association study of global gene expression. Nat Genet (2007) 22.98
Global quantification of mammalian gene expression control. Nature (2011) 22.36
A pancreatic islet-specific microRNA regulates insulin secretion. Nature (2004) 15.02
Regulation of the germinal center response by microRNA-155. Science (2007) 12.25
Prevalence of chronic kidney disease in China: a cross-sectional survey. Lancet (2012) 10.53
A genome-wide map of conserved microRNA targets in C. elegans. Curr Biol (2006) 10.14
Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project. Science (2010) 9.78
A stem cell-like chromatin pattern may predispose tumor suppressor genes to DNA hypermethylation and heritable silencing. Nat Genet (2007) 9.47
MiR-150 controls B cell differentiation by targeting the transcription factor c-Myb. Cell (2007) 9.33
Circular RNAs are a large class of animal RNAs with regulatory potency. Nature (2013) 8.54
The evolution of gene regulation by transcription factors and microRNAs. Nat Rev Genet (2007) 7.92
Pooled analysis of fluorouracil-based adjuvant therapy for stage II and III colon cancer: who benefits and by how much? J Clin Oncol (2004) 7.36
Childhood adiposity, adult adiposity, and cardiovascular risk factors. N Engl J Med (2011) 7.16
Cell-type-specific signatures of microRNAs on target mRNA expression. Proc Natl Acad Sci U S A (2006) 7.11
Cubic AgPb(m)SbTe(2+m): bulk thermoelectric materials with high figure of merit. Science (2004) 7.07
microRNA target predictions across seven Drosophila species and comparison to mammalian targets. PLoS Comput Biol (2005) 6.77
Pharmacologic disruption of Polycomb-repressive complex 2-mediated gene repression selectively induces apoptosis in cancer cells. Genes Dev (2007) 6.71
Altered histone acetylation is associated with age-dependent memory impairment in mice. Science (2010) 6.38
A human snoRNA with microRNA-like functions. Mol Cell (2008) 5.84
miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades. Nucleic Acids Res (2011) 5.83
Dicer ablation affects antibody diversity and cell survival in the B lymphocyte lineage. Cell (2008) 5.53
A genomic screen for genes upregulated by demethylation and histone deacetylase inhibition in human colorectal cancer. Nat Genet (2002) 5.38
Comparative genome hybridization suggests a role for NRXN1 and APBA2 in schizophrenia. Hum Mol Genet (2007) 5.28
Refining the complex rheumatoid arthritis phenotype based on specificity of the HLA-DRB1 shared epitope for antibodies to citrullinated proteins. Arthritis Rheum (2005) 5.18
MicroRNA profiling of the murine hematopoietic system. Genome Biol (2005) 4.94
Childhood cardiovascular risk factors and carotid vascular changes in adulthood: the Bogalusa Heart Study. JAMA (2003) 4.88
Deep sequencing reveals 50 novel genes for recessive cognitive disorders. Nature (2011) 4.85
Formation of MacroH2A-containing senescence-associated heterochromatin foci and senescence driven by ASF1a and HIRA. Dev Cell (2005) 4.83
Sequence and analysis of rice chromosome 4. Nature (2002) 4.39
Natural selection on human microRNA binding sites inferred from SNP data. Nat Genet (2006) 4.34
Ligand configurational entropy and protein binding. Proc Natl Acad Sci U S A (2007) 4.33
Survival of resting mature B lymphocytes depends on BCR signaling via the Igalpha/beta heterodimer. Cell (2004) 4.31
Transmit and receive transmission line arrays for 7 Tesla parallel imaging. Magn Reson Med (2005) 4.25
Sirt5 is a NAD-dependent protein lysine demalonylase and desuccinylase. Science (2011) 4.16
Transcriptome-wide analysis of regulatory interactions of the RNA-binding protein HuR. Mol Cell (2011) 4.15
Decay rates of human mRNAs: correlation with functional characteristics and sequence attributes. Genome Res (2003) 4.07
Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature (2012) 4.00
Estimating accuracy of RNA-Seq and microarrays with proteomics. BMC Genomics (2009) 3.87
Seven new loci associated with age-related macular degeneration. Nat Genet (2013) 3.81
A nonsynonymous functional variant in integrin-alpha(M) (encoded by ITGAM) is associated with systemic lupus erythematosus. Nat Genet (2008) 3.71
Intradiscal injection therapy for degenerative chronic discogenic low back pain with end plate Modic changes. Spine J (2010) 3.55
Array CGH identifies reciprocal 16p13.1 duplications and deletions that predispose to autism and/or mental retardation. Hum Mutat (2007) 3.52
A variant of mitochondrial protein LOC387715/ARMS2, not HTRA1, is strongly associated with age-related macular degeneration. Proc Natl Acad Sci U S A (2007) 3.50
Transcriptional control in the segmentation gene network of Drosophila. PLoS Biol (2004) 3.47
Comparing the DNA hypermethylome with gene mutations in human colorectal cancer. PLoS Genet (2007) 3.39
The long noncoding RNA SChLAP1 promotes aggressive prostate cancer and antagonizes the SWI/SNF complex. Nat Genet (2013) 3.39
Thirty new loci for age at menarche identified by a meta-analysis of genome-wide association studies. Nat Genet (2010) 3.37
The landscape of C. elegans 3'UTRs. Science (2010) 3.32
E2-2 protein and Fuchs's corneal dystrophy. N Engl J Med (2010) 3.31
Gene expression in skin and lymphoblastoid cells: Refined statistical method reveals extensive overlap in cis-eQTL signals. Am J Hum Genet (2010) 3.28
Rise in insulin resistance is associated with escalated telomere attrition. Circulation (2005) 3.27
Antitumor activity of MLN8054, an orally active small-molecule inhibitor of Aurora A kinase. Proc Natl Acad Sci U S A (2007) 3.27
Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells. Cell (2012) 3.26
Genome-wide association study identifies variants in the MHC class I, IL10, and IL23R-IL12RB2 regions associated with Behçet's disease. Nat Genet (2010) 3.24
Leukocyte telomeres are longer in African Americans than in whites: the National Heart, Lung, and Blood Institute Family Heart Study and the Bogalusa Heart Study. Aging Cell (2008) 3.24
Beta-arrestin-mediated localization of smoothened to the primary cilium. Science (2008) 3.10
Human plasmacytoid dendritic cells activated by CpG oligodeoxynucleotides induce the generation of CD4+CD25+ regulatory T cells. J Immunol (2004) 3.10
Type 5 adenylyl cyclase disruption increases longevity and protects against stress. Cell (2007) 2.96
Ninety-day oral toxicity studies on two genetically modified maize MON810 varieties in Wistar Han RCC rats (EU 7th Framework Programme project GRACE). Arch Toxicol (2014) 2.91
Leukocyte telomere dynamics: longitudinal findings among young adults in the Bogalusa Heart Study. Am J Epidemiol (2008) 2.86
Racial diversity of actionable mutations in non-small cell lung cancer. J Thorac Oncol (2015) 2.80
Preperitoneal single-port transvesical enucleation of the prostate (STEP) for large-volume BPH: one-year follow-up of Qmax, IPSS, and QoL. Urology (2012) 2.78
Atrial Fibrillation Is an Independent Predictor of Mortality in Critically Ill Patients. Crit Care Med (2015) 2.77
Single-incision transaxillary robotic thyroidectomy: challenges and limitations in a North American population. Otolaryngol Head Neck Surg (2012) 2.76
Prognostic and predictive value of a microRNA signature in stage II colon cancer: a microRNA expression analysis. Lancet Oncol (2013) 2.67
A maximum entropy model applied to spatial and temporal correlations from cortical networks in vitro. J Neurosci (2008) 2.65
Long noncoding RNA MALAT1 regulates endothelial cell function and vessel growth. Circ Res (2014) 2.60
Analysis of wave behavior in lossy dielectric samples at high field. Magn Reson Med (2002) 2.59
Anesthesiologist board certification and patient outcomes. Anesthesiology (2002) 2.57
Molecular dissection of formation of senescence-associated heterochromatin foci. Mol Cell Biol (2007) 2.56
Different G protein-coupled receptor kinases govern G protein and beta-arrestin-mediated signaling of V2 vasopressin receptor. Proc Natl Acad Sci U S A (2005) 2.53
The microRNA miR-182 is induced by IL-2 and promotes clonal expansion of activated helper T lymphocytes. Nat Immunol (2010) 2.53
Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation. EMBO J (2014) 2.47
Dissecting the genetic complexity of the association between human leukocyte antigens and rheumatoid arthritis. Am J Hum Genet (2002) 2.47
Genome-wide association identifies OBFC1 as a locus involved in human leukocyte telomere biology. Proc Natl Acad Sci U S A (2010) 2.47
A redox-dependent pathway for regulating class II HDACs and cardiac hypertrophy. Cell (2008) 2.47
Childhood uric acid predicts adult blood pressure: the Bogalusa Heart Study. Hypertension (2004) 2.46
The efficacy and safety of milnacipran for treatment of fibromyalgia. a randomized, double-blind, placebo-controlled trial. J Rheumatol (2009) 2.46
MicroRNA, mRNA, and protein expression link development and aging in human and macaque brain. Genome Res (2010) 2.44
Calcium-dependent NOX5 nicotinamide adenine dinucleotide phosphate oxidase contributes to vascular oxidative stress in human coronary artery disease. J Am Coll Cardiol (2008) 2.44
Transforming growth factor (TGF)-β signaling in cardiac remodeling. J Mol Cell Cardiol (2010) 2.35
Characterization of Alisertib (MLN8237), an investigational small-molecule inhibitor of aurora A kinase using novel in vivo pharmacodynamic assays. Clin Cancer Res (2011) 2.35
Ultrahigh field magnetic resonance imaging and spectroscopy. Magn Reson Imaging (2003) 2.34
Exendin-4 improves reversal of diabetes in NOD mice treated with anti-CD3 monoclonal antibody by enhancing recovery of beta-cells. Endocrinology (2007) 2.33
Role of interleukin 17 in inflammation, atherosclerosis, and vascular function in apolipoprotein e-deficient mice. Arterioscler Thromb Vasc Biol (2011) 2.27
Prehypertension and black-white contrasts in cardiovascular risk in young adults: Bogalusa Heart Study. J Hypertens (2009) 2.20
Meta-analysis of Dense Genecentric Association Studies Reveals Common and Uncommon Variants Associated with Height. Am J Hum Genet (2010) 2.15
UCA1, a non-protein-coding RNA up-regulated in bladder carcinoma and embryo, influencing cell growth and promoting invasion. FEBS Lett (2008) 2.14
A three-single-nucleotide polymorphism haplotype in intron 1 of OCA2 explains most human eye-color variation. Am J Hum Genet (2006) 2.14
In vivo 31P magnetic resonance spectroscopy of human brain at 7 T: an initial experience. Magn Reson Med (2003) 2.09
Proton T2 relaxation study of water, N-acetylaspartate, and creatine in human brain using Hahn and Carr-Purcell spin echoes at 4T and 7T. Magn Reson Med (2002) 2.09
Utility of childhood glucose homeostasis variables in predicting adult diabetes and related cardiometabolic risk factors: the Bogalusa Heart Study. Diabetes Care (2009) 2.07