Published in Nucleic Acids Res on December 11, 2009
Transcriptome and genome sequencing uncovers functional variation in humans. Nature (2013) 8.89
Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories. Nat Biotechnol (2013) 2.53
Post-transcriptional generation of miRNA variants by multiple nucleotidyl transferases contributes to miRNA transcriptome complexity. Genome Res (2011) 2.34
miRanalyzer: an update on the detection and analysis of microRNAs in high-throughput sequencing experiments. Nucleic Acids Res (2011) 2.25
MicroRNAs and their isomiRs function cooperatively to target common biological pathways. Genome Biol (2011) 2.15
A myriad of miRNA variants in control and Huntington's disease brain regions detected by massively parallel sequencing. Nucleic Acids Res (2010) 1.99
mirTools: microRNA profiling and discovery based on high-throughput sequencing. Nucleic Acids Res (2010) 1.70
microRNAs associated with the different human Argonaute proteins. Nucleic Acids Res (2012) 1.66
New methods for next generation sequencing based microRNA expression profiling. BMC Genomics (2010) 1.38
miRDeep*: an integrated application tool for miRNA identification from RNA sequencing data. Nucleic Acids Res (2012) 1.37
Systematic identification of edited microRNAs in the human brain. Genome Res (2012) 1.35
Deep annotation of mouse iso-miR and iso-moR variation. Nucleic Acids Res (2012) 1.27
Evidence for the biogenesis of more than 1,000 novel human microRNAs. Genome Biol (2014) 1.23
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
Naturally occurring variations in sequence length creates microRNA isoforms that differ in argonaute effector complex specificity. Silence (2010) 1.05
A highly expressed miR-101 isomiR is a functional silencing small RNA. BMC Genomics (2013) 1.05
YM500: a small RNA sequencing (smRNA-seq) database for microRNA research. Nucleic Acids Res (2012) 1.04
sRNAtoolbox: an integrated collection of small RNA research tools. Nucleic Acids Res (2015) 1.02
miRviewer: a multispecies microRNA homologous viewer. BMC Res Notes (2012) 0.98
A Review of Computational Tools in microRNA Discovery. Front Genet (2013) 0.98
Microarray and deep sequencing cross-platform analysis of the mirRNome and isomiR variation in response to epidermal growth factor. BMC Genomics (2013) 0.97
A computational approach for identifying microRNA-target interactions using high-throughput CLIP and PAR-CLIP sequencing. BMC Genomics (2013) 0.96
Genome-wide approaches in the study of microRNA biology. Wiley Interdiscip Rev Syst Biol Med (2010) 0.95
A comprehensive characterization of the nuclear microRNA repertoire of post-mitotic neurons. Front Mol Neurosci (2013) 0.94
eRNA: a graphic user interface-based tool optimized for large data analysis from high-throughput RNA sequencing. BMC Genomics (2014) 0.90
Prognostic value of miR-375 and miR-214-3p in early stage oral squamous cell carcinoma. Am J Transl Res (2014) 0.88
MicroRNA Profiling of Neurons Generated Using Induced Pluripotent Stem Cells Derived from Patients with Schizophrenia and Schizoaffective Disorder, and 22q11.2 Del. PLoS One (2015) 0.86
Splice isoform-specific suppression of the Cav2.1 variant underlying spinocerebellar ataxia type 6. Neurobiol Dis (2011) 0.86
Genome-wide characterization of methylguanosine-capped and polyadenylated small RNAs in the rice blast fungus Magnaporthe oryzae. Nucleic Acids Res (2010) 0.85
Optimization of miRNA-seq data preprocessing. Brief Bioinform (2015) 0.85
Adaptive evolution of testis-specific, recently evolved, clustered miRNAs in Drosophila. RNA (2014) 0.80
High-resolution analysis of the human retina miRNome reveals isomiR variations and novel microRNAs. Nucleic Acids Res (2016) 0.79
The small RNA content of human sperm reveals pseudogene-derived piRNAs complementary to protein-coding genes. RNA (2015) 0.78
DeAnnIso: a tool for online detection and annotation of isomiRs from small RNA sequencing data. Nucleic Acids Res (2016) 0.78
miFRame: analysis and visualization of miRNA sequencing data in neurological disorders. J Transl Med (2015) 0.77
Circulating microRNAs and Bioinformatics Tools to Discover Novel Diagnostic Biomarkers of Pediatric Diseases. Genes (Basel) (2017) 0.77
miRNA transcriptome of hypertrophic skeletal muscle with overexpressed myostatin propeptide. Biomed Res Int (2014) 0.76
mirPRo-a novel standalone program for differential expression and variation analysis of miRNAs. Sci Rep (2015) 0.75
Survey of 800+ datasets from human tissue and body fluid reveals XenomiRs are likely artifacts. RNA (2017) 0.75
Molecular, phenotypic, and sample-associated data to describe pluripotent stem cell lines and derivatives. Sci Data (2017) 0.75
miRMOD: a tool for identification and analysis of 5' and 3' miRNA modifications in Next Generation Sequencing small RNA data. PeerJ (2015) 0.75
QuickMIRSeq: a pipeline for quick and accurate quantification of both known miRNAs and isomiRs by jointly processing multiple samples from microRNA sequencing. BMC Bioinformatics (2017) 0.75
Analyzing the microRNA Transcriptome in Plants Using Deep Sequencing Data. Biology (Basel) (2012) 0.75
Characterizing isomiR variants within the microRNA-34/449 family. FEBS Lett (2017) 0.75
Evaluation of high-throughput isomiR identification tools: illuminating the early isomiRome of Tribolium castaneum. BMC Bioinformatics (2017) 0.75
A general method applicable to the search for similarities in the amino acid sequence of two proteins. J Mol Biol (1970) 155.96
Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell (2005) 96.87
SOAP: short oligonucleotide alignment program. Bioinformatics (2008) 68.13
Combinatorial microRNA target predictions. Nat Genet (2005) 50.48
MicroRNA targeting specificity in mammals: determinants beyond seed pairing. Mol Cell (2007) 38.42
A mammalian microRNA expression atlas based on small RNA library sequencing. Cell (2007) 34.03
Substantial biases in ultra-short read data sets from high-throughput DNA sequencing. Nucleic Acids Res (2008) 26.36
The significance of digital gene expression profiles. Genome Res (1997) 23.90
Principles of microRNA-target recognition. PLoS Biol (2005) 23.70
Origins and Mechanisms of miRNAs and siRNAs. Cell (2009) 20.77
MicroRNA sponges: competitive inhibitors of small RNAs in mammalian cells. Nat Methods (2007) 13.94
Small silencing RNAs: an expanding universe. Nat Rev Genet (2009) 13.88
PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls. Nat Biotechnol (2009) 11.28
Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes. Nature (2008) 10.71
Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells. Genome Res (2008) 10.18
Redirection of silencing targets by adenosine-to-inosine editing of miRNAs. Science (2007) 7.15
A piRNA pathway primed by individual transposons is linked to de novo DNA methylation in mice. Mol Cell (2008) 6.35
Identification and characterization of two novel classes of small RNAs in the mouse germline: retrotransposon-derived siRNAs in oocytes and germline small RNAs in testes. Genes Dev (2006) 4.97
RNA editing of a miRNA precursor. RNA (2004) 4.43
Revisiting the principles of microRNA target recognition and mode of action. Nat Rev Mol Cell Biol (2009) 4.38
Approaches to microRNA discovery. Nat Genet (2006) 4.32
RNA editing of human microRNAs. Genome Biol (2006) 4.16
In-depth characterization of the microRNA transcriptome in a leukemia progression model. Genome Res (2008) 3.55
MiRNAs and cancer. Am J Pathol (2009) 3.42
RNA editing of the microRNA-151 precursor blocks cleavage by the Dicer-TRBP complex. EMBO Rep (2007) 3.40
Identification and characterization of small RNAs involved in RNA silencing. FEBS Lett (2005) 3.39
Alterations of the microRNA network cause neurodegenerative disease. Trends Neurosci (2009) 2.96
miRanalyzer: a microRNA detection and analysis tool for next-generation sequencing experiments. Nucleic Acids Res (2009) 2.90
Frequency and fate of microRNA editing in human brain. Nucleic Acids Res (2008) 2.77
Massively parallel signature sequencing (MPSS) as a tool for in-depth quantitative gene expression profiling in all organisms. Brief Funct Genomic Proteomic (2002) 2.71
Meta-analysis of small RNA-sequencing errors reveals ubiquitous post-transcriptional RNA modifications. Nucleic Acids Res (2009) 2.27
miRExpress: analyzing high-throughput sequencing data for profiling microRNA expression. BMC Bioinformatics (2009) 2.22
microPred: effective classification of pre-miRNAs for human miRNA gene prediction. Bioinformatics (2009) 2.11
SnapShot: MicroRNAs in Cancer. Cell (2009) 2.10
Computational and analytical framework for small RNA profiling by high-throughput sequencing. RNA (2009) 1.97
Computational analysis of small RNA cloning data. Methods (2008) 1.96
Mouse let-7 miRNA populations exhibit RNA editing that is constrained in the 5'-seed/ cleavage/anchor regions and stabilize predicted mmu-let-7a:mRNA duplexes. Genome Res (2008) 1.66
Transcription factor map alignment of promoter regions. PLoS Comput Biol (2006) 1.22
Bioinformatics analysis suggests base modifications of tRNAs and miRNAs in Arabidopsis thaliana. BMC Genomics (2009) 1.11
A-to-I RNA editing alters less-conserved residues of highly conserved coding regions: implications for dual functions in evolution. RNA (2008) 1.01
A combinatorial approach to determine the context-dependent role in transcriptional and posttranscriptional regulation in Arabidopsis thaliana. BMC Syst Biol (2009) 0.80
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09
Global variation in copy number in the human genome. Nature (2006) 57.50
International network of cancer genome projects. Nature (2010) 20.35
Whole-genome sequencing identifies recurrent mutations in chronic lymphocytic leukaemia. Nature (2011) 13.18
Recurrent rearrangements of chromosome 1q21.1 and variable pediatric phenotypes. N Engl J Med (2008) 10.88
Transcriptome and genome sequencing uncovers functional variation in humans. Nature (2013) 8.89
A genome-wide association study identifies new psoriasis susceptibility loci and an interaction between HLA-C and ERAP1. Nat Genet (2010) 8.48
Genome assembly comparison identifies structural variants in the human genome. Nat Genet (2006) 6.93
Exome sequencing identifies recurrent mutations of the splicing factor SF3B1 gene in chronic lymphocytic leukemia. Nat Genet (2011) 6.43
Deletion of the late cornified envelope LCE3B and LCE3C genes as a susceptibility factor for psoriasis. Nat Genet (2009) 5.93
Genome-wide detection of segmental duplications and potential assembly errors in the human genome sequence. Genome Biol (2003) 4.32
Identification of 15 new psoriasis susceptibility loci highlights the role of innate immunity. Nat Genet (2012) 4.13
Copy number variants and genetic traits: closer to the resolution of phenotypic to genotypic variability. Nat Rev Genet (2007) 3.98
SNPassoc: an R package to perform whole genome association studies. Bioinformatics (2007) 3.52
Genetic structure of Europeans: a view from the North-East. PLoS One (2009) 3.46
BLUEPRINT to decode the epigenetic signature written in blood. Nat Biotechnol (2012) 3.24
Human chromosome 7: DNA sequence and biology. Science (2003) 3.02
Mirror extreme BMI phenotypes associated with gene dosage at the chromosome 16p11.2 locus. Nature (2011) 2.59
Brain-derived neurotrophic factor Val66Met and psychiatric disorders: meta-analysis of case-control studies confirm association to substance-related disorders, eating disorders, and schizophrenia. Biol Psychiatry (2007) 2.55
Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories. Nat Biotechnol (2013) 2.53
Dyrk1A haploinsufficiency affects viability and causes developmental delay and abnormal brain morphology in mice. Mol Cell Biol (2002) 2.51
Variants at APOE influence risk of deep and lobar intracerebral hemorrhage. Ann Neurol (2010) 2.31
Renaming the DSCR1/Adapt78 gene family as RCAN: regulators of calcineurin. FASEB J (2007) 2.30
Genomic inversions of human chromosome 15q11-q13 in mothers of Angelman syndrome patients with class II (BP2/3) deletions. Hum Mol Genet (2003) 2.25
Mitochondrial 12S rRNA gene mutations affect RNA secondary structure and lead to variable penetrance in hearing impairment. Biochem Biophys Res Commun (2006) 2.21
Enrichment of segmental duplications in regions of breaks of synteny between the human and mouse genomes suggest their involvement in evolutionary rearrangements. Hum Mol Genet (2003) 2.07
A myriad of miRNA variants in control and Huntington's disease brain regions detected by massively parallel sequencing. Nucleic Acids Res (2010) 1.99
Origin of primate orphan genes: a comparative genomics approach. Mol Biol Evol (2008) 1.95
KLHL3 mutations cause familial hyperkalemic hypertension by impairing ion transport in the distal nephron. Nat Genet (2012) 1.93
Maximizing association statistics over genetic models. Genet Epidemiol (2008) 1.93
MicroRNA profiling of Parkinson's disease brains identifies early downregulation of miR-34b/c which modulate mitochondrial function. Hum Mol Genet (2011) 1.92
New loci associated with birth weight identify genetic links between intrauterine growth and adult height and metabolism. Nat Genet (2012) 1.90
Meta-analysis confirms the LCE3C_LCE3B deletion as a risk factor for psoriasis in several ethnic groups and finds interaction with HLA-Cw6. J Invest Dermatol (2010) 1.82
Variation in a repeat sequence determines whether a common variant of the cystic fibrosis transmembrane conductance regulator gene is pathogenic or benign. Am J Hum Genet (2003) 1.81
Human mitochondrial transcription factor B1 as a modifier gene for hearing loss associated with the mitochondrial A1555G mutation. Mol Genet Metab (2004) 1.81
Prevalence and evolutionary origins of the del(GJB6-D13S1830) mutation in the DFNB1 locus in hearing-impaired subjects: a multicenter study. Am J Hum Genet (2003) 1.79
Mutation in TRMU related to transfer RNA modification modulates the phenotypic expression of the deafness-associated mitochondrial 12S ribosomal RNA mutations. Am J Hum Genet (2006) 1.79
DNA hypomethylation at ALOX12 is associated with persistent wheezing in childhood. Am J Respir Crit Care Med (2012) 1.71
Nonmuscle myosin heavy-chain gene MYH14 is expressed in cochlea and mutated in patients affected by autosomal dominant hearing impairment (DFNA4). Am J Hum Genet (2004) 1.67
Differential association of circadian genes with mood disorders: CRY1 and NPAS2 are associated with unipolar major depression and CLOCK and VIP with bipolar disorder. Neuropsychopharmacology (2010) 1.56
Human chromosome 15q11-q14 regions of rearrangements contain clusters of LCR15 duplicons. Eur J Hum Genet (2002) 1.55
Human microRNAs miR-22, miR-138-2, miR-148a, and miR-488 are associated with panic disorder and regulate several anxiety candidate genes and related pathways. Biol Psychiatry (2010) 1.46
DYRK1A-dosage imbalance perturbs NRSF/REST levels, deregulating pluripotency and embryonic stem cell fate in Down syndrome. Am J Hum Genet (2008) 1.45
The human early-life exposome (HELIX): project rationale and design. Environ Health Perspect (2014) 1.44
Coding haplotype analysis supports HCR as the putative susceptibility gene for psoriasis at the MHC PSORS1 locus. Hum Mol Genet (2002) 1.42
DYRK1A accumulates in splicing speckles through a novel targeting signal and induces speckle disassembly. J Cell Sci (2003) 1.36
Complex patterns of copy number variation at sites of segmental duplications: an important category of structural variation in the human genome. Hum Genet (2006) 1.33
Phosphorylation of calcipressin 1 increases its ability to inhibit calcineurin and decreases calcipressin half-life. Biochem J (2003) 1.30
Replication of LCE3C-LCE3B CNV as a risk factor for psoriasis and analysis of interaction with other genetic risk factors. J Invest Dermatol (2009) 1.26
Dyrk1A expression pattern supports specific roles of this kinase in the adult central nervous system. Brain Res (2003) 1.25
Evidence for the biogenesis of more than 1,000 novel human microRNAs. Genome Biol (2014) 1.23
Human connexin26 (GJB2) deafness mutations affect the function of gap junction channels at different levels of protein expression. Hum Genet (2002) 1.23
Association of BDNF with anorexia, bulimia and age of onset of weight loss in six European populations. Hum Mol Genet (2004) 1.20
A pathogenic mechanism in Huntington's disease involves small CAG-repeated RNAs with neurotoxic activity. PLoS Genet (2012) 1.20
Mutations in the TMPRSS3 gene are a rare cause of childhood nonsyndromic deafness in Caucasian patients. J Mol Med (Berl) (2001) 1.19
Aneuploidy: from a physiological mechanism of variance to Down syndrome. Physiol Rev (2009) 1.18
Traffic-related air pollution, oxidative stress genes, and asthma (ECHRS). Environ Health Perspect (2009) 1.18
Genetic variants and abnormal processing of pre-miR-182, a circadian clock modulator, in major depression patients with late insomnia. Hum Mol Genet (2010) 1.15
BAC array CGH in patients with Velocardiofacial syndrome-like features reveals genomic aberrations on chromosome region 1q21.1. BMC Med Genet (2009) 1.15
Identification of new putative susceptibility genes for several psychiatric disorders by association analysis of regulatory and non-synonymous SNPs of 306 genes involved in neurotransmission and neurodevelopment. Am J Med Genet B Neuropsychiatr Genet (2009) 1.14
Deletion of LCE3C and LCE3B genes at PSORS4 does not contribute to susceptibility to psoriatic arthritis in German patients. Ann Rheum Dis (2009) 1.13
Association of BDNF with restricting anorexia nervosa and minimum body mass index: a family-based association study of eight European populations. Eur J Hum Genet (2005) 1.13
Genetic characterization of northeastern Italian population isolates in the context of broader European genetic diversity. Eur J Hum Genet (2012) 1.12
RCAN1 (DSCR1) increases neuronal susceptibility to oxidative stress: a potential pathogenic process in neurodegeneration. Hum Mol Genet (2007) 1.10
Allele variants in functional MicroRNA target sites of the neurotrophin-3 receptor gene (NTRK3) as susceptibility factors for anxiety disorders. Hum Mutat (2009) 1.09
Murine segmental duplications are hot spots for chromosome and gene evolution. Genomics (2005) 1.07
A highly expressed miR-101 isomiR is a functional silencing small RNA. BMC Genomics (2013) 1.05
Overexpression of miR-128 specifically inhibits the truncated isoform of NTRK3 and upregulates BCL2 in SH-SY5Y neuroblastoma cells. BMC Mol Biol (2010) 1.05
Different mechanisms preclude mutant CLDN14 proteins from forming tight junctions in vitro. Hum Mutat (2005) 1.03
An integrated genetic and functional analysis of the role of type II transmembrane serine proteases (TMPRSSs) in hearing loss. Hum Mutat (2008) 1.02
Comprehensive copy number variant (CNV) analysis of neuronal pathways genes in psychiatric disorders identifies rare variants within patients. J Psychiatr Res (2010) 1.02
Phenotype of non-syndromic deafness associated with the mitochondrial A1555G mutation is modulated by mitochondrial RNA modifying enzymes MTO1 and GTPBP3. Mol Genet Metab (2004) 1.01
LRRN6A/LERN1 (leucine-rich repeat neuronal protein 1), a novel gene with enriched expression in limbic system and neocortex. Eur J Neurosci (2003) 1.01
Cancer: When catastrophe strikes a cell. Nature (2011) 1.01
Developmental analysis of Lingo-1/Lern1 protein expression in the mouse brain: interaction of its intracellular domain with Myt1l. Dev Neurobiol (2008) 1.01
Genetic variants of the FADS gene cluster and ELOVL gene family, colostrums LC-PUFA levels, breastfeeding, and child cognition. PLoS One (2011) 0.99
Identification of large-scale human-specific copy number differences by inter-species array comparative genomic hybridization. Hum Genet (2006) 0.99
Assessment of the neuropeptide S system in anxiety disorders. Biol Psychiatry (2010) 0.99
Accounting for uncertainty when assessing association between copy number and disease: a latent class model. BMC Bioinformatics (2009) 0.98
Probe-specific mixed-model approach to detect copy number differences using multiplex ligation-dependent probe amplification (MLPA). BMC Bioinformatics (2008) 0.97
Connexin mutations in hearing loss, dermatological and neurological disorders. Trends Mol Med (2002) 0.97
Differential expression of members of the RCAN family of calcineurin regulators suggests selective functions for these proteins in the brain. Eur J Neurosci (2007) 0.97
Genetic and genomic analysis modeling of germline c-MYC overexpression and cancer susceptibility. BMC Genomics (2008) 0.97
Microarray and deep sequencing cross-platform analysis of the mirRNome and isomiR variation in response to epidermal growth factor. BMC Genomics (2013) 0.97
Overexpression of the CHRNA5/A3/B4 genomic cluster in mice increases the sensitivity to nicotine and modifies its reinforcing effects. Amino Acids (2011) 0.96
Gene expression signatures in breast cancer distinguish phenotype characteristics, histologic subtypes, and tumor invasiveness. Cancer (2010) 0.96
Association study of 10 genes encoding neurotrophic factors and their receptors in adult and child attention-deficit/hyperactivity disorder. Biol Psychiatry (2008) 0.96
Are MYO1C and MYO1F associated with hearing loss? Biochim Biophys Acta (2008) 0.95
Deletion of Late Cornified Envelope 3B and 3C genes is not associated with atopic dermatitis. J Invest Dermatol (2010) 0.94
Detection of unrecognized low-level mtDNA heteroplasmy may explain the variable phenotypic expressivity of apparently homoplasmic mtDNA mutations. Hum Mutat (2008) 0.93