Published in Nucleic Acids Res on January 01, 2006
Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures. Nature (2007) 11.66
Rfam: updates to the RNA families database. Nucleic Acids Res (2008) 11.61
The HGNC Database in 2008: a resource for the human genome. Nucleic Acids Res (2007) 7.29
Identification and classification of conserved RNA secondary structures in the human genome. PLoS Comput Biol (2006) 6.73
Rfam: Wikipedia, clans and the "decimal" release. Nucleic Acids Res (2010) 6.58
genenames.org: the HGNC resources in 2011. Nucleic Acids Res (2010) 5.77
Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis. PLoS Biol (2010) 5.39
MODOMICS: a database of RNA modification pathways--2013 update. Nucleic Acids Res (2012) 4.43
starBase: a database for exploring microRNA-mRNA interaction maps from Argonaute CLIP-Seq and Degradome-Seq data. Nucleic Acids Res (2010) 3.99
Noncoding RNA in development. Mamm Genome (2008) 3.42
Hidden layers of human small RNAs. BMC Genomics (2008) 3.31
A conserved WD40 protein binds the Cajal body localization signal of scaRNP particles. Mol Cell (2009) 2.31
RNAdb 2.0--an expanded database of mammalian non-coding RNAs. Nucleic Acids Res (2006) 2.27
A transcriptional sketch of a primary human breast cancer by 454 deep sequencing. BMC Genomics (2009) 2.27
The Functional RNA Database 3.0: databases to support mining and annotation of functional RNAs. Nucleic Acids Res (2008) 2.10
Stepwise RNP assembly at the site of H/ACA RNA transcription in human cells. J Cell Biol (2006) 2.09
Human box C/D snoRNAs with miRNA like functions: expanding the range of regulatory RNAs. Nucleic Acids Res (2010) 2.08
Human miRNA precursors with box H/ACA snoRNA features. PLoS Comput Biol (2009) 2.06
A blood based 12-miRNA signature of Alzheimer disease patients. Genome Biol (2013) 1.99
New bioinformatic tools for analysis of nucleotide modifications in eukaryotic rRNA. RNA (2007) 1.98
Non-coding RNAs in the nervous system. J Physiol (2006) 1.87
deepBase: a database for deeply annotating and mining deep sequencing data. Nucleic Acids Res (2009) 1.78
Expanding the nucleotide repertoire of the ribosome with post-transcriptional modifications. ACS Chem Biol (2007) 1.73
snoSeeker: an advanced computational package for screening of guide and orphan snoRNA genes in the human genome. Nucleic Acids Res (2006) 1.73
Estrogen receptor alpha controls a gene network in luminal-like breast cancer cells comprising multiple transcription factors and microRNAs. Am J Pathol (2010) 1.73
The 3D rRNA modification maps database: with interactive tools for ribosome analysis. Nucleic Acids Res (2007) 1.65
Dysregulation of ribosome biogenesis and translational capacity is associated with tumor progression of human breast cancer cells. PLoS One (2009) 1.60
Small nucleolar RNA signatures as biomarkers for non-small-cell lung cancer. Mol Cancer (2010) 1.56
Mammalian small nucleolar RNAs are mobile genetic elements. PLoS Genet (2006) 1.55
Critical association of ncRNA with introns. Nucleic Acids Res (2010) 1.54
Epigenetic principles and mechanisms underlying nervous system functions in health and disease. Prog Neurobiol (2008) 1.53
SNPnexus: a web server for functional annotation of novel and publicly known genetic variants (2012 update). Nucleic Acids Res (2012) 1.45
Are snoRNAs and snoRNA host genes new players in cancer? Nat Rev Cancer (2012) 1.44
Digital genome-wide ncRNA expression, including SnoRNAs, across 11 human tissues using polyA-neutral amplification. PLoS One (2010) 1.42
Long noncoding intronic RNAs are differentially expressed in primary and metastatic pancreatic cancer. Mol Cancer (2011) 1.42
Loss of rRNA modifications in the decoding center of the ribosome impairs translation and strongly delays pre-rRNA processing. RNA (2009) 1.41
Structural RNAs of known and unknown function identified in malaria parasites by comparative genomics and RNA analysis. RNA (2007) 1.40
Naming 'junk': human non-protein coding RNA (ncRNA) gene nomenclature. Hum Genomics (2011) 1.39
Prediction and characterization of noncoding RNAs in C. elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data. Genome Res (2010) 1.35
Identification of human miRNA precursors that resemble box C/D snoRNAs. Nucleic Acids Res (2011) 1.35
From snoRNA to miRNA: Dual function regulatory non-coding RNAs. Biochimie (2011) 1.35
Sno/scaRNAbase: a curated database for small nucleolar RNAs and cajal body-specific RNAs. Nucleic Acids Res (2006) 1.33
New families of human regulatory RNA structures identified by comparative analysis of vertebrate genomes. Genome Res (2011) 1.32
Exploration of small RNAs. PLoS Genet (2008) 1.29
Specificity and stoichiometry of subunit interactions in the human telomerase holoenzyme assembled in vivo. Mol Cell Biol (2010) 1.22
Processing of snoRNAs as a new source of regulatory non-coding RNAs: snoRNA fragments form a new class of functional RNAs. Bioessays (2012) 1.22
A global view of the nonprotein-coding transcriptome in Plasmodium falciparum. Nucleic Acids Res (2009) 1.21
Expression analysis and in silico characterization of intronic long noncoding RNAs in renal cell carcinoma: emerging functional associations. Mol Cancer (2013) 1.18
Non-coding RNA annotation of the genome of Trichoplax adhaerens. Nucleic Acids Res (2009) 1.18
Application of housekeeping npcRNAs for quantitative expression analysis of human transcriptome by real-time PCR. RNA (2009) 1.17
DARIO: a ncRNA detection and analysis tool for next-generation sequencing experiments. Nucleic Acids Res (2011) 1.16
Functions of ribosomal proteins in assembly of eukaryotic ribosomes in vivo. Annu Rev Biochem (2015) 1.13
Genome-wide analyses of retrogenes derived from the human box H/ACA snoRNAs. Nucleic Acids Res (2006) 1.11
Autism Genetic Database (AGD): a comprehensive database including autism susceptibility gene-CNVs integrated with known noncoding RNAs and fragile sites. BMC Med Genet (2009) 1.11
Human developmental enhancers conserved between deuterostomes and protostomes. PLoS Genet (2012) 1.07
Androgen responsive intronic non-coding RNAs. BMC Biol (2007) 1.07
PETcofold: predicting conserved interactions and structures of two multiple alignments of RNA sequences. Bioinformatics (2010) 1.07
Homology-based annotation of non-coding RNAs in the genomes of Schistosoma mansoni and Schistosoma japonicum. BMC Genomics (2009) 1.06
Human box C/D snoRNA processing conservation across multiple cell types. Nucleic Acids Res (2011) 1.04
RNAstrand: reading direction of structured RNAs in multiple sequence alignments. Algorithms Mol Biol (2007) 1.03
Loss of ribosomal RNA modification causes developmental defects in zebrafish. Nucleic Acids Res (2011) 1.02
ViRBase: a resource for virus-host ncRNA-associated interactions. Nucleic Acids Res (2014) 1.02
Evolutionarily stable association of intronic snoRNAs and microRNAs with their host genes. Genome Biol Evol (2009) 1.01
H/ACA small RNA dysfunctions in disease reveal key roles for noncoding RNA modifications in hematopoietic stem cell differentiation. Cell Rep (2013) 1.01
The expression pattern of small nucleolar and small Cajal body-specific RNAs characterizes distinct molecular subtypes of multiple myeloma. Blood Cancer J (2012) 1.00
ncRNAimprint: a comprehensive database of mammalian imprinted noncoding RNAs. RNA (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
Dyskeratosis congenita mutations in the H/ACA domain of human telomerase RNA affect its assembly into a pre-RNP. RNA (2008) 0.98
Unconstrained mining of transcript data reveals increased alternative splicing complexity in the human transcriptome. Nucleic Acids Res (2010) 0.97
Profiling microRNAs in lung tissue from pigs infected with Actinobacillus pleuropneumoniae. BMC Genomics (2012) 0.96
Analytical tools and current challenges in the modern era of neuroepigenomics. Nat Neurosci (2014) 0.94
Analysis of human small nucleolar RNAs (snoRNA) and the development of snoRNA modulator of gene expression vectors. Mol Biol Cell (2010) 0.94
Species-specific alternative splicing leads to unique expression of sno-lncRNAs. BMC Genomics (2014) 0.93
Genomic legacy of the African cheetah, Acinonyx jubatus. Genome Biol (2015) 0.93
Efficient and specific knockdown of small non-coding RNAs in mammalian cells and in mice. Nucleic Acids Res (2010) 0.93
Genome-wide analysis of chicken snoRNAs provides unique implications for the evolution of vertebrate snoRNAs. BMC Genomics (2009) 0.93
Structured RNAs and synteny regions in the pig genome. BMC Genomics (2014) 0.92
CpG island hypermethylation-associated silencing of small nucleolar RNAs in human cancer. RNA Biol (2012) 0.92
Identification of differentially expressed non-coding RNAs in embryonic stem cell neural differentiation. Nucleic Acids Res (2012) 0.92
Transcribed pseudogene ψPPM1K generates endogenous siRNA to suppress oncogenic cell growth in hepatocellular carcinoma. Nucleic Acids Res (2013) 0.92
Bioinformatics tools and novel challenges in long non-coding RNAs (lncRNAs) functional analysis. Int J Mol Sci (2011) 0.92
Yeast Kre33 and human NAT10 are conserved 18S rRNA cytosine acetyltransferases that modify tRNAs assisted by the adaptor Tan1/THUMPD1. Nucleic Acids Res (2015) 0.92
Comparative genomics of eukaryotic small nucleolar RNAs reveals deep evolutionary ancestry amidst ongoing intragenomic mobility. BMC Evol Biol (2012) 0.90
ncRDeathDB: A comprehensive bioinformatics resource for deciphering network organization of the ncRNA-mediated cell death system. Autophagy (2015) 0.90
Diverse human extracellular RNAs are widely detected in human plasma. Nat Commun (2016) 0.90
RIP-seq analysis of eukaryotic Sm proteins identifies three major categories of Sm-containing ribonucleoproteins. Genome Biol (2014) 0.90
The emerging landscape of small nucleolar RNAs in cell biology. Wiley Interdiscip Rev RNA (2015) 0.89
Analysis of small nucleolar RNAs reveals unique genetic features in malaria parasites. BMC Genomics (2009) 0.89
Mining small RNA sequencing data: a new approach to identify small nucleolar RNAs in Arabidopsis. Nucleic Acids Res (2009) 0.88
RMBase: a resource for decoding the landscape of RNA modifications from high-throughput sequencing data. Nucleic Acids Res (2015) 0.88
RNAspace.org: An integrated environment for the prediction, annotation, and analysis of ncRNA. RNA (2011) 0.87
RNA-guided isomerization of uridine to pseudouridine--pseudouridylation. RNA Biol (2014) 0.87
28S rRNA is inducibly pseudouridylated by the mTOR pathway translational control in CHO cell cultures. J Biotechnol (2014) 0.87
Systematic identification and characterization of chicken (Gallus gallus) ncRNAs. Nucleic Acids Res (2009) 0.86
Looking into laminin receptor: critical discussion regarding the non-integrin 37/67-kDa laminin receptor/RPSA protein. Biol Rev Camb Philos Soc (2015) 0.86
Plant U13 orthologues and orphan snoRNAs identified by RNomics of RNA from Arabidopsis nucleoli. Nucleic Acids Res (2010) 0.86
Novel small Cajal-body-specific RNAs identified in Drosophila: probing guide RNA function. RNA (2013) 0.86
Comparison of splice sites reveals that long noncoding RNAs are evolutionarily well conserved. RNA (2015) 0.85
Loss-of-function mutations in the RNA biogenesis factor NAF1 predispose to pulmonary fibrosis-emphysema. Sci Transl Med (2016) 0.85
BLAT--the BLAST-like alignment tool. Genome Res (2002) 126.78
The UCSC Genome Browser Database. Nucleic Acids Res (2003) 32.84
Rfam: annotating non-coding RNAs in complete genomes. Nucleic Acids Res (2005) 25.49
Site-specific pseudouridine formation in preribosomal RNA is guided by small nucleolar RNAs. Cell (1997) 10.71
Site-specific ribose methylation of preribosomal RNA: a novel function for small nucleolar RNAs. Cell (1996) 7.92
Small nucleolar RNAs: an abundant group of noncoding RNAs with diverse cellular functions. Cell (2002) 6.62
The expanding snoRNA world. Biochimie (2002) 6.10
RNomics: an experimental approach that identifies 201 candidates for novel, small, non-messenger RNAs in mouse. EMBO J (2001) 5.70
Small nucleolar RNAs direct site-specific synthesis of pseudouridine in ribosomal RNA. Cell (1997) 5.60
Targeted ribose methylation of RNA in vivo directed by tailored antisense RNA guides. Nature (1996) 5.08
Cajal body-specific small nuclear RNAs: a novel class of 2'-O-methylation and pseudouridylation guide RNAs. EMBO J (2002) 4.48
Biogenesis of small nucleolar ribonucleoproteins. Curr Opin Cell Biol (2002) 4.28
Small nucleolar RNA-guided post-transcriptional modification of cellular RNAs. EMBO J (2001) 3.89
Guided tours: from precursor snoRNA to functional snoRNP. Curr Opin Cell Biol (1999) 3.88
A small nucleolar guide RNA functions both in 2'-O-ribose methylation and pseudouridylation of the U5 spliceosomal RNA. EMBO J (2001) 3.15
The Small Subunit rRNA Modification Database. Nucleic Acids Res (2005) 1.79
RNA structure and function in C/D and H/ACA s(no)RNPs. Curr Opin Struct Biol (2004) 1.70
Guide RNAs with 5' caps and novel box C/D snoRNA-like domains for modification of snRNAs in metazoa. Curr Biol (2004) 1.45