Published in Nucleic Acids Res on January 01, 2001
ARB: a software environment for sequence data. Nucleic Acids Res (2004) 58.27
SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res (2007) 35.65
The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs. BMC Bioinformatics (2002) 29.41
Rfam: an RNA family database. Nucleic Acids Res (2003) 22.93
Query-dependent banding (QDB) for faster RNA similarity searches. PLoS Comput Biol (2007) 6.34
The promise of a DNA taxonomy. Philos Trans R Soc Lond B Biol Sci (2004) 5.51
Pfold: RNA secondary structure prediction using stochastic context-free grammars. Nucleic Acids Res (2003) 4.41
Evaluation of several lightweight stochastic context-free grammars for RNA secondary structure prediction. BMC Bioinformatics (2004) 3.60
A comprehensive comparison of comparative RNA structure prediction approaches. BMC Bioinformatics (2004) 3.20
Characteristics of the nuclear (18S, 5.8S, 28S and 5S) and mitochondrial (12S and 16S) rRNA genes of Apis mellifera (Insecta: Hymenoptera): structure, organization, and retrotransposable elements. Insect Mol Biol (2006) 2.30
Comparative analysis of ribosomal proteins in complete genomes: an example of reductive evolution at the domain scale. Nucleic Acids Res (2002) 2.24
Efficient pairwise RNA structure prediction and alignment using sequence alignment constraints. BMC Bioinformatics (2006) 2.08
Exceptional among-lineage variation in diversification rates during the radiation of Australia's most diverse vertebrate clade. Proc Biol Sci (2007) 1.94
Distribution of substitution rates and location of insertion sites in the tertiary structure of ribosomal RNA. Nucleic Acids Res (2001) 1.80
A computational screen for mammalian pseudouridylation guide H/ACA RNAs. RNA (2006) 1.52
Searching for RNA genes using base-composition statistics. Nucleic Acids Res (2002) 1.51
On the occurrence of the T-loop RNA folding motif in large RNA molecules. RNA (2003) 1.37
Rapid and repeated limb loss in a clade of scincid lizards. BMC Evol Biol (2008) 1.21
GU receptors of double helices mediate tRNA movement in the ribosome. RNA (2002) 1.12
The ITS1-5.8S-ITS2 sequence region in the Musaceae: structure, diversity and use in molecular phylogeny. PLoS One (2011) 1.12
Natural selection is not required to explain universal compositional patterns in rRNA secondary structure categories. RNA (2006) 1.10
Structural and evolutionary classification of G/U wobble basepairs in the ribosome. Nucleic Acids Res (2006) 1.10
Evaluation of sequence alignments and oligonucleotide probes with respect to three-dimensional structure of ribosomal RNA using ARB software package. BMC Bioinformatics (2006) 1.07
Tfold: efficient in silico prediction of non-coding RNA secondary structures. Nucleic Acids Res (2010) 0.97
Extensive 5.8S nrDNA polymorphism in Mammillaria (Cactaceae) with special reference to the identification of pseudogenic internal transcribed spacer regions. J Plant Res (2008) 0.94
The complete mitochondrial genome of the entomopathogenic nematode Steinernema carpocapsae: insights into nematode mitochondrial DNA evolution and phylogeny. J Mol Evol (2006) 0.92
Yeast 18 S rRNA is directly involved in the ribosomal response to stringent AUG selection during translation initiation. J Biol Chem (2010) 0.91
Specific detection of Pacific oyster (Crassostrea gigas) larvae in plankton samples using nested polymerase chain reaction. Mar Biotechnol (NY) (2005) 0.90
Deep genetic divergences among Indo-Pacific populations of the coral reef sponge Leucetta chagosensis (Leucettidae): founder effects, vicariance, or both? BMC Evol Biol (2008) 0.89
The roles of S1 RNA-binding domains in Rrp5's interactions with pre-rRNA. RNA (2011) 0.88
Elastic properties of ribosomal RNA building blocks: molecular dynamics of the GTPase-associated center rRNA. Nucleic Acids Res (2007) 0.87
Population genetics of two asexually and sexually reproducing psocids species inferred by the analysis of mitochondrial and nuclear DNA sequences. PLoS One (2012) 0.83
Sensitivity of Ribosomal RNA Character Sampling in the Phylogeny of Rhabditida. J Nematol (2015) 0.82
Random generation of RNA secondary structures according to native distributions. Algorithms Mol Biol (2011) 0.81
Molecular phylogeny of pearl oysters and their relatives (Mollusca, Bivalvia, Pterioidea). BMC Evol Biol (2010) 0.81
The right angle (RA) motif: a prevalent ribosomal RNA structural pattern found in group I introns. J Mol Biol (2012) 0.80
Large subunit mitochondrial rRNA secondary structures and site-specific rate variation in two lizard lineages. J Mol Evol (2005) 0.77
The separation between the 5'-3' ends in long RNA molecules is short and nearly constant. Nucleic Acids Res (2014) 0.76
Comparative analysis of the ribosomal components of the hydrogenosome-containing protist, Trichomonas vaginalis. J Mol Evol (2004) 0.76
Random mutagenesis of yeast 25S rRNA identify bases critical for 60S subunit structural integrity and function. Translation (Austin) (2013) 0.75
Alloionema similis n. sp., a genetically divergent sibling species of A. appendiculatum Schneider, 1859 (Rhabditida: Alloionematidae) from invasive slugs in California, USA. Syst Parasitol (2016) 0.75
RNA secondary structures in a polymer-zeta model how foldings should be shaped for sparsification to establish a linear speedup. J Math Biol (2015) 0.75
Database resources of the National Center for Biotechnology Information. Nucleic Acids Res (2000) 34.79
The complete atomic structure of the large ribosomal subunit at 2.4 A resolution. Science (2000) 28.25
The EMBL nucleotide sequence database. Nucleic Acids Res (2000) 15.57
DCSE, an interactive tool for sequence alignment and secondary structure research. Comput Appl Biosci (1993) 12.10
The evolution of stramenopiles and alveolates as derived by "substitution rate calibration" of small ribosomal subunit RNA. J Mol Evol (1996) 3.52
RnaViz, a program for the visualisation of RNA secondary structure. Nucleic Acids Res (1997) 2.54
Fourteen internal transcribed spacers in the circular ribosomal DNA of Euglena gracilis. J Mol Biol (1990) 2.00
The genome of black cottonwood, Populus trichocarpa (Torr. & Gray). Science (2006) 21.03
TREECON for Windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment. Comput Appl Biosci (1994) 14.57
DCSE, an interactive tool for sequence alignment and secondary structure research. Comput Appl Biosci (1993) 12.10
Compilation of small ribosomal subunit RNA sequences. Nucleic Acids Res (1990) 11.22
Compilation of small ribosomal subunit RNA structures. Nucleic Acids Res (1993) 11.07
Compilation of small ribosomal subunit RNA sequences. Nucleic Acids Res (1992) 8.51
Compilation of small ribosomal subunit RNA sequences. Nucleic Acids Res (1988) 5.85
The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis. Nature (2008) 5.42
Oceanic 18S rDNA sequences from picoplankton reveal unsuspected eukaryotic diversity. Nature (2001) 5.25
Compilation of small ribosomal subunit RNA sequences. Nucleic Acids Res (1991) 5.03
Compilation of small ribosomal subunit RNA sequences. Nucleic Acids Res (1986) 4.25
Extraction of high molecular weight DNA from molluscs. Trends Genet (1993) 4.17
A quantitative map of nucleotide substitution rates in bacterial rRNA. Nucleic Acids Res (1996) 3.90
Evaluation of the INNO-LiPA Rif. TB assay, a reverse hybridization assay for the simultaneous detection of Mycobacterium tuberculosis complex and its resistance to rifampin. Antimicrob Agents Chemother (1997) 3.55
The evolution of stramenopiles and alveolates as derived by "substitution rate calibration" of small ribosomal subunit RNA. J Mol Evol (1996) 3.52
Database on the structure of small ribosomal subunit RNA. Nucleic Acids Res (1997) 2.95
TREECON: a software package for the construction and drawing of evolutionary trees. Comput Appl Biosci (1993) 2.72
Comparative genomics provides evidence for an ancient genome duplication event in fish. Philos Trans R Soc Lond B Biol Sci (2001) 2.66
Database on the structure of small ribosomal subunit RNA. Nucleic Acids Res (1996) 2.59
Nucleotide sequence of a crustacean 18S ribosomal RNA gene and secondary structure of eukaryotic small subunit ribosomal RNAs. Nucleic Acids Res (1984) 2.57
Structure of the 16 S ribosomal RNA of the thermophilic cyanobacterium Chlorogloeopsis HTF ('Mastigocladus laminosus HTF') strain PCC7518, and phylogenetic analysis. FEBS Lett (1993) 2.57
Comparative analysis of more than 3000 sequences reveals the existence of two pseudoknots in area V4 of eukaryotic small subunit ribosomal RNA. Nucleic Acids Res (2000) 2.56
RnaViz, a program for the visualisation of RNA secondary structure. Nucleic Acids Res (1997) 2.54
Discrimination among thermophilic Campylobacter species by polymerase chain reaction amplification of 23S rRNA gene fragments. J Clin Microbiol (1993) 2.54
Collection of published 5S and 5.8S ribosomal RNA sequences. Nucleic Acids Res (1983) 2.50
Construction of evolutionary distance trees with TREECON for Windows: accounting for variation in nucleotide substitution rate among sites. Comput Appl Biosci (1997) 2.48
The European small subunit ribosomal RNA database. Nucleic Acids Res (2000) 2.43
Conservation of secondary structure in 5 S ribosomal RNA: a uniform model for eukaryotic, eubacterial, archaebacterial and organelle sequences is energetically favourable. Biochimie (1982) 2.42
Database on the structure of small ribosomal subunit RNA. Nucleic Acids Res (1994) 2.41
Reconstructing evolution from eukaryotic small-ribosomal-subunit RNA sequences: calibration of the molecular clock. J Mol Evol (1993) 2.11
Detection and identification of mycobacteria by DNA amplification and oligonucleotide-specific capture plate hybridization. J Clin Microbiol (1995) 1.94
The nucleotide sequences of the 5S rRNAs of four mushrooms and their use in studying the phylogenetic position of basidiomycetes among the eukaryotes. Nucleic Acids Res (1983) 1.89
Small ribosomal subunit RNA sequences, evolutionary relationships among different life forms, and mitochondrial origins. J Mol Evol (1990) 1.85
Collection of published 5S, 5.8S and 4.5S ribosomal RNA sequences. Nucleic Acids Res (1985) 1.85
Evolution according to large ribosomal subunit RNA. J Mol Evol (1995) 1.81
Distribution of substitution rates and location of insertion sites in the tertiary structure of ribosomal RNA. Nucleic Acids Res (2001) 1.80
Classification of all putative permeases and other membrane plurispanners of the major facilitator superfamily encoded by the complete genome of Saccharomyces cerevisiae. FEMS Microbiol Rev (1997) 1.77
Collection of published 5S and 5.8S ribosomal RNA sequences. Nucleic Acids Res (1984) 1.76
An early origin of plastids within the cyanobacterial divergence is suggested by evolutionary trees based on complete 16S rRNA sequences. Mol Biol Evol (1995) 1.75
Evolutionary relationships among the eukaryotic crown taxa taking into account site-to-site rate variation in 18S rRNA. J Mol Evol (1997) 1.73
Sequences of three molluscan 5 S ribosomal RNAs confirm the validity of a dynamic secondary structure model. Nucleic Acids Res (1982) 1.73
Molecular genealogy of some nematode taxa as based on cytochrome c and globin amino acid sequences. Mol Phylogenet Evol (1994) 1.67
Database on the structure of large ribosomal subunit RNA. Nucleic Acids Res (1994) 1.65
Genome duplication, divergent resolution and speciation. Trends Genet (2001) 1.62
Database on the structure of small ribosomal subunit RNA. Nucleic Acids Res (1998) 1.50
Sequences of the 5S rRNAs of Azotobacter vinelandii, Pseudomonas aeruginosa and Pseudomonas fluorescens with some notes on 5S RNA secondary structure. Nucleic Acids Res (1983) 1.49
A proposal for the secondary structure of a variable area of eukaryotic small ribosomal subunit RNA involving the existence of a pseudoknot. Nucleic Acids Res (1990) 1.42
Studies on the bacteriophage MS2. IV. The 3'-OH terminal undecanucleotide sequence of the viral RNA chain. J Mol Biol (1967) 1.37
Amplification and sequencing of variable regions in bacterial 23S ribosomal RNA genes with conserved primer sequences. Curr Microbiol (1993) 1.33
The sequence of 5S ribosomal RNA of the crustacean Artemia salina. Nucleic Acids Res (1981) 1.33
Substitution rate calibration of small subunit ribosomal RNA identifies chlorarachniophyte endosymbionts as remnants of green algae. Proc Natl Acad Sci U S A (1996) 1.32
Variable base pairing in a helix of eubacterial 5 S ribosomal RNA points to the existence of a conformational switch. FEBS Lett (1987) 1.30
Specific detection of Campylobacter concisus by PCR amplification of 23S rDNA areas. Mol Cell Probes (1995) 1.29
Globins in nonvertebrate species: dispersal by horizontal gene transfer and evolution of the structure-function relationships. Mol Biol Evol (1996) 1.27
Phylogenetic relationships of nonaxenic filamentous cyanobacterial strains based on 16S rRNA sequence analysis. J Mol Evol (1996) 1.26
Database on the structure of small subunit ribosomal RNA. Nucleic Acids Res (1999) 1.26
Coniosporium perforans and C. apollinis, two new rock-inhabiting fungi isolated from marble in the Sanctuary of Delos (Cyclades, Greece). Antonie Van Leeuwenhoek (1997) 1.24
Investigation of molluscan phylogeny on the basis of 18S rRNA sequences. Mol Biol Evol (1996) 1.24
Structure of the large ribosomal subunit RNA of Phytophthora megasperma, and phylogeny of the oomycetes. FEBS Lett (1994) 1.24
Sequences of the 5S rRNAs of the thermo-acidophilic archaebacterium Sulfolobus solfataricus (Caldariella acidophila) and the thermophilic eubacteria Bacillus acidocaldarius and Thermus aquaticus. Nucleic Acids Res (1983) 1.23
The evolutionary position of the rhodophyte Porphyra umbilicalis and the basidiomycete Leucosporidium scottii among other eukaryotes as deduced from complete sequences of small ribosomal subunit RNA. J Mol Evol (1991) 1.22
The sequence of the 5.8 S ribosomal RNA of the crustacean Artemia salina. With a proposal for a general secondary structure model for 5.8 S ribosomal RNA. Nucleic Acids Res (1982) 1.21
Database on the structure of large subunit ribosomal RNA. Nucleic Acids Res (1999) 1.20
Construction of a variability map for eukaryotic large subunit ribosomal RNA. Nucleic Acids Res (1999) 1.20
The nucleotide sequences of the 5 S rRNAs of seven molds and a yeast and their use in studying ascomycete phylogeny. Nucleic Acids Res (1984) 1.19
18S rRNA suggests that Entoprocta are protostomes, unrelated to Ectoprocta. J Mol Evol (1996) 1.19
Deletions involving long-range conserved nongenic sequences upstream and downstream of FOXL2 as a novel disease-causing mechanism in blepharophimosis syndrome. Am J Hum Genet (2005) 1.18
Phylogenetic classification of the major superfamily of membrane transport facilitators, as deduced from yeast genome sequencing. FEBS Lett (1995) 1.17
Phylogeny of protostome worms derived from 18S rRNA sequences. Mol Biol Evol (1995) 1.16
Evaluation of the Genotype® MTBDRplus assay as a tool for drug resistance surveys. Int J Tuberc Lung Dis (2011) 1.15
Database on the structure of large ribosomal subunit RNA. Nucleic Acids Res (1996) 1.13
18S rRNA data indicate that Aschelminthes are polyphyletic in origin and consist of at least three distinct clades. Mol Biol Evol (1995) 1.13
Structure of 5S rRNA in actinomycetes and relatives and evolution of eubacteria. J Mol Evol (1987) 1.10
The gene coding for small ribosomal subunit RNA in the basidiomycete Ustilago maydis contains a group I intron. Nucleic Acids Res (1992) 1.09