Published in Evol Dev on February 06, 2009
Episodic radiations in the fly tree of life. Proc Natl Acad Sci U S A (2011) 7.03
Acoelomorph flatworms are deuterostomes related to Xenoturbella. Nature (2011) 3.06
Functional shifts in insect microRNA evolution. Genome Biol Evol (2010) 2.94
Evolution of microRNA diversity and regulation in animals. Nat Rev Genet (2011) 2.92
The first myriapod genome sequence reveals conservative arthropod gene content and genome organisation in the centipede Strigamia maritima. PLoS Biol (2014) 2.56
Ancient animal microRNAs and the evolution of tissue identity. Nature (2010) 2.35
microRNAs reveal the interrelationships of hagfish, lampreys, and gnathostomes and the nature of the ancestral vertebrate. Proc Natl Acad Sci U S A (2010) 2.25
A congruent solution to arthropod phylogeny: phylogenomics, microRNAs and morphology support monophyletic Mandibulata. Proc Biol Sci (2010) 2.20
miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data. Genome Biol (2010) 2.18
MicroRNA evolution by arm switching. EMBO Rep (2011) 2.12
Phylogenomic analyses support the position of turtles as the sister group of birds and crocodiles (Archosauria). BMC Biol (2012) 2.08
MicroRNAs and phylogenomics resolve the relationships of Tardigrada and suggest that velvet worms are the sister group of Arthropoda. Proc Natl Acad Sci U S A (2011) 1.87
Repertoire and evolution of miRNA genes in four divergent nematode species. Genome Res (2009) 1.64
MicroRNAs support a turtle + lizard clade. Biol Lett (2011) 1.62
The fate of miRNA* strand through evolutionary analysis: implication for degradation as merely carrier strand or potential regulatory molecule? PLoS One (2010) 1.58
The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons. Nat Genet (2016) 1.54
High-resolution profiling and discovery of planarian small RNAs. Proc Natl Acad Sci U S A (2009) 1.53
miRNA Repertoires of Demosponges Stylissa carteri and Xestospongia testudinaria. PLoS One (2016) 1.38
miRNA arm selection and isomiR distribution in gastric cancer. BMC Genomics (2012) 1.35
Deciphering the porcine intestinal microRNA transcriptome. BMC Genomics (2010) 1.30
5' isomiR variation is of functional and evolutionary importance. Nucleic Acids Res (2014) 1.28
MicroRNAs in ovarian carcinomas. Endocr Relat Cancer (2010) 1.25
A molecular palaeobiological hypothesis for the origin of aplacophoran molluscs and their derivation from chiton-like ancestors. Proc Biol Sci (2011) 1.23
Small RNA expression and strain specificity in the rat. BMC Genomics (2010) 1.16
miR-9: a versatile regulator of neurogenesis. Front Cell Neurosci (2013) 1.13
Evolution and function of the extended miR-2 microRNA family. RNA Biol (2012) 1.08
Specific sequence determinants of miR-15/107 microRNA gene group targets. Nucleic Acids Res (2011) 1.08
Discovery and characterization of medaka miRNA genes by next generation sequencing platform. BMC Genomics (2010) 1.07
The continuing debate on deep molluscan phylogeny: evidence for Serialia (Mollusca, Monoplacophora + Polyplacophora). Biomed Res Int (2013) 1.05
MicroRNA 3' end nucleotide modification patterns and arm selection preference in liver tissues. BMC Syst Biol (2012) 1.04
MicroRNAs resolve an apparent conflict between annelid systematics and their fossil record. Proc Biol Sci (2009) 1.03
Evolution of microRNAs and the diversification of species. Genome Biol Evol (2010) 1.02
Toward consilience in reptile phylogeny: miRNAs support an archosaur, not lepidosaur, affinity for turtles. Evol Dev (2014) 1.02
A Uniform System for the Annotation of Vertebrate microRNA Genes and the Evolution of the Human microRNAome. Annu Rev Genet (2015) 1.02
Integrated "omics" profiling indicates that miRNAs are modulators of the ontogenetic venom composition shift in the Central American rattlesnake, Crotalus simus simus. BMC Genomics (2013) 1.01
IsomiRage: From Functional Classification to Differential Expression of miRNA Isoforms. Front Bioeng Biotechnol (2014) 1.00
Clusters of microRNAs emerge by new hairpins in existing transcripts. Nucleic Acids Res (2013) 1.00
Genome-wide analysis of mir-548 gene family reveals evolutionary and functional implications. J Biomed Biotechnol (2012) 0.99
Current status and implications of microRNAs in ovarian cancer diagnosis and therapy. J Ovarian Res (2012) 0.98
Stem cell dynamics in Cnidaria: are there unifying principles? Dev Genes Evol (2012) 0.98
Evolution of the let-7 microRNA family. RNA Biol (2012) 0.97
Diversity in parasitic nematode genomes: the microRNAs of Brugia pahangi and Haemonchus contortus are largely novel. BMC Genomics (2012) 0.97
The miR-10 microRNA precursor family. RNA Biol (2011) 0.97
Marsupial-specific microRNAs evolved from marsupial-specific transposable elements. Gene (2009) 0.96
MicroRNA discovery and analysis of pinewood nematode Bursaphelenchus xylophilus by deep sequencing. PLoS One (2010) 0.96
Cnidarian microRNAs frequently regulate targets by cleavage. Genome Res (2014) 0.96
Substantial loss of conserved and gain of novel MicroRNA families in flatworms. Mol Biol Evol (2013) 0.96
Novel and conserved micrornas in Dalian purple urchin (Strongylocentrotus nudus) identified by next generation sequencing. Int J Biol Sci (2011) 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
Select microRNAs are essential for early development in the sea urchin. Dev Biol (2011) 0.95
MicroRNAs as genetic sculptors: fishing for clues. Semin Cell Dev Biol (2010) 0.93
UMARS: Un-MAppable Reads Solution. BMC Bioinformatics (2011) 0.93
Haplotype distribution and evolutionary pattern of miR-17 and miR-124 families based on population analysis. PLoS One (2009) 0.92
The evolution of microRNA pathway protein components in Cnidaria. Mol Biol Evol (2013) 0.92
Early origin of the bilaterian developmental toolkit. Philos Trans R Soc Lond B Biol Sci (2009) 0.92
Evolution of the miR199-214 cluster and vertebrate skeletal development. RNA Biol (2014) 0.92
Comparative analysis of human and mouse expression data illuminates tissue-specific evolutionary patterns of miRNAs. Nucleic Acids Res (2012) 0.92
Control by a hair's breadth: the role of microRNAs in the skin. Cell Mol Life Sci (2012) 0.90
Beyond the one-locus-one-miRNA paradigm: microRNA isoforms enable deeper insights into breast cancer heterogeneity. Nucleic Acids Res (2015) 0.89
A critical appraisal of the use of microRNA data in phylogenetics. Proc Natl Acad Sci U S A (2014) 0.89
Developmental expression of COE across the Metazoa supports a conserved role in neuronal cell-type specification and mesodermal development. Dev Genes Evol (2010) 0.89
Evolutionary changes of the target sites of two microRNAs encoded in the Hox gene cluster of Drosophila and other insect species. Genome Biol Evol (2010) 0.88
Emerging Role of Micro-RNAs in the Regulation of Angiogenesis. Genes Cancer (2011) 0.88
MicroRNAs in bovine adipogenesis: genomic context, expression and function. BMC Genomics (2014) 0.88
Expression of Neurog1 instead of Atoh1 can partially rescue organ of Corti cell survival. PLoS One (2012) 0.88
MicroRNA preparations from individual monogenean Gyrodactylus salaris-a comparison of six commercially available totalRNA extraction kits. BMC Res Notes (2011) 0.87
Characterization and comparative analysis of small RNAs in three small RNA libraries of the brown planthopper (Nilaparvata lugens). PLoS One (2012) 0.87
Expansion of ruminant-specific microRNAs shapes target gene expression divergence between ruminant and non-ruminant species. BMC Genomics (2013) 0.87
A meta-analysis revealed insights into the sources, conservation and impact of microRNA 5'-isoforms in four model species. Nucleic Acids Res (2013) 0.87
Evolutionary relationships between miRNA genes and their activity. BMC Genomics (2012) 0.87
RNA deep sequencing reveals differential microRNA expression during development of sea urchin and sea star. PLoS One (2011) 0.86
MicroRNAs as Signaling Mediators and Biomarkers of Drug- and Chemical-Induced Liver Injury. J Clin Med (2015) 0.85
microRNA profiling in the zoonotic parasite Echinococcus canadensis using a high-throughput approach. Parasit Vectors (2015) 0.85
MiR-2 family regulates insect metamorphosis by controlling the juvenile hormone signaling pathway. Proc Natl Acad Sci U S A (2015) 0.85
Structure, evolution and function of the bi-directionally transcribed iab-4/iab-8 microRNA locus in arthropods. Nucleic Acids Res (2013) 0.84
MicroRNA Regulation of Human Breast Cancer Stem Cells. J Clin Med (2015) 0.84
A cross-species analysis of microRNAs in the developing avian face. PLoS One (2012) 0.84
Diversity and expression of microRNAs in the filarial parasite, Brugia malayi. PLoS One (2014) 0.84
microRNAs in parasites and parasite infection. RNA Biol (2013) 0.84
MicroRNA Biomarkers for Coronary Artery Disease? Curr Atheroscler Rep (2015) 0.84
Identification of microRNAs in the coral Stylophora pistillata. PLoS One (2014) 0.83
A Conserved MicroRNA Regulatory Circuit Is Differentially Controlled during Limb/Appendage Regeneration. PLoS One (2016) 0.83
Characterization and comparative profiling of MicroRNAs in a sexual dimorphism insect, Eupolyphaga sinensis Walker. PLoS One (2013) 0.83
The identification and characteristics of immune-related microRNAs in haemocytes of oyster Crassostrea gigas. PLoS One (2014) 0.83
Divergent target recognition by coexpressed 5'-isomiRs of miR-142-3p and selective viral mimicry. RNA (2015) 0.82
Comprehensive analysis of human small RNA sequencing data provides insights into expression profiles and miRNA editing. RNA Biol (2014) 0.82
Conserved temporal patterns of microRNA expression in Drosophila support a developmental hourglass model. Genome Biol Evol (2014) 0.81
Genome-wide sequencing of small RNAs reveals a tissue-specific loss of conserved microRNA families in Echinococcus granulosus. BMC Genomics (2014) 0.81
Filarial and Wolbachia genomics. Parasite Immunol (2012) 0.81
High through-put sequencing of the Parhyale hawaiensis mRNAs and microRNAs to aid comparative developmental studies. PLoS One (2012) 0.81
Deep sequencing and expression of microRNAs from early honeybee (Apis mellifera) embryos reveals a role in regulating early embryonic patterning. BMC Evol Biol (2012) 0.81
The Expansion of Animal MicroRNA Families Revisited. Life (Basel) (2015) 0.81
Evolutionary conserved microRNAs are ubiquitously expressed compared to tick-specific miRNAs in the cattle tick Rhipicephalus (Boophilus) microplus. BMC Genomics (2011) 0.81
Functional and evolutionary significance of human microRNA seed region mutations. PLoS One (2014) 0.80
Sex-biased expression of microRNAs in Drosophila melanogaster. Open Biol (2014) 0.80
The miR-302/367 cluster: a comprehensive update on its evolution and functions. Open Biol (2015) 0.80
Regulatory RNAs in the light of Drosophila genomics. Brief Funct Genomics (2012) 0.80
Macros in microRNA target identification: a comparative analysis of in silico, in vitro, and in vivo approaches to microRNA target identification. RNA Biol (2014) 0.80
miR-58 family and TGF-β pathways regulate each other in Caenorhabditis elegans. Nucleic Acids Res (2015) 0.79
Evaluation and application of the strand-specific protocol for next-generation sequencing. Biomed Res Int (2015) 0.79
Episodic radiations in the fly tree of life. Proc Natl Acad Sci U S A (2011) 7.03
The Cambrian conundrum: early divergence and later ecological success in the early history of animals. Science (2011) 5.15
The dynamic genome of Hydra. Nature (2010) 4.00
Unexpected complexity of the Wnt gene family in a sea anemone. Nature (2005) 3.51
Acoelomorph flatworms are deuterostomes related to Xenoturbella. Nature (2011) 3.06
MicroRNAs and the advent of vertebrate morphological complexity. Proc Natl Acad Sci U S A (2008) 3.00
SOD2 functions downstream of Sch9 to extend longevity in yeast. Genetics (2003) 2.81
The phylogenetic distribution of metazoan microRNAs: insights into evolutionary complexity and constraint. J Exp Zool B Mol Dev Evol (2006) 2.63
Maintenance of ancestral complexity and non-metazoan genes in two basal cnidarians. Trends Genet (2005) 2.47
Phylogenetic analysis of the formin homology 2 domain. Mol Biol Cell (2004) 2.30
microRNAs reveal the interrelationships of hagfish, lampreys, and gnathostomes and the nature of the ancestral vertebrate. Proc Natl Acad Sci U S A (2010) 2.25
A congruent solution to arthropod phylogeny: phylogenomics, microRNAs and morphology support monophyletic Mandibulata. Proc Biol Sci (2010) 2.20
RACE: Remote Analysis Computation for gene Expression data. Nucleic Acids Res (2005) 2.08
Phylogenetic-signal dissection of nuclear housekeeping genes supports the paraphyly of sponges and the monophyly of Eumetazoa. Mol Biol Evol (2009) 1.95
The Alternative Splicing Gallery (ASG): bridging the gap between genome and transcriptome. Nucleic Acids Res (2004) 1.91
MicroRNAs and phylogenomics resolve the relationships of Tardigrada and suggest that velvet worms are the sister group of Arthropoda. Proc Natl Acad Sci U S A (2011) 1.87
Continuous molecular evolution of protein-domain structures by single amino acid changes. Curr Biol (2007) 1.81
Expression of secreted Wnt pathway components reveals unexpected complexity of the planarian amputation response. Dev Biol (2010) 1.68
The king cobra genome reveals dynamic gene evolution and adaptation in the snake venom system. Proc Natl Acad Sci U S A (2013) 1.68
Normalization and standardization of electronic health records for high-throughput phenotyping: the SHARPn consortium. J Am Med Inform Assoc (2013) 1.64
MicroRNAs support a turtle + lizard clade. Biol Lett (2011) 1.62
Towards reliable isoform quantification using RNA-SEQ data. BMC Bioinformatics (2010) 1.61
Towards a systems approach for lignin biosynthesis in Populus trichocarpa: transcript abundance and specificity of the monolignol biosynthetic genes. Plant Cell Physiol (2009) 1.58
Multiple Wnts are involved in Hydra organizer formation and regeneration. Dev Biol (2009) 1.54
Asymmetric expression of the BMP antagonists chordin and gremlin in the sea anemone Nematostella vectensis: implications for the evolution of axial patterning. Dev Biol (2006) 1.44
microRNA complements in deuterostomes: origin and evolution of microRNAs. Evol Dev (2011) 1.41
Unusual gene order and organization of the sea urchin hox cluster. J Exp Zool B Mol Dev Evol (2006) 1.34
Nanosecond-scale kinetics of nematocyst discharge. Curr Biol (2006) 1.34
Paleogenomics of echinoderms. Science (2006) 1.32
Cnidocyst structure and the biomechanics of discharge. Toxicon (2009) 1.29
Evolution of complex structures: minicollagens shape the cnidarian nematocyst. Trends Genet (2008) 1.29
Phylogenetic distribution of microRNAs supports the basal position of acoel flatworms and the polyphyly of Platyhelminthes. Evol Dev (2007) 1.27
Cnidarians and the evolutionary origin of the nervous system. Dev Growth Differ (2009) 1.27
Accessible proteomics space and its implications for peak capacity for zero-, one- and two-dimensional separations coupled with FT-ICR and TOF mass spectrometry. J Mass Spectrom (2006) 1.25
A molecular palaeobiological hypothesis for the origin of aplacophoran molluscs and their derivation from chiton-like ancestors. Proc Biol Sci (2011) 1.23
Wnt/beta-catenin and noncanonical Wnt signaling interact in tissue evagination in the simple eumetazoan Hydra. Proc Natl Acad Sci U S A (2009) 1.23
An ancient Wnt-Dickkopf antagonism in Hydra. Development (2006) 1.22
Resolving phylogenetic signal from noise when divergence is rapid: a new look at the old problem of echinoderm class relationships. Mol Phylogenet Evol (2011) 1.18
Do miRNAs have a deep evolutionary history? Bioessays (2012) 1.17
miRNAs: small genes with big potential in metazoan phylogenetics. Mol Biol Evol (2013) 1.13
Proteome of Hydra nematocyst. J Biol Chem (2012) 1.11
Estradiol and progesterone regulate HIV type 1 replication in peripheral blood cells. AIDS Res Hum Retroviruses (2008) 1.08
A peptide-gated ion channel from the freshwater polyp Hydra. J Biol Chem (2007) 1.08
Minicollagen-15, a novel minicollagen isolated from Hydra, forms tubule structures in nematocysts. J Mol Biol (2007) 1.08
Three homologous subunits form a high affinity peptide-gated ion channel in Hydra. J Biol Chem (2010) 1.05
Molecular paleobiological insights into the origin of the Brachiopoda. Evol Dev (2011) 1.05
MicroRNAs resolve an apparent conflict between annelid systematics and their fossil record. Proc Biol Sci (2009) 1.03
Autoregulatory and repressive inputs localize Hydra Wnt3 to the head organizer. Proc Natl Acad Sci U S A (2011) 1.02
Toward consilience in reptile phylogeny: miRNAs support an archosaur, not lepidosaur, affinity for turtles. Evol Dev (2014) 1.02
Molecular paleoecology: using gene regulatory analysis to address the origins of complex life cycles in the late Precambrian. Evol Dev (2007) 1.01
In silico prediction of yeast deletion phenotypes. Genet Mol Res (2006) 1.01
Non-monotonic dose-response relationship in steroid hormone receptor-mediated gene expression. J Mol Endocrinol (2007) 0.99
Spdeadringer, a sea urchin embryo gene required separately in skeletogenic and oral ectoderm gene regulatory networks. Dev Biol (2003) 0.98
Genetic organization and embryonic expression of the ParaHox genes in the sea urchin S. purpuratus: insights into the relationship between clustering and colinearity. Dev Biol (2006) 0.98
Reconstruction of family-level phylogenetic relationships within Demospongiae (Porifera) using nuclear encoded housekeeping genes. PLoS One (2013) 0.98
Poriferan ANTP genes: primitively simple or secondarily reduced? Evol Dev (2007) 0.97
Nematogalectin, a nematocyst protein with GlyXY and galectin domains, demonstrates nematocyte-specific alternative splicing in Hydra. Proc Natl Acad Sci U S A (2010) 0.97
HIV type 1 infection in women: increased transcription of HIV type 1 in ectocervical tissue explants. J Infect Dis (2009) 0.97
Detection of alternative splice variants at the proteome level in Aspergillus flavus. J Proteome Res (2010) 0.96
Nowa, a novel protein with minicollagen Cys-rich domains, is involved in nematocyst formation in Hydra. J Cell Sci (2002) 0.95
An ancient chordin-like gene in organizer formation of Hydra. Proc Natl Acad Sci U S A (2007) 0.95
Immortality and the base of multicellular life: Lessons from cnidarian stem cells. Semin Cell Dev Biol (2009) 0.93
Expression of an NK2 homeodomain gene in the apical ectoderm defines a new territory in the early sea urchin embryo. Dev Biol (2004) 0.93
Correcting base-assignment errors in repeat regions of shotgun assembly. IEEE/ACM Trans Comput Biol Bioinform (2007) 0.90
High-throughput RNA sequencing of pseudomonas-infected Arabidopsis reveals hidden transcriptome complexity and novel splice variants. PLoS One (2013) 0.90
Hyzic, the Hydra homolog of the zic/odd-paired gene, is involved in the early specification of the sensory nematocytes. Development (2004) 0.90
The glycoprotein NOWA and minicollagens are part of a disulfide-linked polymer that forms the cnidarian nematocyst wall. J Biol Chem (2004) 0.89
Developmental expression of COE across the Metazoa supports a conserved role in neuronal cell-type specification and mesodermal development. Dev Genes Evol (2010) 0.89
Subfunctionalization and neofunctionalization of vertebrate Lef/Tcf transcription factors. Dev Biol (2012) 0.87
The mitochondrial genome of the hexactinellid sponge Aphrocallistes vastus: evidence for programmed translational frameshifting. BMC Genomics (2008) 0.86
Testing putative hemichordate homologues of the chordate dorsal nervous system and endostyle: expression of NK2.1 (TTF-1) in the acorn worm Ptychodera flava (Hemichordata, Ptychoderidae). Evol Dev (2002) 0.86
A non-sulfated chondroitin stabilizes membrane tubulation in cnidarian organelles. J Biol Chem (2010) 0.86
Detection of expression patterns in Hydra pattern formation. Methods Mol Biol (2008) 0.85
HvJNK, a Hydra member of the c-Jun NH2-terminal kinase gene family, is expressed during nematocyte differentiation. Gene Expr Patterns (2005) 0.84
The structure of the Cys-rich terminal domain of Hydra minicollagen, which is involved in disulfide networks of the nematocyst wall. J Biol Chem (2004) 0.84
In vivo peroxidative activity of FALS-mutant human CuZnSODs expressed in yeast. Free Radic Biol Med (2002) 0.83
Glycogen synthase kinase 3 has a proapoptotic function in Hydra gametogenesis. Dev Biol (2005) 0.83
The identification of microRNAs in calcisponges: independent evolution of microRNAs in basal metazoans. J Exp Zool B Mol Dev Evol (2013) 0.81
CD2AP regulates SUMOylation of CIN85 in podocytes. Mol Cell Biol (2011) 0.81
The comprehensive analysis of DEG/ENaC subunits in Hydra reveals a large variety of peptide-gated channels, potentially involved in neuromuscular transmission. BMC Biol (2014) 0.81
Oxygen and animals in Earth history. Proc Natl Acad Sci U S A (2014) 0.80
Incorporating expert terminology and disease risk factors into consumer health vocabularies. Pac Symp Biocomput (2013) 0.80
A general integrative genomic feature transcription factor binding site prediction method applied to analysis of USF1 binding in cardiovascular disease. Hum Genomics (2009) 0.80
Structure/function analysis of spinalin, a spine protein of Hydra nematocysts. FEBS J (2006) 0.80