Published in BMC Evol Biol on October 09, 2007
Genome analysis of the platypus reveals unique signatures of evolution. Nature (2008) 5.74
Tracking marsupial evolution using archaic genomic retroposon insertions. PLoS Biol (2010) 1.89
Mesozoic retroposons reveal parrots as the closest living relatives of passerine birds. Nat Commun (2011) 1.47
Parsimony and model-based analyses of indels in avian nuclear genes reveal congruent and incongruent phylogenetic signals. Biology (Basel) (2013) 1.08
Assessing phylogenetic relationships among galliformes: a multigene phylogeny with expanded taxon sampling in Phasianidae. PLoS One (2013) 1.02
A novel web-based TinT application and the chronology of the Primate Alu retroposon activity. BMC Evol Biol (2010) 1.01
Multiple lineages of ancient CR1 retroposons shaped the early genome evolution of amniotes. Genome Biol Evol (2014) 0.96
Unexpected diversity and expression of avian endogenous retroviruses. MBio (2012) 0.95
Mitochondrial DNA-based analysis of genetic variation and relatedness among Sri Lankan indigenous chickens and the Ceylon junglefowl (Gallus lafayetti). Anim Genet (2008) 0.94
A mitogenomic perspective on the ancient, rapid radiation in the Galliformes with an emphasis on the Phasianidae. BMC Evol Biol (2010) 0.91
Analysis of transposon interruptions suggests selection for L1 elements on the X chromosome. PLoS Genet (2008) 0.89
The updated phylogenies of the phasianidae based on combined data of nuclear and mitochondrial DNA. PLoS One (2014) 0.89
Large-scale discovery of insertion hotspots and preferential integration sites of human transposed elements. Nucleic Acids Res (2009) 0.88
Mhc class II diversity and balancing selection in greater prairie-chickens. Genetica (2009) 0.87
Greater prairie chickens have a compact MHC-B with a single class IA locus. Immunogenetics (2012) 0.85
Genome-wide analysis of short interspersed nuclear elements SINES revealed high sequence conservation, gene association and retrotranspositional activity in wheat. Plant J (2013) 0.80
Comparison of Pretectal Genoarchitectonic Pattern between Quail and Chicken Embryos. Front Neuroanat (2011) 0.79
Transposable elements: from DNA parasites to architects of metazoan evolution. Genes (Basel) (2012) 0.78
The Specific Requirements for CR1 Retrotransposition Explain the Scarcity of Retrogenes in Birds. J Mol Evol (2015) 0.78
Does more sequence data improve estimates of galliform phylogeny? Analyses of a rapid radiation using a complete data matrix. PeerJ (2014) 0.76
Expansion of CORE-SINEs in the genome of the Tasmanian devil. BMC Genomics (2012) 0.76
Determining the Position of Storks on the Phylogenetic Tree of Waterbirds by Retroposon Insertion Analysis. Genome Biol Evol (2015) 0.75
Evolution and Diversity of Transposable Elements in Vertebrate Genomes. Genome Biol Evol (2017) 0.75
One tree to link them all: a phylogenetic dataset for the European tetrapoda. PLoS Curr (2014) 0.75
A retroposon-based view on the temporal differentiation of sex chromosomes. Mob Genet Elements (2012) 0.75
Low diversity, activity, and density of transposable elements in five avian genomes. Funct Integr Genomics (2017) 0.75
Evolution of Alu Subfamily Structure in the Saimiri Lineage of New World Monkeys. Genome Biol Evol (2017) 0.75
The human genome browser at UCSC. Genome Res (2002) 168.23
The UCSC Genome Browser Database. Nucleic Acids Res (2003) 32.84
The UCSC Table Browser data retrieval tool. Nucleic Acids Res (2004) 25.12
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature (2004) 21.40
Diversification of Neoaves: integration of molecular sequence data and fossils. Biol Lett (2006) 3.77
Rare genomic changes as a tool for phylogenetics. Trends Ecol Evol (2000) 3.66
Retroposed elements as archives for the evolutionary history of placental mammals. PLoS Biol (2006) 3.42
Molecules consolidate the placental mammal tree. Trends Ecol Evol (2004) 3.02
SINE insertions: powerful tools for molecular systematics. Bioessays (2000) 2.49
Phylogenetic relationships among cetartiodactyls based on insertions of short and long interpersed elements: hippopotamuses are the closest extant relatives of whales. Proc Natl Acad Sci U S A (1999) 2.24
SINE insertions in cladistic analyses and the phylogenetic affiliations of Tarsius bancanus to other primates. Genetics (2001) 2.19
A phylogenetic foundation for comparative mammalian genomics. Genome Inform (2001) 2.16
A new phylogenetic marker, apolipoprotein B, provides compelling evidence for eutherian relationships. Mol Phylogenet Evol (2003) 2.15
The evolutionary history of human DNA transposons: evidence for intense activity in the primate lineage. Genome Res (2007) 2.06
Evolutionary history of 7SL RNA-derived SINEs in Supraprimates. Trends Genet (2007) 2.00
Pegasoferae, an unexpected mammalian clade revealed by tracking ancient retroposon insertions. Proc Natl Acad Sci U S A (2006) 1.95
Parallel radiations in the primary clades of birds. Evolution (2004) 1.82
Alu elements and hominid phylogenetics. Proc Natl Acad Sci U S A (2003) 1.81
Primate jumping genes elucidate strepsirrhine phylogeny. Proc Natl Acad Sci U S A (2004) 1.78
The repetitive landscape of the chicken genome. Genome Res (2004) 1.72
Genomic deletions and precise removal of transposable elements mediated by short identical DNA segments in primates. Genome Res (2005) 1.68
SINEs of speciation: tracking lineages with retroposons. Trends Ecol Evol (2004) 1.64
Parsimony, likelihood, and the role of models in molecular phylogenetics. Mol Biol Evol (2000) 1.60
SINEs of a nearly perfect character. Syst Biol (2006) 1.59
Calibration of galliform molecular clocks using multiple fossils and genetic partitions. Mol Phylogenet Evol (2004) 1.57
Phylogeny of Tetraoninae and other galliform birds using mitochondrial 12S and ND2 genes. Mol Phylogenet Evol (2002) 1.26
The esterase and PHD domains in CR1-like non-LTR retrotransposons. Mol Biol Evol (2003) 1.23
A molecular phylogeny of the pheasants and partridges suggests that these lineages are not monophyletic. Mol Phylogenet Evol (1999) 1.20
Indels in protein-coding sequences of Euarchontoglires constrain the rooting of the eutherian tree. Mol Phylogenet Evol (2003) 1.13
Insertion events of CR1 retrotransposable elements elucidate the phylogenetic branching order in galliform birds. Mol Biol Evol (2006) 1.07
Automated scanning for phylogenetically informative transposed elements in rodents. Syst Biol (2006) 1.06
A molecular timescale for galliform birds accounting for uncertainty in time estimates and heterogeneity of rates of DNA substitutions across lineages and sites. Mol Phylogenet Evol (2005) 1.06
Subfamilies of CR1 non-LTR retrotransposons have different 5'UTR sequences but are otherwise conserved. Gene (2001) 1.05
Chicken repeat 1 (CR1) elements, which define an ancient family of vertebrate non-LTR retrotransposons, contain two closely spaced open reading frames. Gene (1997) 1.03
Vertebrate serpins: construction of a conflict-free phylogeny by combining exon-intron and diagnostic site analyses. Mol Biol Evol (2001) 1.01
A phylogeny of the megapodes (Aves: Megapodiidae) based on nuclear and mitochondrial DNA sequences. Mol Phylogenet Evol (2002) 0.99
Combined nuclear and mitochondrial DNA sequences resolve generic relationships within the Cracidae (Galliformes, Aves). Syst Biol (2002) 0.99
Phylogenetics of modern birds in the era of genomics. Proc Biol Sci (2005) 0.98
Gallus gallus aggrecan gene-based phylogenetic analysis of selected avian taxonomic groups. Genetica (2005) 0.94
The rise and fall of the CR1 subfamily in the lineage leading to penguins. Gene (2005) 0.91
A novel abundant family of retroposed elements (DAS-SINEs) in the nine-banded armadillo (Dasypus novemcinctus). Mol Biol Evol (2004) 0.90
Resolution of the phylogenetic position of the Congo peafowl, Afropavo congensis: a biogeographic and evolutionary enigma. Proc Biol Sci (1997) 0.90
Genomic alterations upon integration of zebrafish L1 elements revealed by the TANT method. Gene (2006) 0.82
Identification of 86 candidates for small non-messenger RNAs from the archaeon Archaeoglobus fulgidus. Proc Natl Acad Sci U S A (2002) 7.04
Genome analysis of the platypus reveals unique signatures of evolution. Nature (2008) 5.74
RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria. Nucleic Acids Res (2003) 3.78
Diversification of Neoaves: integration of molecular sequence data and fossils. Biol Lett (2006) 3.77
Retroposed elements as archives for the evolutionary history of placental mammals. PLoS Biol (2006) 3.42
Binding of L7Ae protein to the K-turn of archaeal snoRNAs: a shared RNA binding motif for C/D and H/ACA box snoRNAs in Archaea. Nucleic Acids Res (2003) 2.44
Evolutionary history of 7SL RNA-derived SINEs in Supraprimates. Trends Genet (2007) 2.00
RNomics: identification and function of small, non-messenger RNAs. Curr Opin Chem Biol (2002) 1.96
Retrocopy contributions to the evolution of the human genome. BMC Genomics (2008) 1.95
CD303 (BDCA-2) signals in plasmacytoid dendritic cells via a BCR-like signalosome involving Syk, Slp65 and PLCgamma2. Eur J Immunol (2007) 1.90
Tracking marsupial evolution using archaic genomic retroposon insertions. PLoS Biol (2010) 1.89
RNomics in Archaea reveals a further link between splicing of archaeal introns and rRNA processing. Nucleic Acids Res (2002) 1.89
Experimental RNomics: identification of 140 candidates for small non-messenger RNAs in the plant Arabidopsis thaliana. Curr Biol (2002) 1.85
Deletion of the MBII-85 snoRNA gene cluster in mice results in postnatal growth retardation. PLoS Genet (2007) 1.82
Structural coloration in a fossil feather. Biol Lett (2009) 1.81
Alu-SINE exonization: en route to protein-coding function. Mol Biol Evol (2005) 1.81
Primate jumping genes elucidate strepsirrhine phylogeny. Proc Natl Acad Sci U S A (2004) 1.78
Multiple molecular evidences for a living mammalian fossil. Proc Natl Acad Sci U S A (2007) 1.74
RNomics in Drosophila melanogaster: identification of 66 candidates for novel non-messenger RNAs. Nucleic Acids Res (2003) 1.61
Evolution of small nucleolar RNAs in nematodes. Nucleic Acids Res (2006) 1.58
On BC1 RNA and the fragile X mental retardation protein. Proc Natl Acad Sci U S A (2008) 1.56
Mesozoic retroposons reveal parrots as the closest living relatives of passerine birds. Nat Commun (2011) 1.47
Plasmacytoid dendritic cells: from specific surface markers to specific cellular functions. Hum Immunol (2002) 1.46
Functional persistence of exonized mammalian-wide interspersed repeat elements (MIRs). Genome Res (2007) 1.36
Mosaic retroposon insertion patterns in placental mammals. Genome Res (2009) 1.34
Identification of differentially expressed small non-protein-coding RNAs in Staphylococcus aureus displaying both the normal and the small-colony variant phenotype. J Mol Med (Berl) (2010) 1.32
From "junk" to gene: curriculum vitae of a primate receptor isoform gene. J Mol Biol (2004) 1.30
Inhibitory effect of naked neural BC1 RNA or BC200 RNA on eukaryotic in vitro translation systems is reversed by poly(A)-binding protein (PABP). J Mol Biol (2005) 1.29
Poly(A)-binding protein is associated with neuronal BC1 and BC200 ribonucleoprotein particles. J Mol Biol (2002) 1.26
Plasmacytoid dendritic cells accumulate in spleens from chronically HIV-infected patients but barely participate in interferon-alpha expression. Blood (2009) 1.24
Exonization of transposed elements: A challenge and opportunity for evolution. Biochimie (2011) 1.23
Rodent evolution: back to the root. Mol Biol Evol (2010) 1.19
Application of housekeeping npcRNAs for quantitative expression analysis of human transcriptome by real-time PCR. RNA (2009) 1.17
A novel class of mammalian-specific tailless retropseudogenes. Genome Res (2004) 1.13
CD141+ dendritic cells produce prominent amounts of IFN-α after dsRNA recognition and can be targeted via DEC-205 in humanized mice. Blood (2013) 1.12
Retroposed SNOfall--a mammalian-wide comparison of platypus snoRNAs. Genome Res (2008) 1.11
Spatial codes in dendritic BC1 RNA. J Cell Biol (2006) 1.08
Identification of an evolutionarily divergent U11 small nuclear ribonucleoprotein particle in Drosophila. Proc Natl Acad Sci U S A (2004) 1.07
Automated scanning for phylogenetically informative transposed elements in rodents. Syst Biol (2006) 1.06
Molecular cladistic markers in New World monkey phylogeny (Platyrrhini, Primates). Mol Phylogenet Evol (2003) 1.05
Neuronal untranslated BC1 RNA: targeted gene elimination in mice. Mol Cell Biol (2003) 1.03
Combined experimental and computational approach to identify non-protein-coding RNAs in the deep-branching eukaryote Giardia intestinalis. Nucleic Acids Res (2007) 1.03
Retroposed elements and their flanking regions resolve the evolutionary history of xenarthran mammals (armadillos, anteaters, and sloths). Mol Biol Evol (2007) 1.02
A novel web-based TinT application and the chronology of the Primate Alu retroposon activity. BMC Evol Biol (2010) 1.01
Two primate-specific small non-protein-coding RNAs in transgenic mice: neuronal expression, subcellular localization and binding partners. Nucleic Acids Res (2006) 0.96
Retroposon insertions and the chronology of avian sex chromosome evolution. Mol Biol Evol (2011) 0.96
An anthropoid-specific segmental duplication on human chromosome 1q22. Genomics (2006) 0.93
The genome of a Mesozoic paleovirus reveals the evolution of hepatitis B viruses. Nat Commun (2013) 0.93
Retroposon insertion patterns of neoavian birds: strong evidence for an extensive incomplete lineage sorting era. Mol Biol Evol (2012) 0.92
Beyond DNA: RNA editing and steps toward Alu exonization in primates. J Mol Biol (2008) 0.92
BDCA-2 signaling inhibits TLR-9-agonist-induced plasmacytoid dendritic cell activation and antigen presentation. Cell Immunol (2010) 0.91
A novel abundant family of retroposed elements (DAS-SINEs) in the nine-banded armadillo (Dasypus novemcinctus). Mol Biol Evol (2004) 0.90
A small RNA in testis and brain: implications for male germ cell development. J Cell Sci (2002) 0.89
Isolation and posttranscriptional modification analysis of native BC1 RNA from mouse brain. RNA Biol (2007) 0.89
A universal method for the study of CR1 retroposons in nonmodel bird genomes. Mol Biol Evol (2012) 0.89
The syndermatan phylogeny and the evolution of acanthocephalan endoparasitism as inferred from 18S rDNA sequences. Mol Phylogenet Evol (2003) 0.89
Neuronal MAP2 mRNA: species-dependent differential dendritic targeting competence. J Mol Biol (2004) 0.86
Isolation and characterization of living primary astroglial cells using the new GLAST-specific monoclonal antibody ACSA-1. Glia (2012) 0.85
Anti-inflammatory effects of Saccharomyces boulardii mediated by myeloid dendritic cells from patients with Crohn's disease and ulcerative colitis. Am J Physiol Gastrointest Liver Physiol (2011) 0.85
Origin and subset distribution of peripheral blood dendritic cells in patients with chronic graft-versus-host disease. Transplantation (2003) 0.84
Genomic impact of eukaryotic transposable elements. Mob DNA (2012) 0.84
Frequent detection of thyroid peroxidase-specific IgG+ memory B cells in blood of patients with autoimmune thyroid disease. Eur J Immunol (2002) 0.84
Reply to Bagni: On BC1 RNA and the fragile X mental retardation protein. Proc Natl Acad Sci U S A (2008) 0.84
Can ID repetitive elements serve as cis-acting dendritic targeting elements? An in vivo study. PLoS One (2007) 0.83
Memory B cells specific for the NC16A domain of the 180 kDa bullous pemphigoid autoantigen can be detected in peripheral blood of bullous pemphigoid patients and induced in vitro to synthesize autoantibodies. J Invest Dermatol (2003) 0.81
Retroposon insertions provide insights into deep lagomorph evolution. Mol Biol Evol (2010) 0.81
Ancestry of the Australian termitivorous numbat. Mol Biol Evol (2013) 0.80