The expansion of the metazoan microRNA repertoire

[1]  Peter F Stadler,et al.  Evolution of microRNAs. , 2006, Methods in molecular biology.

[2]  Mihaela Zavolan,et al.  Identification of Clustered Micrornas Using an Ab Initio Prediction Method , 2022 .

[3]  Rudolf Jaenisch,et al.  Characterization of a highly variable eutherian microRNA gene. , 2005, RNA.

[4]  H. Horvitz,et al.  MicroRNA Expression in Zebrafish Embryonic Development , 2005, Science.

[5]  Chris Sander,et al.  The developmental miRNA profiles of zebrafish as determined by small RNA cloning. , 2005, Genes & development.

[6]  Vetle I. Torvik,et al.  Mammalian microRNAs derived from genomic repeats. , 2005, Trends in genetics : TIG.

[7]  Hanah Margalit,et al.  Clustering and conservation patterns of human microRNAs , 2005, Nucleic acids research.

[8]  Gerald M Rubin,et al.  Pervasive regulation of Drosophila Notch target genes by GY-box-, Brd-box-, and K-box-class microRNAs. , 2005, Genes & development.

[9]  H. Philippe,et al.  Multigene analyses of bilaterian animals corroborate the monophyly of Ecdysozoa, Lophotrochozoa, and Protostomia. , 2005, Molecular biology and evolution.

[10]  Baohong Zhang,et al.  Identification and characterization of new plant microRNAs using EST analysis , 2005, Cell Research.

[11]  D. Bartel,et al.  Antiquity of MicroRNAs and Their Targets in Land Plantsw⃞ , 2005, The Plant Cell Online.

[12]  Daniel Gautheret,et al.  Profile-based detection of microRNA precursors in animal genomes , 2005, Bioinform..

[13]  S. Ueda,et al.  WITHDRAWN: Molecular evolution of a microRNA cluster in the PWS/AS region among mammals. , 2005, Gene.

[14]  C. Kidner,et al.  The developmental role of microRNA in plants. , 2005, Current opinion in plant biology.

[15]  Peter F Stadler,et al.  Evolution of microRNAs located within Hox gene clusters. , 2005, Journal of experimental zoology. Part B, Molecular and developmental evolution.

[16]  Peter F. Stadler,et al.  Non-coding RNAs in Ciona intestinalis , 2005, ECCB/JBI.

[17]  Eugene Berezikov,et al.  Phylogenetic Shadowing and Computational Identification of Human microRNA Genes , 2005, Cell.

[18]  Sean R. Eddy,et al.  Rfam: annotating non-coding RNAs in complete genomes , 2004, Nucleic Acids Res..

[19]  R. Aharonov,et al.  Identification of hundreds of conserved and nonconserved human microRNAs , 2005, Nature Genetics.

[20]  Horst Hameister,et al.  Wide genome comparisons reveal the origins of the human X chromosome. , 2004, Trends in genetics : TIG.

[21]  Yves Van de Peer,et al.  Evidence that microRNA precursors, unlike other non-coding RNAs, have lower folding free energies than random sequences , 2004, Bioinform..

[22]  V. Ambros The functions of animal microRNAs , 2004, Nature.

[23]  J. Cavaille,et al.  A large imprinted microRNA gene cluster at the mouse Dlk1-Gtl2 domain. , 2004, Genome research.

[24]  Peter F Stadler,et al.  Molecular evolution of a microRNA cluster. , 2004, Journal of molecular biology.

[25]  D. Bartel,et al.  MicroRNA-Directed Cleavage of HOXB8 mRNA , 2004, Science.

[26]  J. Mattick RNA regulation: a new genetics? , 2004, Nature Reviews Genetics.

[27]  Ben Lehner,et al.  In search of antisense. , 2004, Trends in biochemical sciences.

[28]  Ya-ping Zhang,et al.  Phylogenetic relationships of Drosophila melanogaster species group deduced from spacer regions of histone gene H2A-H2B. , 2004, Molecular phylogenetics and evolution.

[29]  V. Moulton,et al.  Neighbor-net: an agglomerative method for the construction of phylogenetic networks. , 2002, Molecular biology and evolution.

[30]  Sam Griffiths-Jones,et al.  The microRNA Registry , 2004, Nucleic Acids Res..

[31]  Gary Ruvkun,et al.  Identification of many microRNAs that copurify with polyribosomes in mammalian neurons , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[32]  J. Mattick Challenging the dogma: the hidden layer of non-protein-coding RNAs in complex organisms. , 2003, BioEssays : news and reviews in molecular, cellular and developmental biology.

[33]  R. Allshire,et al.  Hairpin RNAs and Retrotransposon LTRs Effect RNAi and Chromatin-Based Gene Silencing , 2003, Science.

[34]  P. Sharp,et al.  Embryonic stem cell-specific MicroRNAs. , 2003, Developmental cell.

[35]  A. Pasquinelli,et al.  Expression of the 22 nucleotide let‐7 heterochronic RNA throughout the Metazoa: a role in life history evolution? , 2003, Evolution & development.

[36]  Ivo L. Hofacker,et al.  Vienna RNA secondary structure server , 2003, Nucleic Acids Res..

[37]  G. Rubin,et al.  Computational identification of Drosophila microRNA genes , 2003, Genome Biology.

[38]  C. Burge,et al.  Vertebrate MicroRNA Genes , 2003, Science.

[39]  G. Ruvkun,et al.  A uniform system for microRNA annotation. , 2003, RNA.

[40]  A. Meyer,et al.  Genome duplication, a trait shared by 22000 species of ray-finned fish. , 2003, Genome research.

[41]  T. Tuschl,et al.  New microRNAs from mouse and human. , 2003, RNA.

[42]  B. Reinhart,et al.  Small RNAs Correspond to Centromere Heterochromatic Repeats , 2002, Science.

[43]  V. Kim,et al.  MicroRNA maturation: stepwise processing and subcellular localization , 2002, The EMBO journal.

[44]  Olivier Voinnet,et al.  Two classes of short interfering RNA in RNA silencing , 2002, The EMBO journal.

[45]  P. Stadler,et al.  Secondary structure prediction for aligned RNA sequences. , 2002, Journal of molecular biology.

[46]  J. Spring,et al.  Genome duplication strikes back , 2002, Nature Genetics.

[47]  T. Tuschl,et al.  Identification of Tissue-Specific MicroRNAs from Mouse , 2002, Current Biology.

[48]  M. Mann,et al.  miRNPs: a novel class of ribonucleoproteins containing numerous microRNAs. , 2002, Genes & development.

[49]  Michael F. Whiting,et al.  Phylogeny of the holometabolous insect orders: molecular evidence , 2002 .

[50]  D. Gautheret,et al.  Direct RNA motif definition and identification from multiple sequence alignments using secondary structure profiles. , 2001, Journal of molecular biology.

[51]  B. Oakley An abundance of tubulins. , 2000, Trends in cell biology.

[52]  B. Reinhart,et al.  Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA , 2000, Nature.

[53]  M. Matzke,et al.  Transcriptional silencing and promoter methylation triggered by double‐stranded RNA , 2000, The EMBO journal.

[54]  B. Reinhart,et al.  The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans , 2000, Nature.

[55]  Y L Wang,et al.  Zebrafish hox clusters and vertebrate genome evolution. , 1998, Science.

[56]  Daniel H. Huson,et al.  SplitsTree: analyzing and visualizing evolutionary data , 1998, Bioinform..

[57]  J. Thompson,et al.  The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. , 1997, Nucleic acids research.

[58]  W. Doolittle,et al.  Alpha-tubulin from early-diverging eukaryotic lineages and the evolution of the tubulin family. , 1996, Molecular biology and evolution.

[59]  J. Thompson,et al.  CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. , 1994, Nucleic acids research.

[60]  Walter Fontana,et al.  Fast folding and comparison of RNA secondary structures , 1994 .

[61]  A. Sidow,et al.  Gene duplications and the origins of vertebrate development. , 1994, Development (Cambridge, England). Supplement.

[62]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[63]  S. Lewis,et al.  Tubulin pseudogenes as markers for hominoid divergence. , 1986, Journal of molecular biology.

[64]  M. G. Lee,et al.  Evolutionary history of a multigene family: An expressed human β-tubulin gene and three processed pseudogenes , 1983, Cell.

[65]  D. Lipman,et al.  Rapid similarity searches of nucleic acid and protein data banks. , 1983, Proceedings of the National Academy of Sciences of the United States of America.

[66]  P. Sharp,et al.  The sequences of an expressed rat α-tubulin gene and a pseudogene with an inserted repetitive element , 1982, Nature.

[67]  M. G. Lee,et al.  Evidence that a human β-tubulin pseudogene is derived from its corresponding mRNA , 1982, Nature.

[68]  Robert R. Sokal,et al.  A statistical method for evaluating systematic relationships , 1958 .

[69]  S. L. Wong,et al.  Extensive Gene Traffic on the Mammalian X Chromosome , 2022 .