Molecular Evolution of a MicroRNA Cluster
Tóm tắt
Từ khóa
Tài liệu tham khảo
Nelson, 2003, The microRNA world: small is mighty, Trends Biochem. Sci., 28, 534, 10.1016/j.tibs.2003.08.005
Lewis, 2003, Prediction of mammalian microRNA targets, Cell, 115, 787, 10.1016/S0092-8674(03)01018-3
Stark, 2003, Identification of Drosophila MicroRNA targets, PLoS Biol., 1, 397, 10.1371/journal.pbio.0000060
Doench, 2004, Specificity of microRNA target selection in translational repression, Genes Dev., 18, 504, 10.1101/gad.1184404
Rajewsky, 2004, Computational identification of microRNA targets, Dev. Biol., 267, 529, 10.1016/j.ydbio.2003.12.003
Lee, 2002, MicroRNA maturation: stepwise processing and subcellular localization, EMBO J., 21, 4663, 10.1093/emboj/cdf476
Mourelatos, 2002, miRNPs: a novel class of ribonucleoproteins containing numerous microRNAs, Genes Dev., 16, 720, 10.1101/gad.974702
Lai, 2003, Computational identication of Drosophila microRNA genes, Genome Biol., 4, R42, 10.1186/gb-2003-4-7-r42
Lagos-Quintana, 2001, Identification of novel genes coding for small expressed RNAs, Science, 294, 853, 10.1126/science.1064921
Lagos-Quintana, 2002, Identification of tissue-specific microRNAs from mouse, Curr. Biol., 12, 735, 10.1016/S0960-9822(02)00809-6
Houbaviy, 2003, Embryonic stem cell-specific microRNAs, Dev. Cell, 5, 351, 10.1016/S1534-5807(03)00227-2
Kim, 2004, Identification of many microRNAs that copurify with polyribosomes in mammalian neurons, Proc. Natl Acad. Sci. USA, 101, 360, 10.1073/pnas.2333854100
Aravin, 2003, The small RNA profile during Drosophila melanogaster development, Dev. Cell, 5, 337, 10.1016/S1534-5807(03)00228-4
Sempere, 2003, Temporal regulation of microRNA expression in Drosophila melanogaster mediated by hormonal signals and Broad-Complex gene activity, Dev. Biol., 259, 9, 10.1016/S0012-1606(03)00208-2
Obernosterer, 2003, Searching genomes for small temporal RNAs
Hofacker, 2004, Prediction of locally stable RNA secondary structures for genome-wide surveys, Bioinformatics, 20, 191, 10.1093/bioinformatics/btg388
Höchsmann, 2003, Local similarity in RNA secondary structures
Taylor, 2003, Genome duplication, a trait shared by 22,000 species of ray-finned fish, Genome Res., 13, 382, 10.1101/gr.640303
Force, 1999, Preservation of duplicate genes by complementary, degenerative mutations, Genetics, 151, 1531, 10.1093/genetics/151.4.1531
Holland, 1994, Gene duplication and the origins of vertebrate development, Development, Suppl., 125, 10.1242/dev.1994.Supplement.125
Panopoulou, 2003, New evidence for genome-wide duplications at the origin of vertebrates using an amphioxus gene set and completed animal genomes, Genome Res., 13, 1056, 10.1101/gr.874803
Bailey, 1997, Phylogenetic reconstruction of vertebrate Hox cluster duplications, Mol. Biol. Evol., 14, 843, 10.1093/oxfordjournals.molbev.a025825
Altschul, 1990, Basic local alignment search tool, J. Mol. Biol., 215, 403, 10.1016/S0022-2836(05)80360-2
Thompson, 1994, CLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties, and weight matrix choice, Nucl. Acids Res., 22, 4673, 10.1093/nar/22.22.4673
Hofacker, 2003, Vienna RNA secondary structure server, Nucl. Acids Res., 31, 3429, 10.1093/nar/gkg599
Hofacker, 1999, Automatic detection of conserved base pairing patterns in RNA virus genomes, Comp. Chem., 23, 401, 10.1016/S0097-8485(99)00013-3
Hofacker, 2002, Secondary structure prediction for aligned RNA sequences, J. Mol. Biol., 319, 1059, 10.1016/S0022-2836(02)00308-X
Felsenstein, 1989, Phylip—phylogeny inference package (version 3.2), Cladistics, 5, 164
Schöninger, 1999, Towards assigning helical regions in alignments of ribosomal RNA and testing the appropriateness of evolutionary models, J. Mol. Evol., 49, 691, 10.1007/PL00006590
Hudelot, 2003, RNA-based phylogenetic methods: application to mammalian mitochondrial RNA sequences, Mol. Phylogenet. Evol., 28, 241, 10.1016/S1055-7903(03)00061-7
Wilbur, 1983, Rapid similarity searches of nucleic acid and protein data banks, Proc. Natl Acad. Sci. USA, 80, 726, 10.1073/pnas.80.3.726
Sokal, 1958, A statistical method for evaluating systematic relationships, Univ. Kans. Sci. Bull., 38, 1409