Origins and Mechanisms of miRNAs and siRNAs

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Ender, 2008, A human snoRNA with microRNA-like functions, Mol. Cell, 32, 519, 10.1016/j.molcel.2008.10.017

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Eulalio, 2008, GW182 interaction with Argonaute is essential for miRNA-mediated translational repression and mRNA decay, Nat. Struct. Mol. Biol., 15, 346, 10.1038/nsmb.1405

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Grewal, 2007, Transcription and RNA interference in the formation of heterochromatin, Nature, 447, 399, 10.1038/nature05914

Guang, 2008, An Argonaute transports siRNAs from the cytoplasm to the nucleus, Science, 321, 537, 10.1126/science.1157647

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Han, 2006, Molecular basis for the recognition of primary microRNAs by the Drosha-DGCR8 complex, Cell, 125, 887, 10.1016/j.cell.2006.03.043

Henderson, 2007, Epigenetic inheritance in plants, Nature, 447, 418, 10.1038/nature05917

Heo, 2008, Lin28 mediates the terminal uridylation of let-7 precursor MicroRNA, Mol. Cell, 32, 276, 10.1016/j.molcel.2008.09.014

Herr, 2005, RNA polymerase IV directs silencing of endogenous DNA, Science, 308, 118, 10.1126/science.1106910

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Humphreys, 2005, MicroRNAs control translation initiation by inhibiting eukaryotic initiation factor 4E/cap and poly(A) tail function, Proc. Natl. Acad. Sci. USA, 102, 16961, 10.1073/pnas.0506482102

Hwang, 2007, A hexanucleotide element directs microRNA nuclear import, Science, 315, 97, 10.1126/science.1136235

Jakymiw, 2005, Disruption of GW bodies impairs mammalian RNA interference, Nat. Cell Biol., 7, 1267, 10.1038/ncb1334

Jiang, 2005, Dicer-1 and R3D1-L catalyze microRNA maturation in Drosophila, Genes Dev., 19, 1674, 10.1101/gad.1334005

Kanellopoulou, 2005, Dicer-deficient mouse embryonic stem cells are defective in differentiation and centromeric silencing, Genes Dev., 19, 489, 10.1101/gad.1248505

Kato, 2005, RNA polymerase II is required for RNAi-dependent heterochromatin assembly, Science, 309, 467, 10.1126/science.1114955

Kim, 2007, Conversion of pre-RISC to holo-RISC by Ago2 during assembly of RNAi complexes, RNA, 13, 22, 10.1261/rna.283207

Kim, 2005, MicroRNA biogenesis: coordinated cropping and dicing, Nat. Rev. Mol. Cell Biol., 6, 376, 10.1038/nrm1644

Kiriakidou, 2007, An mRNA m7G cap binding-like motif within human Ago2 represses translation, Cell, 129, 1141, 10.1016/j.cell.2007.05.016

Landthaler, 2008, Molecular characterization of human Argonaute-containing ribonucleoprotein complexes and their bound target mRNAs, RNA, 14, 2580, 10.1261/rna.1351608

Lee, 2003, The nuclear RNase III Drosha initiates microRNA processing, Nature, 425, 415, 10.1038/nature01957

Leung, 2006, Quantitative analysis of Argonaute protein reveals microRNA-dependent localization to stress granules, Proc. Natl. Acad. Sci. USA, 103, 18125, 10.1073/pnas.0608845103

Li, 2005, A microRNA mediates EGF receptor signaling and promotes photoreceptor differentiation in the Drosophila eye, Cell, 123, 1267, 10.1016/j.cell.2005.10.040

Lim, 2005, Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs, Nature, 433, 769, 10.1038/nature03315

Lippman, 2004, The role of RNA interference in heterochromatic silencing, Nature, 431, 364, 10.1038/nature02875

Liu, 2005, A role for the P-body component GW182 in microRNA function, Nat. Cell Biol., 7, 1261, 10.1038/ncb1333

Liu, 2005, MicroRNA-dependent localization of targeted mRNAs to mammalian P-bodies, Nat. Cell Biol., 7, 719, 10.1038/ncb1274

Lu, 2008, The birth and death of microRNA genes in Drosophila, Nat. Genet., 40, 351, 10.1038/ng.73

Lytle, 2007, Target mRNAs are repressed as efficiently by microRNA-binding sites in the 5′ UTR as in the 3′ UTR, Proc. Natl. Acad. Sci. USA, 104, 9667, 10.1073/pnas.0703820104

Ma, 2008, Autoinhibition of human dicer by its internal helicase domain, J. Mol. Biol., 380, 237, 10.1016/j.jmb.2008.05.005

Ma, 2005, Structural basis for 5′-end-specific recognition of guide RNA by the A. fulgidus Piwi protein, Nature, 434, 666, 10.1038/nature03514

Macrae, 2006, Structural basis for double-stranded RNA processing by Dicer, Science, 311, 195, 10.1126/science.1121638

Macrae, 2007, Structural determinants of RNA recognition and cleavage by Dicer, Nat. Struct. Mol. Biol., 14, 934, 10.1038/nsmb1293

Macrae, 2008, In vitro reconstitution of the human RISC-loading complex, Proc. Natl. Acad. Sci. USA, 105, 512, 10.1073/pnas.0710869105

Maniataki, 2005, A human, ATP-independent, RISC assembly machine fueled by pre-miRNA, Genes Dev., 19, 2979, 10.1101/gad.1384005

Maroney, 2006, Evidence that microRNAs are associated with translating messenger RNAs in human cells, Nat. Struct. Mol. Biol., 13, 1102, 10.1038/nsmb1174

Mathonnet, 2007, MicroRNA inhibition of translation initiation in vitro by targeting the cap-binding complex eIF4F, Science, 317, 1764, 10.1126/science.1146067

Matranga, 2005, Passenger-strand cleavage facilitates assembly of siRNA into Ago2-containing RNAi enzyme complexes, Cell, 123, 607, 10.1016/j.cell.2005.08.044

Meister, 2004, Mechanisms of gene silencing by double-stranded RNA, Nature, 431, 343, 10.1038/nature02873

Meister, 2005, Identification of novel argonaute-associated proteins, Curr. Biol., 15, 2149, 10.1016/j.cub.2005.10.048

Mello, 2004, Revealing the world of RNA interference, Nature, 431, 338, 10.1038/nature02872

Miyoshi, 2005, Slicer function of Drosophila Argonautes and its involvement in RISC formation, Genes Dev., 19, 2837, 10.1101/gad.1370605

Moazed, 2009, Small RNAs in transcriptional gene silencing and genome defence, Nature, 457, 413, 10.1038/nature07756

Murchison, 2005, Characterization of Dicer-deficient murine embryonic stem cells, Proc. Natl. Acad. Sci. USA, 102, 12135, 10.1073/pnas.0505479102

Newman, 2008, Lin-28 interaction with the Let-7 precursor loop mediates regulated microRNA processing, RNA, 14, 1539, 10.1261/rna.1155108

Nottrott, 2006, Human let-7a miRNA blocks protein production on actively translating polyribosomes, Nat. Struct. Mol. Biol., 13, 1108, 10.1038/nsmb1173

Ohrt, 2008, Fluorescence correlation spectroscopy and fluorescence cross-correlation spectroscopy reveal the cytoplasmic origination of loaded nuclear RISC in vivo in human cells, Nucleic Acids Res., 36, 6439, 10.1093/nar/gkn693

Okamura, 2007, The mirtron pathway generates microRNA-class regulatory RNAs in Drosophila, Cell, 130, 89, 10.1016/j.cell.2007.06.028

Okamura, 2008, The regulatory activity of microRNA∗ species has substantial influence on microRNA and 3′ UTR evolution, Nat. Struct. Mol. Biol., 15, 354, 10.1038/nsmb.1409

Onodera, 2005, Plant nuclear RNA polymerase IV mediates siRNA and DNA methylation-dependent heterochromatin formation, Cell, 120, 613, 10.1016/j.cell.2005.02.007

Orban, 2005, Decay of mRNAs targeted by RISC requires XRN1, the Ski complex, and the exosome, RNA, 11, 459, 10.1261/rna.7231505

Orom, 2008, MicroRNA-10a binds the 5′UTR of ribosomal protein mRNAs and enhances their translation, Mol. Cell, 30, 460, 10.1016/j.molcel.2008.05.001

Pak, 2007, Distinct populations of primary and secondary effectors during RNAi in C. elegans, Science, 315, 241, 10.1126/science.1132839

Parker, 2004, Crystal structure of a PIWI protein suggests mechanisms for siRNA recognition and slicer activity, EMBO J., 23, 4727, 10.1038/sj.emboj.7600488

Parker, 2005, Structural insights into mRNA recognition from a PIWI domain-siRNA guide complex, Nature, 434, 663, 10.1038/nature03462

Petersen, 2006, Short RNAs repress translation after initiation in mammalian cells, Mol. Cell, 21, 533, 10.1016/j.molcel.2006.01.031

Pillai, 2004, Tethering of human Ago proteins to mRNA mimics the miRNA-mediated repression of protein synthesis, RNA, 10, 1518, 10.1261/rna.7131604

Pillai, 2005, Inhibition of translational initiation by Let-7 MicroRNA in human cells, Science, 309, 1573, 10.1126/science.1115079

Rand, 2005, Argonaute2 cleaves the anti-guide strand of siRNA during RISC activation, Cell, 123, 621, 10.1016/j.cell.2005.10.020

Rivas, 2005, Purified Argonaute2 and an siRNA form recombinant human RISC, Nat. Struct. Mol. Biol., 12, 340, 10.1038/nsmb918

Robb, 2005, Specific and potent RNAi in the nucleus of human cells, Nat. Struct. Mol. Biol., 12, 133, 10.1038/nsmb886

Ruby, 2007, Intronic microRNA precursors that bypass Drosha processing, Nature, 448, 83, 10.1038/nature05983

Rybak, 2008, A feedback loop comprising lin-28 and let-7 controls pre-let-7 maturation during neural stem-cell commitment, Nat. Cell Biol., 10, 987, 10.1038/ncb1759

Saito, 2005, Processing of pre-microRNAs by the Dicer-1-Loquacious complex in Drosophila cells, PLoS Biol., 3, e235, 10.1371/journal.pbio.0030235

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Shen, 2004, Uridine addition after microRNA-directed cleavage, Science, 306, 997, 10.1126/science.1103521

Sijen, 2007, Secondary siRNAs result from unprimed RNA synthesis and form a distinct class, Science, 315, 244, 10.1126/science.1136699

Song, 2004, Crystal structure of Argonaute and its implications for RISC slicer activity, Science, 305, 1434, 10.1126/science.1102514

Sugiyama, 2005, RNA-dependent RNA polymerase is an essential component of a self-enforcing loop coupling heterochromatin assembly to siRNA production, Proc. Natl. Acad. Sci. USA, 102, 152, 10.1073/pnas.0407641102

Thermann, 2007, Drosophila miR2 induces pseudo-polysomes and inhibits translation initiation, Nature, 447, 875, 10.1038/nature05878

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Tomari, 2007, Sorting of Drosophila small silencing RNAs, Cell, 130, 299, 10.1016/j.cell.2007.05.057

Tomari, 2005, Perspective: machines for RNAi, Genes Dev., 19, 517, 10.1101/gad.1284105

Vasudevan, 2007, Switching from repression to activation: microRNAs can up-regulate translation, Science, 318, 1931, 10.1126/science.1149460

Vazquez, 2004, Endogenous trans-acting siRNAs regulate the accumulation of Arabidopsis mRNAs, Mol. Cell, 16, 69, 10.1016/j.molcel.2004.09.028

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Viswanathan, 2008, Selective blockade of microRNA processing by Lin28, Science, 320, 97, 10.1126/science.1154040

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Wang, 2008, Structure of an argonaute silencing complex with a seed-containing guide DNA and target RNA duplex, Nature, 456, 921, 10.1038/nature07666

Wang, 2008, Structure of the guide-strand-containing argonaute silencing complex, Nature, 456, 209, 10.1038/nature07315

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Wierzbicki, 2008, Noncoding transcription by RNA polymerase Pol IVb/Pol V mediates transcriptional silencing of overlapping and adjacent genes, Cell, 135, 635, 10.1016/j.cell.2008.09.035

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Yuan, 2005, Crystal structure of A. aeolicus argonaute, a site-specific DNA-guided endoribonuclease, provides insights into RISC-mediated mRNA cleavage, Mol. Cell, 19, 405, 10.1016/j.molcel.2005.07.011

Zhang, 2004, Single processing center models for human Dicer and bacterial RNase III, Cell, 118, 57, 10.1016/j.cell.2004.06.017