- A ribozyme that ligates RNA to protein Scott Baskerville and David P. Bartel*
- Cell, Vol. 123, 607620, November 18, 2005, Copyright 2005 by Elsevier Inc. DOI 10.1016/j.cell.2005.08.044 Passenger-Strand Cleavage Facilitates Assembly
- 10.1261/rna.1912509Access the most recent version at doi: 2009 15: 2129-2146RNA
- AAAAAAAAAAAA Oligo(dT) select RNA
- Molecular Cell 22, 129136, April 7, 2006 2006 Elsevier Inc. DOI 10.1016/j.molcel.2006.03.011 Short ArticleAGO1 Homeostasis Entails
- Molecular Cell, Vol. 16, 6979, October 8, 2004, Copyright 2004 by Cell Press Endogenous trans-Acting siRNAs Regulate
- As determinants of regional anatomic identity across Bilateria, homeobox (Hox) gene clusters are under
- Supplementary Discussion Trichoplax phylogeny. Trichoplax has neither miRNAs nor piRNAs, and the canonical
- 10.1101/gad.1613108Access the most recent version at doi: 2008 22: 8-13Genes & Dev.
- minus the background levels observed in the HSP in the control (Sar1-GDPcontaining) incubation that
- MicroRNAs prevent precocious gene expression and enable pattern formation
- Molecular Cell Expanding the MicroRNA Targeting Code
- Supplemental Information Molecular Cell, Volume 38
- www.sciencemag.org/cgi/content/full/326/5957/1271DC1 Supporting Online Material for
- 27. M. T. Holder, J. A. Anderson, A. K. Holloway, Syst. Biol. 50, 978 (2001).
- www.sciencemag.org/cgi/content/full/1176945/DC1 Supporting Online Material for
- Widespread Shortening of 30 Alternative Cleavage and Polyadenylation
- Allelic imbalance sequencing reveals that single-nucleotide polymorphisms frequently alter
- miR-206 GFP+ & GFP cells before FACS Supplementary Figure 1: Shkumatava et al.
- Friedman et al., Supplemental Material, page 1 Supplemental Discussion
- Criteria for Annotation of Plant MicroRNAs Blake C. Meyers,a,1 Michael J. Axtell,b,1 Bonnie Bartel,c David P. Bartel,d David Baulcombe,e John L. Bowman,f
- 10.1101/gad.1705308Access the most recent version at doi: 2008 22: 2773-2785Genes Dev.
- TRAMP-mediated RNA surveillance prevents spurious entry of RNAs into the Schizosaccharomyces pombe
- 10.1261/rna.494508Access the most recent version at doi: 2008 14: 552-562; originally published online Jan 29, 2008;RNA
- The Drosophila hairpin RNA pathway generates endogenous short interfering RNAs
- SUPPLEMENTARY FIGURE LEGENDS for Okamura et al, "The hairpin RNA pathway generates endogenous siRNAs in Drosophila"
- Current Biology 18, 758762, May 20, 2008 2008 Elsevier Ltd All rights reserved DOI 10.1016/j.cub.2008.04.042 Endogenous siRNA and miRNA
- Supplemental Data S1 Endogenous siRNA and miRNA
- Most Caenorhabditis elegans microRNAs Are Individually Not Essential
- Molecular Cell MicroRNA Targeting Specificity in Mammals
- www.sciencemag.org/cgi/content/full/1137999/DC1 Supporting Online Material for
- Large-Scale Sequencing Reveals 21U-RNAs and Additional MicroRNAs
- all imaged spinal cord sections to rule out possible axon intersections. Notably, in all of
- Microarray profiling of microRNAs reveals frequent coexpression with neighboring miRNAs and host genes
- 1 Giraldez et al. SUPPORTING ONLINE MATERIAL
- MicroRNA-Directed Cleavage of Soraya Yekta,1,2
- BIOINFORMATICS Patterns of flanking sequence conservation and a
- Current Biology, Vol. 14, 10351046, June 22, 2004, 2004 Elsevier Ltd. All rights reserved. DOI 10.1016/j.cub.2004.06.022 MicroRNA Regulation of NAC-Domain Targets Is
- The three-dimensional architecture of the class I ligase ribozyme
- The action of ARGONAUTE1 in the miRNA pathway and its
- The microRNAs of Caenorhabditis elegans
- Cell, Vol. 115, 787798, December 26, 2003, Copyright 2003 by Cell Press Prediction of Mammalian MicroRNA Targets
- Update on Small RNAs MicroRNAs: At the Root of Plant Development?1
- Chemistry & Biology, Vol. 10, 799806, September, 2003, 2003 Elsevier Science Ltd. All rights reserved. DOI 10.1016/S1074-5521(03)00171-6 Substrate 2 -Hydroxyl Groups Required
- LETTER TO THE EDITOR A uniform system for microRNA annotation
- Cell, Vol. 110, 513520, August 23, 2002, Copyright 2002 by Cell Press Prediction of Plant MicroRNA Targets
- M O L E C U L A R B I O L O G Y Small RNAs Correspond to
- Metal Ion Requirements for Structure and Catalysis of an RNA Ligase Ribozyme Margaret E. Glasner, Nicholas H. Bergman, and David P. Bartel*
- A ribozyme selected from variants of U6 snRNA promotes 29,59-branch formation
- he first challenge on the path to a syntheticlifeformistoimagineacollec-
- The hammerhead cleavage reaction in monovalent cations
- Kinetic Framework for Ligation by an Efficient RNA Ligase Ribozyme Nicholas H. Bergman, Wendy K. Johnston, and David P. Bartel*
- Nature Macmillan Publishers Ltd 1998 letters to nature
- Proc. Natl. Acad. Sci. USA Vol. 94, pp. 1128511290, October 1997
- Research Paper 767 Accessing rare activities from random RNA sequences: the
- 4220-4221 Nucleic Acids Research. 1995, Vo/. 23, No. 2() PCR product with strands of unequal length
- MicroRNA and siRNA Cloning Protocol Bartel Lab Protocol Updated: July 2005
- MicroRNA and siRNA Cloning Method Bartel Lab Protocol Revised May, 2002
- High Molecular Weight RNA gel blot Allison C. Mallory, Bartel Lab Whitehead Institute
- mRNA-Seq and Ribosome Profiling Protocol Huili Guo, Bartel lab, August 8, 2010 mRNA-Seq and Ribosome Profiling protocol
- Supplementary Data 1. Nematostella miRNAs. miRNA (red), miRNA* (blue) and variant miRNA-miRNA* pairs (green) are highlighted. All sequences mapping to
- Supplementary Figure 1. Tissue-specific expression of miR-1 and miR-124 in human tissues. A) Northern blot of a human total RNA tissue panel. B) Molecular abundance of
- www.sciencemag.org/cgi/content/full/1121158/DC1 Supporting Online Material for
- MicroRNAs and Their Regulatory Roles in Plants
- MicroRNAs in plants Brenda J. Reinhart,1
- Total RNA extraction from Arabidopsis and tobacco Allison C. Mallory, Bartel Lab Whitehead Institute
- Cell, Volume 138 Supplemental Data
- Developmental Cell, Vol. 9, 403414, September, 2005, Copyright 2005 by Elsevier Inc. DOI 10.1016/j.devcel.2005.07.009 The let-7 MicroRNA Family Members mir-48, mir-84,
- Chemistry & Biology, Vol. 9, 741746, June, 2002, 2002 Elsevier Science Ltd. All rights reserved. PII S1074-5521(02)00161-8 A Bifunctional tRNA for In Vitro Selection
- www.sciencemag.org/cgi/content/full/1130164/DC1 Supporting Online Material for
- LETTER doi:10.1038/nature09616 Formation, regulation and evolution of
- Nucleic Acids Research, 1995, Vol. 23, No. 16 3231-3238 The secondary structure and sequence optimization
- 2B, lower panel). An increase in the expression of arginine fermentation genes (arcA, arcI, and arcC)
- 1998 Oxford University Press 163165Nucleic Acids Research, 1998, Vol. 26, No. 1 The tmRNA Website
- Developmental Cell Abbott et al.
- A viral suppressor of RNA silencing differentially regulates the accumulation of short interfering
- RNA-Catalyzed RNA Polymerization: Accurate and
- PAGE Northerns for MicroRNAs Updated April, 2007 Bartel Lab
- Coherent but overlapping expression of microRNAs and their targets during
- Supplementary Discussion C. elegans miRNAs
- miR-150, a microRNA expressed in mature B and T cells, blocks early B cell development when
- Targeted mRNA degradation by double-stranded RNA in vitro
- DOI: 10.1126/science.1130164 , 363 (2006);313Science
- The EMBO Journal Vol.17 No.9 pp.26372650, 1998 Selection in vitro of novel ribozymes from a partially
- The PUMILIO-RNA Interaction: A Single RNA-Binding Domain Monomer Recognizes a Bipartite Target Sequence
- Cell, Vol. 116, 281297, January 23, 2004, Copyright 2004 by Cell Press ReviewMicroRNAs: Genomics,
- 32. R. B. Armstrong, M. H. Laughlin, J. Physiol. 344, 189 33. M. H. Laughlin, R. B. Armstrong, Am. J. Physiol. 244,
- 1999 Elsevier Science Ltd. All rights reserved. For article fee, see p. IV. TCB, Vol. 9, N 12 (0962-8924) TIBS, Vol. 24, N 12 (0968-0004) TIG, Vol. 15, N 12 (0168-9525)
- The impact of microRNAs on protein Daehyun Baek1,2
- A Two-Hit Trigger for siRNA Biogenesis in Plants
- Developmental Cell, Vol. 9, 415422, September, 2005, Copyright 2005 by Elsevier Inc. DOI 10.1016/j.devcel.2005.08.002 Short ArticleRegulatory Mutations of mir-48,
- 21. Supplementary Web material is available on Science Online at www.sciencemag.org/cgi/content/full/294/
- Connecting microRNA Genes to the Core Transcriptional Regulatory Circuitry
- MicroRNA-Directed Regulation of Arabidopsis AUXIN RESPONSE FACTOR17 Is Essential for Proper Development
- Discovery of functional elements in 12 Drosophila genomes using evolutionary
- 17. Umek, R. M., Friedman, A. D. & McKnight, S. L. CCAAT-enhancer binding protein: a component of a differentiation switch. Science 251, 288292 (1991).
- 2005 Nature Publishing Group The microRNA miR-196 acts upstream of Hoxb8 and
- Leading Edge Cell 136, January 23, 2009 2009 Elsevier Inc. 215
- Preparation of Single-Stranded Tailed Templates for 454 Sequencing Citation: Ruby et al., Cell 127: 1193-1207 (2006)
- Molecular Cell, Vol. 14, 787799, June 18, 2004, Copyright 2004 by Cell Press Computational Identification of
- Mammalian microRNAs predominantly act to decrease target mRNA levels
- Cell, Vol. 101, 2533, March 31, 2000, Copyright 2000 by Cell Press RNAi: Double-Stranded RNA Directs the
- An oxocarbenium-ion intermediate of a ribozyme reaction indicated by kinetic isotope effects
- Vertebrate MicroRNA Genes Lee P. Lim,1,2
- 396 | MAY 2004 | VOLUME 5 www.nature.com/reviews/genetics P E R S P E C T I V E S
- log no. reads, wt10 log no. reads, wt10 log no. reads, dicer1/10 logno.reads,dgcr8/10
- In ovo application of antagomiRs indicates a role for miR-196 in patterning the chick axial skeleton
- Cell, Vol. 120, 1520, January 14, 2005, Copyright 2005 by Elsevier Inc. DOI 10.1016/j.cell.2004.12.035 Letter to the Editor
- Predicted stem-loop precursors of newly identified C. elegans miRNAs. Each miRNA is shown in red, 5' flanking sequence is shown in black, and 3' flanking sequence is shown
- Combinatorial minimization and secondary structure determination of a nucleotide synthase ribozyme
- Molecular Cell, Volume 27 Supplemental Data
- SUPPLEMENTARY INFORMATION 1www.nature.com/nature
- Intronic microRNA precursors that bypass Drosha processing
- Intronic microRNA precursors that bypass Drosha processing
- A biochemical framework for RNA silencing in plants
- Molecular Cell PRG-1 and 21U-RNAs Interact to Form the piRNA
- Supplemental Data Passenger-Strand Cleavage Facilitates Assembly
- 13. E. W. Myers et al., Science 287, 2196 (2000). 14. J. C. Venter et al., Science 280, 1540 (1998).
- Processivity of Ribozyme-Catalyzed RNA Polymerization Michael S. Lawrence and David P. Bartel*
- Early origins and evolution of microRNAs and Piwi-interacting RNAs in animals
- Mammalian microRNAs: experimental evaluation of novel and previously
- Developmental Cell Supplemental Data
- The maximum likelihood model estimated significantly positive slopes for the relationship
- Recognition of Nucleoside Triphosphates during RNA-Catalyzed Primer Extension Margaret E. Glasner, Catherine C. Yen, Eric H. Ekland, and David P. Bartel*
- The Inside-Out Mechanism of Dicers from Budding Yeasts
- T E C H N I CA L R E P O R T S 100 VOLUME 18 NUMBER 1 JANUARY 2011 NATuRE STRuCTuRAL & mOLECuLAR bIOLOgy
- SUPPLEMENTARY INFORMATION A portable RNA sequence whose recognition by a synthetic antibody facilitates structural
- 10.1101/gr.121210.111Access the most recent version at doi: published online June 17, 2011Genome Res.
- Table S1. Analysis of Small-RNA Libraries, Related to Figure 1 K. polysporus Dcr1 K. polysporus Dcr1C
- 1036 VOLUME 18 NUMBER 9 SEPTEMBER 2011 nature structural & molecular biology a rt i c l e s
- www.sciencemag.org/cgi/content/full/333/6049/1592/DC1 Supporting Online Material for
- Compatibility with Killer Explains the Rise of RNAi-Deficient Fungi
- Molecular Cell, Volume 43 SUPPLEMENTAL INFORMATION
- 2011NatureAmerica,Inc.Allrightsreserved. nature structural & molecular biology advance online publication
- Molecular Cell MicroRNA Destabilization Enables
- Weak seed-pairing stability and high target-site abundance decrease the proficiency of lsy-6 and other microRNAs
- Supplementary information for The structural basis of RNA-catalyzed RNA polymerization
- W W W. N A T U R E . C O M / N A T U R E | 1 SUPPLEMENTARYINFORMATION doi:10.1038/nature10756
- LETTER doi:10.1038/nature10756 Maternal and paternal genomes contribute equally to
- Conserved Function of lincRNAs in Vertebrate Embryonic Development
- Table S1. Statistics for High-Throughput Sequencing Datasets, Related to Experimental Library Total reads 4 alignments 0 alignments >4 alignments
