Table of Contents

September 2004; 10 (9)

BIOINFORMATICS

  • BIOINFORMATICS:

    Patterns of flanking sequence conservation and a characteristic upstream motif for microRNA gene identification

    • UWE OHLER,
    • SORAYA YEKTA,
    • LEE P. LIM,
    • DAVID P. BARTEL,
    • and CHRISTOPHER B. BURGE
    RNA September 2004 10:1309-1322; doi:10.1261/rna.5206304
  • BIOINFORMATICS:

    BayesFold: Rational 2° folds that combine thermodynamic, covariation, and chemical data for aligned RNA sequences

    • ROB KNIGHT,
    • AMANDA BIRMINGHAM,
    • and MICHAEL YARUS
    RNA September 2004 10:1323-1336; doi:10.1261/rna.5168504
  • BIOINFORMATICS:

    Detection of genome-scale ordered RNA structure (GORS) in genomes of positive-stranded RNA viruses: Implications for virus evolution and host persistence

    • PETER SIMMONDS,
    • ANDREW TUPLIN,
    • and DAVID J. EVANS
    RNA September 2004 10:1337-1351; Published in Advance July 23, 2004, doi:10.1261/rna.7640104

REPORTS

  • REPORT:

    The yeast Apq12 protein affects nucleocytoplasmic mRNA transport

    • KRISTIAN E. BAKER,
    • JEFF COLLER,
    • and ROY PARKER
    RNA September 2004 10:1352-1358; Published in Advance July 23, 2004, doi:10.1261/rna.7420504
  • REPORT:

    A stop codon-dependent internal secondary translation initiation region in Escherichia coli rpoS

    • POCHI RAMALINGAM SUBBARAYAN
    • and MALANCHA SARKAR
    RNA September 2004 10:1359-1365; doi:10.1261/rna.7500604

ARTICLES

  • ARTICLE:

    The contribution of metal ions to the structural stability of the large ribosomal subunit

    • DANIEL J. KLEIN,
    • PETER B. MOORE,
    • and THOMAS A. STEITZ
    RNA September 2004 10:1366-1379; doi:10.1261/rna.7390804
  • ARTICLE:

    Solution structure of an RNA stem–loop derived from the 3′ conserved region of eel LINE UnaL2

    • SEIKI BABA,
    • MASAKI KAJIKAWA,
    • NORIHIRO OKADA,
    • and GOTA KAWAI
    RNA September 2004 10:1380-1387; Published in Advance July 23, 2004, doi:10.1261/rna.7460104
  • ARTICLE:

    Solution structure of the pseudo-5′ splice site of a retroviral splicing suppressor

    • JAVIER CABELLO-VILLEGAS,
    • KEITH E. GILES,
    • ANA MARIA SOTO,
    • PING YU,
    • ANNIE MOUGIN,
    • KAREN L. BEEMON,
    • and YUN-XING WANG
    RNA September 2004 10:1388-1398; doi:10.1261/rna.7020804
  • ARTICLE:

    Optimization of apolipoprotein B mRNA editing by APOBEC1 apoenzyme and the role of its auxiliary factor, ACF

    • ANN CHESTER,
    • VIOLETTA WEINREB,
    • CHARLES W. CARTER, JR.,
    • and NAVEENAN NAVARATNAM
    RNA September 2004 10:1399-1411; Published in Advance July 23, 2004, doi:10.1261/rna.7490704
  • ARTICLE:

    Functional analysis of mRNA scavenger decapping enzymes

    • SHIN-WU LIU,
    • XINFU JIAO,
    • HUDAN LIU,
    • MEIGANG GU,
    • CHRISTOPHER D. LIMA,
    • and MEGERDITCH KILEDJIAN
    RNA September 2004 10:1412-1422; Published in Advance July 23, 2004, doi:10.1261/rna.7660804
  • ARTICLE:

    Crystal structure of archaeal ribonuclease P protein Ph1771p from Pyrococcus horikoshii OT3: An archaeal homolog of eukaryotic ribonuclease P protein Rpp29

    • TOMOYUKI NUMATA,
    • IKUKO ISHIMATSU,
    • YOSHIMITSU KAKUTA,
    • ISAO TANAKA,
    • and MAKOTO KIMURA
    RNA September 2004 10:1423-1432; doi:10.1261/rna.7560904
  • ARTICLE:

    High-affinity binding site for a group II intron-encoded reverse transcriptase/maturase within a stem–loop structure in the intron RNA

    • KAZUO WATANABE
    • and ALAN M. LAMBOWITZ
    RNA September 2004 10:1433-1443; Published in Advance July 23, 2004, doi:10.1261/rna.7730104
  • ARTICLE:

    Tissue-specific modification of gld-2 mRNA in C. elegans: Likely C-to-U editing

    • LIAOTENG WANG,
    • JUDITH KIMBLE,
    • and MARVIN WICKENS
    RNA September 2004 10:1444-1448; doi:10.1261/rna.7570804
  • ARTICLE:

    Specificity of the STAR/GSG domain protein Qk1: Implications for the regulation of myelination

    • SEAN P. RYDER
    • and JAMES R. WILLIAMSON
    RNA September 2004 10:1449-1458; Published in Advance July 23, 2004, doi:10.1261/rna.7780504

METHODS

  • METHOD:

    Ligand-induced changes in 2-aminopurine fluorescence as a probe for small molecule binding to HIV-1 TAR RNA

    • THOMAS D. BRADRICK
    • and JOHN P. MARINO
    RNA September 2004 10:1459-1468; Published in Advance July 23, 2004, doi:10.1261/rna.7620304
  • METHOD:

    Chemical synthesis and binding activity of the trypanosomatid cap-4 structure

    • MAGDALENA LEWDOROWICZ,
    • YAEL YOFFE,
    • JOANNA ZUBEREK,
    • JACEK JEMIELITY,
    • JANUSZ STEPINSKI,
    • RYSZARD KIERZEK,
    • RYSZARD STOLARSKI,
    • MICHAL SHAPIRA,
    • and EDWARD DARZYNKIEWICZ
    RNA September 2004 10:1469-1478; Published in Advance July 23, 2004, doi:10.1261/rna.7510504
  • METHOD:

    Novel cap analogs for in vitro synthesis of mRNAs with high translational efficiency

    • EWA GRUDZIEN,
    • JANUSZ STEPINSKI,
    • MARZENA JANKOWSKA-ANYSZKA,
    • RYSZARD STOLARSKI,
    • EDWARD DARZYNKIEWICZ,
    • and ROBERT E. RHOADS
    RNA September 2004 10:1479-1487; doi:10.1261/rna.7380904
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This Issue

September 2004; 10 (9)
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  1. BIOINFORMATICS
  2. REPORTS
  3. ARTICLES
  4. METHODS

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