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Volume 14(3);  March 2008
Review of the Cech Symposium
The Cech Symposium: A celebration of 25 years of ribozymes, 10 years of TERT, and 60 years of Tom
Quentin Vicens, Mary Ann Allen, Sunny D. Gilbert, Boris Reznik, Anne R. Gooding, and Robert T. Batey
RNA. 2008 March; 14(3): 397–403. doi: 10.1261/rna.910008.
PMCID: PMC2248266
Mini-Review
Trading translation with RNA-binding proteins
Irina Abaza and Fátima Gebauer
RNA. 2008 March; 14(3): 404–409. doi: 10.1261/rna.848208.
PMCID: PMC2248257
Bioinformatics
From knotted to nested RNA structures: A variety of computational methods for pseudoknot removal
Sandra Smit, Kristian Rother, Jaap Heringa, and Rob Knight
RNA. 2008 March; 14(3): 410–416. doi: 10.1261/rna.881308.
PMCID: PMC2248259
Reports
Loss of mir-146a function in hormone-refractory prostate cancer
Shi-Lung Lin, Angela Chiang, Donald Chang, and Shao-Yao Ying
RNA. 2008 March; 14(3): 417–424. doi: 10.1261/rna.874808.
PMCID: PMC2248249
Identification of PCBP2, a facilitator of IRES-mediated translation, as a novel constituent of stress granules and processing bodies
Ken Fujimura, Fumi Kano, and Masayuki Murata
RNA. 2008 March; 14(3): 425–431. doi: 10.1261/rna.780708.
PMCID: PMC2248264
MicroRNA expression in the adult mouse central nervous system
Mads Bak, Asli Silahtaroglu, Morten Møller, Mette Christensen, Martin F. Rath, Boris Skryabin, Niels Tommerup, and Sakari Kauppinen
RNA. 2008 March; 14(3): 432–444. doi: 10.1261/rna.783108.
PMCID: PMC2248253
Signal sequence- and translation-independent mRNA localization to the endoplasmic reticulum
Brook Pyhtila, Tianli Zheng, Patrick J. Lager, Jack D. Keene, Mary C. Reedy, and Christopher V. Nicchitta
RNA. 2008 March; 14(3): 445–453. doi: 10.1261/rna.721108.
PMCID: PMC2248262
Translational activation by the noncoding RNA DsrA involves alternative RNase III processing in the rpoS 5′-leader
Armin Resch, Taras Afonyushkin, Tania B. Lombo, Kenneth J. McDowall, Udo Bläsi, and Vladimir R. Kaberdin
RNA. 2008 March; 14(3): 454–459. doi: 10.1261/rna.603108.
PMCID: PMC2248258
Mutation from guanine to adenine in 25S rRNA at the position equivalent to E. coli A2058 does not confer erythromycin sensitivity in Sacchromyces cerevisae
Ananth S. Bommakanti, Lasse Lindahl, and Janice M. Zengel
RNA. 2008 March; 14(3): 460–464. doi: 10.1261/rna.786408.
PMCID: PMC2248265
Articles
RNA backbone: Consensus all-angle conformers and modular string nomenclature (an RNA Ontology Consortium contribution)
Jane S. Richardson, Bohdan Schneider, Laura W. Murray, Gary J. Kapral, Robert M. Immormino, Jeffrey J. Headd, David C. Richardson, Daniela Ham, Eli Hershkovits, Loren Dean Williams, Kevin S. Keating, Anna Marie Pyle, David Micallef, John Westbrook, and Helen M. Berman
RNA. 2008 March; 14(3): 465–481. doi: 10.1261/rna.657708.
PMCID: PMC2248255
Functional domains of Drosophila UNR in translational control
Irina Abaza and Fátima Gebauer
RNA. 2008 March; 14(3): 482–490. doi: 10.1261/rna.802908.
PMCID: PMC2248260
Myo2p, a class V myosin in budding yeast, associates with a large ribonucleic acid–protein complex that contains mRNAs and subunits of the RNA-processing body
Wakam Chang, Rania F. Zaarour, Samara Reck-Peterson, John Rinn, Robert H. Singer, Michael Snyder, Peter Novick, and Mark S. Mooseker
RNA. 2008 March; 14(3): 491–502. doi: 10.1261/rna.665008.
PMCID: PMC2248268
Duality of polynucleotide substrates for Phi29 DNA polymerase: 3′→5′ RNase activity of the enzyme
Arunas Lagunavicius, Zivile Kiveryte, Vilma Zimbaite-Ruskuliene, Tomas Radzvilavicius, and Arvydas Janulaitis
RNA. 2008 March; 14(3): 503–513. doi: 10.1261/rna.622108.
PMCID: PMC2248250
The RNA binding protein Hfq interacts specifically with tRNAs
Taewoo Lee and Andrew L. Feig
RNA. 2008 March; 14(3): 514–523. doi: 10.1261/rna.531408.
PMCID: PMC2248270
An RNA molecule that specifically inhibits G-protein-coupled receptor kinase 2 in vitro
Günter Mayer, Bernhard Wulffen, Christian Huber, Jörg Brockmann, Birgit Flicke, Lars Neumann, Doris Hafenbradl, Bert M. Klebl, Martin J. Lohse, Cornelius Krasel, and Michael Blind
RNA. 2008 March; 14(3): 524–534. doi: 10.1261/rna.821908.
PMCID: PMC2248252
Sequence-specific activation of TAK1-D by short double-stranded RNAs induces apoptosis in NCI-H460 cells
Reinhard Kodym, Elisabeth Kodym, and Micheal D. Story
RNA. 2008 March; 14(3): 535–542. doi: 10.1261/rna.738508.
PMCID: PMC2248254
PNPase is a key player in the regulation of small RNAs that control the expression of outer membrane proteins
José M. Andrade and Cecília M. Arraiano
RNA. 2008 March; 14(3): 543–551. doi: 10.1261/rna.683308.
PMCID: PMC2248267
Improved polymerase ribozyme efficiency on hydrophobic assemblies
Ulrich F. Müller and David P. Bartel
RNA. 2008 March; 14(3): 552–562. doi: 10.1261/rna.494508.
PMCID: PMC2248263
Proximity of the poly(A)-binding protein to a premature termination codon inhibits mammalian nonsense-mediated mRNA decay
Ana Luísa Silva, Patrícia Ribeiro, Ângela Inácio, Stephen A. Liebhaber, and Luísa Romão
RNA. 2008 March; 14(3): 563–576. doi: 10.1261/rna.815108.
PMCID: PMC2248256
Method
Receptor-mediated delivery of siRNAs by tethered nucleic acid base-paired interactions
Kexiong Zhang, Qiaoqiao Wang, Yanhua Xie, Gil Mor, Emanuela Sega, Philip S. Low, and Yingqun Huang
RNA. 2008 March; 14(3): 577–583. doi: 10.1261/rna.739308.
PMCID: PMC2248269
A novel sequence-specific RNA quantification method using nicking endonuclease, dual-labeled fluorescent DNA probe, and conformation-interchangeable oligo-DNA
Kazufumi Hosoda, Tomoaki Matsuura, Hiroshi Kita, Norikazu Ichihashi, Koji Tsukada, Itaru Urabe, and Tetsuya Yomo
RNA. 2008 March; 14(3): 584–592. doi: 10.1261/rna.761708.
PMCID: PMC2248261
An efficient in vitro translation system from mammalian cells lacking the translational inhibition caused by eIF2 phosphorylation
Vladimir V. Zeenko, Chuanping Wang, Mithu Majumder, Anton A. Komar, Martin D. Snider, William C. Merrick, Randal J. Kaufman, and Maria Hatzoglou
RNA. 2008 March; 14(3): 593–602. doi: 10.1261/rna.825008.
PMCID: PMC2248251
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