| | Articles Interactions of the KWK6 cationic peptide with short nucleic acid oligomers: demonstration of large Coulombic end effects on binding at 0.1–0.2 M salt Jeff D. Ballin, Irina A. Shkel, and M. Thomas Record, Jr PMCID: PMC443526 Variable and conserved elements of human ribosomes surrounding the mRNA at the decoding and upstream sites Dmitri Graifer, Maxim Molotkov, Valentina Styazhkina, Natalia Demeshkina, Konstantin Bulygin, Anna Eremina, Anton Ivanov, Elena Laletina, Aliya Ven'yaminova, and Galina Karpova PMCID: PMC443533 Two distinct domains of the β subunit of Aquifex aeolicus leucyl-tRNA synthetase are involved in tRNA binding as revealed by a three-hybrid selection Yong-Gang Zheng, Hui Wei, Chen Ling, Franck Martin, Gilbert Eriani, and En-Duo Wang PMCID: PMC443541 Efficient downregulation of immunoglobulin μ mRNA with premature translation-termination codons requires the 5′-half of the VDJ exon Marc Bühler, Alexandra Paillusson, and Oliver Mühlemann PMCID: PMC443527 The human Rad9/Rad1/Hus1 damage sensor clamp interacts with DNA polymerase β and increases its DNA substrate utilisation efficiency: implications for DNA repair Magali Toueille, Nazim El-Andaloussi, Isabelle Frouin, Raimundo Freire, Dorothee Funk, Igor Shevelev, Erica Friedrich-Heineken, Giuseppe Villani, Michael O. Hottiger, and Ulrich Hübscher PMCID: PMC443528 Mcp7, a meiosis-specific coiled-coil protein of fission yeast, associates with Meu13 and is required for meiotic recombination Takamune T. Saito, Takahiro Tougan, Takashi Kasama, Daisuke Okuzaki, and Hiroshi Nojima PMCID: PMC443530 Comparative genomics of the methionine metabolism in Gram-positive bacteria: a variety of regulatory systems Dmitry A. Rodionov, Alexey G. Vitreschak, Andrey A. Mironov, and Mikhail S. Gelfand PMCID: PMC443535 Translation initiation with 70S ribosomes: an alternative pathway for leaderless mRNAs Isabella Moll, Go Hirokawa, Michael C. Kiel, Akira Kaji, and Udo Bläsi PMCID: PMC443539 Rna14–Rna15 assembly mediates the RNA-binding capability of Saccharomyces cerevisiae cleavage factor IA Christian G. Noble, Philip A. Walker, Lesley J. Calder, and Ian A. Taylor PMCID: PMC443540 Tissue-specific and imprinted epigenetic modifications of the human NDN gene Jason C. Y. Lau, Meredith L. Hanel, and Rachel Wevrick PMCID: PMC443546 Strain-specific telomere length revealed by single telomere length analysis in Caenorhabditis elegans Iris Cheung, Mike Schertzer, Agnes Baross, Ann M. Rose, Peter M. Lansdorp, and Duncan M. Baird PMCID: PMC443537 A probabilistic model of 3′ end formation in Caenorhabditis elegans Ashwin Hajarnavis, Ian Korf, and Richard Durbin PMCID: PMC443532 The preferred route for the degradation of silencing target RNAs in transgenic plants depends on pre-established silencing conditions Matthew Sanders, Nausicaa Lannoo, Wendy Maddelein, Anna Depicker, Marc Van Montagu, Marc Cornelissen, and John Jacobs PMCID: PMC443538 DNA sequence recognition by an isopropyl substituted thiazole polyamide Peter L. James, Elena E. Merkina, Abedawn I. Khalaf, Colin J. Suckling, Roger D. Waigh, Tom Brown, and Keith R. Fox PMCID: PMC443542 Extending the classification of bacterial transcription factors beyond the helix–turn–helix motif as an alternative approach to discover new cis/trans relationships Sébastien Rigali, Maximilian Schlicht, Paul Hoskisson, Harald Nothaft, Matthias Merzbacher, Bernard Joris, and Fritz Titgemeyer PMCID: PMC443547 RNase P ribozyme inhibits cytomegalovirus replication by blocking the expression of viral capsid proteins Kihoon Kim, Phong Trang, Sean Umamoto, Rong Hai, and Fenyong Liu PMCID: PMC443536 Dimerization specificity of all 67 B-ZIP motifs in Arabidopsis thaliana: a comparison to Homo sapiens B-ZIP motifs Christopher D. Deppmann, Asha Acharya, Vikas Rishi, Barry Wobbes, Sjef Smeekens, Elizabeth J. Taparowsky, and Charles Vinson PMCID: PMC443529 Thermodynamic and structural characterization of 2′-nitrogen-modified RNA duplexes John W. Pham, Ishwar Radhakrishnan, and Erik J. Sontheimer PMCID: PMC443534 Substrate specificities of bacterial and human AlkB proteins Pål Ø. Falnes, Magnar Bjørås, Per Arne Aas, Ottar Sundheim, and Erling Seeberg PMCID: PMC443531 Promoter-binding and repression of PDGFRB by c-Myc are separable activities Daniel Y. L. Mao, Dalia Barsyte-Lovejoy, Cynthia S. W. Ho, John D. Watson, Angelina Stojanova, and Linda Z. Penn PMCID: PMC443544 One recognition sequence, seven restriction enzymes, five reaction mechanisms Darren M. Gowers, Stuart R.W. Bellamy, and Stephen E. Halford PMCID: PMC443551 Regulation of the large (~1000 kb) imprinted murine Ube3a antisense transcript by alternative exons upstream of Snurf/Snrpn Miguel Landers, Daria L. Bancescu, Elodie Le Meur, Claire Rougeulle, Heather Glatt-Deeley, Camilynn Brannan, Françoise Muscatelli, and Marc Lalande PMCID: PMC443545 Binding of phage Φ29 architectural protein p6 to the viral genome: evidence for topological restriction of the phage linear DNA Víctor González-Huici, Martín Alcorlo, Margarita Salas, and José M. Hermoso PMCID: PMC443543 Multiple elements required for translation of plastid atpB mRNA lacking the Shine-Dalgarno sequence Tetsuro Hirose and Masahiro Sugiura PMCID: PMC443550 NAR Methods Online Direct labeling of RNA with multiple biotins allows sensitive expression profiling of acute leukemia class predictor genes Kyle Cole, Vivi Truong, Dale Barone, and Glenn McGall PMCID: PMC443553 Complete release of (5′S)-8,5′-cyclo-2′-deoxyadenosine from dinucleotides, oligodeoxynucleotides and DNA, and direct comparison of its levels in cellular DNA with other oxidatively induced DNA lesions Pawel Jaruga, Jacob Theruvathu, Miral Dizdaroglu, and Philip J. Brooks PMCID: PMC443555 RNAPol-ChIP: a novel application of chromatin immunoprecipitation to the analysis of real-time gene transcription Juan Sandoval, José L. Rodríguez, Gema Tur, Gaetano Serviddio, Javier Pereda, Abdelhalim Boukaba, Juan Sastre, Luis Torres, Luis Franco, and Gerardo López-Rodas PMCID: PMC443558 A GFP-based assay for rapid screening of compounds affecting ARE-dependent mRNA turnover Don Benjamin, Marco Colombi, and Christoph Moroni PMCID: PMC443554 Structural analysis of hepatitis C RNA genome using DNA microarrays María Martell, Carlos Briones, Aránzazu de Vicente, María Piron, Juan I. Esteban, Rafael Esteban, Jaime Guardia, and Jordi Gómez PMCID: PMC443556 A novel 4-base-recognizing RNA cutter that can remove the single 3′ terminal nucleotides from RNA molecules Hiroaki Takaku, Asako Minagawa, Masamichi Takagi, and Masayuki Nashimoto PMCID: PMC443559 Elimination of background recombination: somatic induction of Cre by combined transcriptional regulation and hormone binding affinity Richard Kemp, Heather Ireland, Elizabeth Clayton, Carol Houghton, Louise Howard, and Douglas J. Winton PMCID: PMC443557 A method for cross-species gene expression analysis with high-density oligonucleotide arrays Wan Ji, Wenli Zhou, Keqin Gregg, Nan Yu, Scott Davis, and Sara Davis PMCID: PMC443552 Corrigendum Nucleic Acids Res. 2004; 32(11): 3511. Published online 2004 June 30. doi: 10.1093/nar/gkh679.PMCID: PMC443549 Corrects: Taku Tanaka, et al. Comprehensive search for HNF-1β-regulated genes in mouse hepatoma cells perturbed by transcription regulatory factor-targeted RNAi. Nucleic Acids Res. 2004; 32(9): 2740–2750. Erratum Nucleic Acids Res. 2004; 32(11): 3512. Published online 2004 June 30. doi: 10.1093/nar/gkh678.PMCID: PMC443548 Corrects: Fabien Darfeuille, et al. LNA/DNA chimeric oligomers mimic RNA aptamers targeted to the TAR RNA element of HIV-1. Nucleic Acids Res. 2004; 32(10): 3101–3107. |
