| | Articles SURVEY AND SUMMARY: The pre-ribosomal network Philipp Milkereit, Holger Kühn, Nicole Gas, and Herbert Tschochner PMCID: PMC149187 SURVEY AND SUMMARY: Conservation of structure and function among tyrosine recombinases: homology-based modeling of the lambda integrase core-binding domain Brian M. Swalla, Richard I. Gumport, and Jeffrey F. Gardner PMCID: PMC149183 Site-specific protein modification to identify the MutL interface of MutH Grischa H. Toedt, Ravi Krishnan, and Peter Friedhoff PMCID: PMC149211 Genetic requirements for the targeted integration of Agrobacterium T-DNA in Saccharomyces cerevisiae Haico van Attikum and Paul J. J. Hooykaas PMCID: PMC149203 Selective inhibition of transcription of the Ets2 gene in prostate cancer cells by a triplex-forming oligonucleotide Giuseppina M. Carbone, Eileen M. McGuffie, Angela Collier, and Carlo V. Catapano PMCID: PMC149218 Crystal structure of the complementary quadruplex formed by d(GCATGCT) at atomic resolution James H. Thorpe, Susana C. M. Teixeira, Benjamin C. Gale, and Christine J. Cardin PMCID: PMC149190 Does the HIV-1 primer activation signal interact with tRNA3Lys during the initiation of reverse transcription? Valérie Goldschmidt, Chantal Ehresmann, Bernard Ehresmann, and Roland Marquet PMCID: PMC149207 Analysis of Vir protein translocation from Agrobacterium tumefaciens using Saccharomyces cerevisiae as a model: evidence for transport of a novel effector protein VirE3 Barbara Schrammeijer, Amke den Dulk-Ras, Annette C. Vergunst, Esmeralda Jurado Jácome, and Paul J. J. Hooykaas PMCID: PMC149200 Binding of L7Ae protein to the K-turn of archaeal snoRNAs: a shared RNA binding motif for C/D and H/ACA box snoRNAs in Archaea Timofey S. Rozhdestvensky, Thean Hock Tang, Inna V. Tchirkova, Jürgen Brosius, Jean-Pierre Bachellerie, and Alexander Hüttenhofer PMCID: PMC149196 Novel mitosis-specific phosphorylation of histone H3 at Thr11 mediated by Dlk/ZIP kinase Ute Preuss, Gerd Landsberg, and Karl Heinz Scheidtmann PMCID: PMC149197 Infection by Mycoplasma hyorhinis strongly enhances uptake of antisense oligonucleotides: a reassessment of receptor-mediated endocytosis in the HepG2 cell line Philippe de Diesbach, Francisca N’Kuli, Michel Delmée, and Pierre J. Courtoy PMCID: PMC149201 Sir2p suppresses recombination of replication forks stalled at the replication fork barrier of ribosomal DNA in Saccharomyces cerevisiae Alberto Benguría, Pablo Hernández, Dora B. Krimer, and Jorge B. Schvartzman PMCID: PMC149208 DNA pairing is an important step in the process of targeted nucleotide exchange Miya D. Drury and Eric B. Kmiec PMCID: PMC149193 Early growth response proteins (EGR) and nuclear factors of activated T cells (NFAT) form heterodimers and regulate proinflammatory cytokine gene expression Eva L. Decker, Nina Nehmann, Eva Kampen, Hermann Eibel, Peter F. Zipfel, and Christine Skerka PMCID: PMC149206 Cloning of human centromeres by transformation-associated recombination in yeast and generation of functional human artificial chromosomes N. Kouprina, T. Ebersole, M. Koriabine, E. Pak, I. B. Rogozin, M. Katoh, M. Oshimura, K. Ogi, M. Peredelchuk, G. Solomon, W. Brown, J. C. Barrett, and V. Larionov PMCID: PMC149202 New role of zCRY and zPER2 as regulators of sub-cellular distributions of zCLOCK and zBMAL proteins Jun Hirayama, Itsuki Fukuda, Tomoko Ishikawa, Yuri Kobayashi, and Takeshi Todo PMCID: PMC149195 Improving the performance of DomainParser for structural domain partition using neural network Jun-tao Guo, Dong Xu, Dongsup Kim, and Ying Xu PMCID: PMC149209 In vivo tumor growth inhibition and biodistribution studies of locked nucleic acid (LNA) antisense oligonucleotides Kees Fluiter, Anneloor L. M. A. ten Asbroek, Marit B. de Wissel, Marja E. Jakobs, Margit Wissenbach, Håkan Olsson, Otto Olsen, Henrik Oerum, and Frank Baas PMCID: PMC149205 Functional consequences of mutations in the conserved SF2 motifs and post-translational phosphorylation of the CSB protein Mette Christiansen, Tinna Stevnsner, Charlotte Modin, Pia M. Martensen, Robert M. Brosh, Jr, and Vilhelm A. Bohr PMCID: PMC149186 Taq DNA polymerase slippage mutation rates measured by PCR and quasi-likelihood analysis: (CA/GT)n and (A/T)n microsatellites Deepali Shinde, Yinglei Lai, Fengzhu Sun, and Norman Arnheim PMCID: PMC149199 siRNAs generated by recombinant human Dicer induce specific and significant but target site-independent gene silencing in human cells Hiroaki Kawasaki, Eigo Suyama, Mayu Iyo, and Kazunari Taira PMCID: PMC149204 A Mini-RNA containing the tetraloop, wobble-pair and loop E motifs of the central conserved region of potato spindle tuber viroid is processed into a minicircle O. Schrader, T. Baumstark, and D. Riesner PMCID: PMC149213 The FCP1 phosphatase interacts with RNA polymerase II and with MEP50 a component of the methylosome complex involved in the assembly of snRNP Paolo Licciardo, Stefano Amente, Luca Ruggiero, Maria Monti, Piero Pucci, Luigi Lania, and Barbara Majello PMCID: PMC149217 Stimulation of D-loop formation by polypurine/polypyrimidine sequences Elodie Biet, Jian-Sheng Sun, and Marie Dutreix PMCID: PMC149215 Genome instability in rad54 mutants of Saccharomyces cerevisiae Jacqueline Schmuckli-Maurer, Michael Rolfsmeier, Ho Nguyen, and Wolf-Dietrich Heyer PMCID: PMC149210 Ribonuclease inhibitor as an intracellular sentry Marcia C. Haigis, Erin L. Kurten, and Ronald T. Raines PMCID: PMC149185 Identification of pseudogenes in the Drosophila melanogaster genome Paul M. Harrison, Duncan Milburn, Zhaolei Zhang, Paul Bertone, and Mark Gerstein PMCID: PMC149191 Synapsis and strand exchange in the resolution and DNA inversion reactions catalysed by the β recombinase Inés Canosa, Gema López, Fernando Rojo, Martin R. Boocock, and Juan C. Alonso PMCID: PMC149188 Stability of 2′-deoxyxanthosine in DNA Viengsai Vongchampa, Min Dong, Lakshman Gingipalli, and Peter Dedon PMCID: PMC149198 Mismatch repair activity in mammalian mitochondria Penelope A. Mason, Elizabeth C. Matheson, Andrew G. Hall, and Robert N. Lightowlers PMCID: PMC149189 DNA curvature at A tracts containing a non-polar thymine mimic Angèle Maki, Floyd E. Brownewell, Dongyu Liu, and Eric T. Kool PMCID: PMC149194 A novel algorithm for computational identification of contaminated EST libraries Rotem Sorek and Hershel M. Safer PMCID: PMC149192 Biopolymer Chain Elasticity: a novel concept and a least deformation energy principle predicts backbone and overall folding of DNA TTT hairpins in agreement with NMR distances Christophe Pakleza and Jean A. H. Cognet PMCID: PMC149214 DNA tri- and tetra-loops and RNA tetra-loops hairpins fold as elastic biopolymer chains in agreement with PDB coordinates Guillaume P. H. Santini, Christophe Pakleza, and Jean A. H. Cognet PMCID: PMC149216 Reciprocal regulation of expression of the human adenosine 5′-triphosphate binding cassette, sub-family A, transporter 2 (ABCA2) promoter by the early growth response-1 (EGR-1) and Sp-family transcription factors Warren Davis, Jr, Zhijian J. Chen, Kristina E. Ile, and Kenneth D. Tew PMCID: PMC149212 Small worlds in RNA structures Stefan Wuchty PMCID: PMC149184 NAR Methods Online Single base extension (SBE) with proofreading polymerases and phosphorothioate primers: improved fidelity in single-substrate assays Daniel Di Giusto and Garry C. King PMCID: PMC149219 Efficient incorporation of CoA, NAD and FAD into RNA by in vitro transcription Faqing Huang PMCID: PMC149220 Single primer amplification (SPA) of cDNA for microarray expression analysis Lee Smith, Peter Underhill, Clare Pritchard, Zuzanna Tymowska-Lalanne, Saba Abdul-Hussein, Helen Hilton, Laura Winchester, Deborah Williams, Tom Freeman, Sarah Webb, and Andy Greenfield PMCID: PMC149221 Design of artificial transcription factors to selectively regulate the pro-apoptotic bax gene D. Falke, M. Fisher, D. Ye, and R. L. Juliano PMCID: PMC149222 TAMS technology for simple and efficient in vitro site-directed mutagenesis and mutant screening Lei Young and Qihan Dong PMCID: PMC149223 |
