| | Survey and Summary Defective splicing, disease and therapy: searching for master checkpoints in exon definition Emanuele Buratti, Marco Baralle, and Francisco E. Baralle PMCID: PMC1524908 Computational identification of transcriptional regulatory elements in DNA sequence Debraj GuhaThakurta PMCID: PMC1524905 Articles Lac repressor hinge flexibility and DNA looping: single molecule kinetics by tethered particle motion Francesco Vanzi, Chiara Broggio, Leonardo Sacconi, and Francesco Saverio Pavone PMCID: PMC1524907 AUG sequences are required to sustain nonsense-codon-mediated suppression of splicing Eyal Kamhi, Galit Yahalom, Gideon Kass, Yael Hacham, Ruth Sperling, and Joseph Sperling PMCID: PMC1524910 Bacterial regulatory networks are extremely flexible in evolution Irma Lozada-Chávez, Sarath Chandra Janga, and Julio Collado-Vides PMCID: PMC1524901 A LexA-related protein regulates redox-sensitive expression of the cyanobacterial RNA helicase, crhR Laura M. Patterson-Fortin, Kimberley R. Colvin, and George W. Owttrim PMCID: PMC1524924 The regulated expression of chimeric tyrosine hydroxylase–insulin transcripts during early development Catalina Hernández-Sánchez, Óscar Bártulos, Ana I. Valenciano, Alicia Mansilla, and Flora de Pablo PMCID: PMC1524912 Genome-wide in silico identification and analysis of cis natural antisense transcripts (cis-NATs) in ten species Yong Zhang, X. Shirley Liu, Qing-Rong Liu, and Liping Wei PMCID: PMC1524920 Synthesis and properties of 4′-ThioDNA: unexpected RNA-like behavior of 4′-ThioDNA Naonori Inoue, Noriaki Minakawa, and Akira Matsuda PMCID: PMC1524900 Identification of 17 Pseudomonas aeruginosa sRNAs and prediction of sRNA-encoding genes in 10 diverse pathogens using the bioinformatic tool sRNAPredict2 Jonathan Livny, Anja Brencic, Stephen Lory, and Matthew K. Waldor PMCID: PMC1524904 Structural polymorphism exhibited by a quasipalindrome present in the locus control region (LCR) of the human β-globin gene cluster Mahima Kaushik and Shrikant Kukreti PMCID: PMC1524902 Differential recruitment of DNA Ligase I and III to DNA repair sites Oliver Mortusewicz, Ulrich Rothbauer, M. Cristina Cardoso, and Heinrich Leonhardt PMCID: PMC1524911 AGMIAL: implementing an annotation strategy for prokaryote genomes as a distributed system K. Bryson, V. Loux, R. Bossy, P. Nicolas, S. Chaillou, M. van de Guchte, S. Penaud, E. Maguin, M. Hoebeke, P. Bessières, and J-F Gibrat PMCID: PMC1524909 SLiMDisc: short, linear motif discovery, correcting for common evolutionary descent Norman E. Davey, Denis C. Shields, and Richard J. Edwards PMCID: PMC1524906 The WD40-repeat protein Pwp1p associates in vivo with 25S ribosomal chromatin in a histone H4 tail-dependent manner Noriyuki Suka, Emiko Nakashima, Kaori Shinmyozu, Masumi Hidaka, and Hisato Jingami PMCID: PMC1524916 Structural parameters affecting the kinetics of RNA hairpin formation J. H. A. Nagel, C. Flamm, I. L. Hofacker, K. Franke, M. H. de Smit, P. Schuster, and C. W. A. Pleij PMCID: PMC1524914 H1 RNA polymerase III promoter-driven expression of an RNA aptamer leads to high-level inhibition of intracellular protein activity Jing Mi, Xiuwu Zhang, Zahid N Rabbani, Yingmiao Liu, Zhen Su, Zeljko Vujaskovic, Christopher D. Kontos, Bruce A. Sullenger, and Bryan M. Clary PMCID: PMC1524923 TAR-RNA recognition by a novel cyclic aminoglycoside analogue Devanathan Raghunathan, Víctor M. Sánchez-Pedregal, Jochen Junker, Claudia Schwiegk, Markus Kalesse, Andreas Kirschning, and Teresa Carlomagno PMCID: PMC1524922 Methods Online Sequence biases in large scale gene expression profiling data Asim S. Siddiqui, Allen D. Delaney, Angelique Schnerch, Obi L. Griffith, Steven J. M. Jones, and Marco A. Marra PMCID: PMC1524917 Multiplex sequencing of paired-end ditags (MS-PET): a strategy for the ultra-high-throughput analysis of transcriptomes and genomes Patrick Ng, Jack J.S. Tan, Hong Sain Ooi, Yen Ling Lee, Kuo Ping Chiu, Melissa J. Fullwood, Kandhadayar G. Srinivasan, Clotilde Perbost, Lei Du, Wing-Kin Sung, Chia-Lin Wei, and Yijun Ruan PMCID: PMC1524903 Genomic DNA functions as a universal external standard in quantitative real-time PCR James J. Yun, Lawrence E. Heisler, Irene I. L. Hwang, Olivia Wilkins, Suzanne K. Lau, Martin Hyrcza, Bamini Jayabalasingham, Jing Jin, JoAnne McLaurin, Ming-Sound Tsao, and Sandy D. Der PMCID: PMC1524913 In vitro selection using a dual RNA library that allows primerless selection Florian Jarosch, Klaus Buchner, and Sven Klussmann PMCID: PMC1524915 An open-access long oligonucleotide microarray resource for analysis of the human and mouse transcriptomes Kévin Le Brigand, Roslin Russell, Chimène Moreilhon, Jean-Marie Rouillard, Bernard Jost, Franck Amiot, Virginie Magnone, Christine Bole-Feysot, Philippe Rostagno, Virginie Virolle, Virginie Defamie, Philippe Dessen, Gary Williams, Paul Lyons, Géraldine Rios, Bernard Mari, Erdogan Gulari, Philippe Kastner, Xavier Gidrol, Tom C. Freeman, and Pascal Barbry PMCID: PMC1524919 Chromosome-wide identification of novel imprinted genes using microarrays and uniparental disomies Reiner Schulz, Trevelyan R. Menheniott, Kathryn Woodfine, Andrew J. Wood, Jonathan D. Choi, and Rebecca J. Oakey PMCID: PMC1524921 A novel and simple method for construction of recombinant adenoviruses Rong Tan, Chunhua Li, Sijing Jiang, and Lixin Ma PMCID: PMC1524918 |
