| | Editorial Editorial Johannes Grillari and William Dynan PMCID: PMC2190702 Molecular Biology Site-directed gene mutation at mixed sequence targets by psoralen-conjugated pseudo-complementary peptide nucleic acids Ki-Hyun Kim, Peter E. Nielsen, and Peter M. Glazer PMCID: PMC2190703 Exploring the sequence space of a DNA aptamer using microarrays Evaldas Katilius, Carole Flores, and Neal W. Woodbury PMCID: PMC2190713 Feedback-regulated poly(ADP-ribosyl)ation by PARP-1 is required for rapid response to DNA damage in living cells Oliver Mortusewicz, Jean-Christophe Amé, Valérie Schreiber, and Heinrich Leonhardt PMCID: PMC2190722 Base excision repair processing of abasic site/single-strand break lesions within clustered damage sites associated with XRCC1 deficiency Sophie Mourgues, Martine E. Lomax, and Peter O’Neill PMCID: PMC2190709 Characterization of the G-quadruplexes in the duplex nuclease hypersensitive element of the PDGF-A promoter and modulation of PDGF-A promoter activity by TMPyP4 Yong Qin, Evonne M. Rezler, Vijay Gokhale, Daekyu Sun, and Laurence H. Hurley PMCID: PMC2190695 Characterization of DNA-binding activity of Zα domains from poxviruses and the importance of the β-wing regions in converting B-DNA to Z-DNA Dong Van Quyen, Sung Chul Ha, Ky Lowenhaupt, Alexander Rich, Kyeong Kyu Kim, and Yang-Gyun Kim PMCID: PMC2190711 RNA Regulatory mechanisms for 3′-end alternative splicing and polyadenylation of the Glial Fibrillary Acidic Protein, GFAP, transcript Jenny Blechingberg, Søren Lykke-Andersen, Torben Heick Jensen, Arne Lund Jørgensen, and Anders Lade Nielsen PMCID: PMC2190720 Characterization of the role of ribonucleases in Salmonella small RNA decay Sandra C. Viegas, Verena Pfeiffer, Alexandra Sittka, Inês J. Silva, Jörg Vogel, and Cecília M. Arraiano PMCID: PMC2190706 Saccharomyces cerevisiae Ebs1p is a putative ortholog of human Smg7 and promotes nonsense-mediated mRNA decay Brian Luke, Claus M. Azzalin, Nele Hug, Anna Deplazes, Matthias Peter, and Joachim Lingner PMCID: PMC2190716 Survey and Summary The ageing mitochondrial genome Kim J. Krishnan, Laura C. Greaves, Amy K. Reeve, and Doug Turnbull PMCID: PMC2190723 Human diseases of telomerase dysfunction: insights into tissue aging Christine Kim Garcia, Woodring E. Wright, and Jerry W. Shay PMCID: PMC2190725 DNA damage, cellular senescence and organismal ageing: causal or correlative? Jian-Hua Chen, C. Nicholes Hales, and Susan E. Ozanne PMCID: PMC2190714 Human telomere, oncogenic promoter and 5′-UTR G-quadruplexes: diverse higher order DNA and RNA targets for cancer therapeutics Dinshaw J. Patel, Anh Tuân Phan, and Vitaly Kuryavyi PMCID: PMC2190718 Poly(ADP-ribosyl)ation in mammalian ageing Sascha Beneke and Alexander Bürkle PMCID: PMC2190698 Changes in DNA repair during aging Vera Gorbunova, Andrei Seluanov, Zhiyong Mao, and Christpher Hine PMCID: PMC2190694 Two faces of p53: aging and tumor suppression Francis Rodier, Judith Campisi, and Dipa Bhaumik PMCID: PMC2190721 Caloric restriction and genomic stability Ahmad R. Heydari, Archana Unnikrishnan, Lisa Ventrella Lucente, and Arlan Richardson PMCID: PMC2190719 Oxidative DNA damage in mild cognitive impairment and late-stage Alzheimer's disease Mark A. Lovell and William R. Markesbery PMCID: PMC2190704 DNA damage in telomeres and mitochondria during cellular senescence: is there a connection? João F. Passos, Gabriele Saretzki, and Thomas von Zglinicki PMCID: PMC2190715 Yeast mother cell-specific ageing, genetic (in)stability, and the somatic mutation theory of ageing Peter Laun, Carlo V. Bruschi, J. Richard Dickinson, Mark Rinnerthaler, Gino Heeren, Richard Schwimbersky, Raphaela Rid, and Michael Breitenbach PMCID: PMC2190697 Human premature aging, DNA repair and RecQ helicases Robert M. Brosh, Jr and Vilhelm A. Bohr PMCID: PMC2190726 DNA replication stress, genome instability and aging William C. Burhans and Martin Weinberger PMCID: PMC2190710 The role of DNA damage repair in aging of adult stem cells Jonathan Kenyon and Stanton L. Gerson PMCID: PMC2190724 Contributions of DNA interstrand cross-links to aging of cells and organisms Johannes Grillari, Hermann Katinger, and Regina Voglauer PMCID: PMC2190700 Multidimensional annotation of the Escherichia coli K-12 genome Peter D. Karp, Ingrid M. Keseler, Alexander Shearer, Mario Latendresse, Markus Krummenacker, Suzanne M. Paley, Ian Paulsen, Julio Collado-Vides, Socorro Gama-Castro, Martin Peralta-Gil, Alberto Santos-Zavaleta, Mónica I. Peñaloza-Spínola, César Bonavides-Martinez, and John Ingraham PMCID: PMC2190727 Genomics The origins and early evolution of DNA mismatch repair genes—multiple horizontal gene transfers and co-evolution Zhenguo Lin, Masatoshi Nei, and Hong Ma PMCID: PMC2190696 Methods Online Lentivirus-mediated antagomir expression for specific inhibition of miRNA function Michaela Scherr, Letizia Venturini, Karin Battmer, Michael Schaller-Schoenitz, Daniel Schaefer, Iris Dallmann, Arnold Ganser, and Matthias Eder PMCID: PMC2190705 STRALCP—structure alignment-based clustering of proteins Adam Zemla, Brian Geisbrecht, Jason Smith, Marisa Lam, Bonnie Kirkpatrick, Mark Wagner, Tom Slezak, and Carol Ecale Zhou PMCID: PMC2190701 Polony analysis of gene expression in ES cells and blastocysts C. Rieger, R. Poppino, R. Sheridan, K. Moley, R. Mitra, and D. Gottlieb PMCID: PMC2190707 Small-scale extracts for the study of nucleotide excision repair and non-homologous end joining Michael B. Smeaton, Paul S. Miller, Gary Ketner, and Les A. Hanakahi PMCID: PMC2190712 Computational Biology Probing potential binding modes of the p53 tetramer to DNA based on the symmetries encoded in p53 response elements Buyong Ma and Arnold J. Levine PMCID: PMC2190717 Nucleic Acid Enzymes Ribonuclease P processes polycistronic tRNA transcripts in Escherichia coli independent of ribonuclease E Bijoy K. Mohanty and Sidney R. Kushner PMCID: PMC2190699 Characterization of the 2′,3′ cyclic phosphodiesterase activities of Clostridium thermocellum polynucleotide kinase-phosphatase and bacteriophage λ phosphatase Niroshika Keppetipola and Stewart Shuman PMCID: PMC2190708 |
