| | Articles Identification of functionally relevant histidine residues in the apoptotic nuclease CAD Gregor Meiss, Sebastian Richard Scholz, Christian Korn, Oleg Gimadutdinow, and Alfred Pingoud PMCID: PMC60245 Modelling ion binding to AA platform motifs in RNA: a continuum solvent study including conformational adaptation Carmen Burkhardt and Martin Zacharias PMCID: PMC60250 Characterisation of PAUSE-1, a powerful silencer in the human plasminogen activator inhibitor type 2 gene promoter Steven M. Ogbourne and Toni M. Antalis PMCID: PMC60233 A computational approach to identify genes for functional RNAs in genomic sequences Richard J. Carter, Inna Dubchak, and Stephen R. Holbrook PMCID: PMC60242 PNRC2 is a 16 kDa coactivator that interacts with nuclear receptors through an SH3-binding motif Dujin Zhou and Shiuan Chen PMCID: PMC60244 Crystallographic studies on damaged DNAs IV. N 4-methoxycytosine shows a second face for Watson–Crick base-pairing, leading to purine transition mutagenesis M. Tofazzal Hossain, Tomoko Sunami, Masaru Tsunoda, Takaaki Hikima, Toshiyuki Chatake, Yoshihito Ueno, Akira Matsuda, and Akio Takénaka PMCID: PMC60249 Protein and DNA requirements of the bacteriophage HP1 recombination system: a model for intasome formation Dominic Esposito, Julia S. Thrower, and John J. Scocca PMCID: PMC60247 Nuclear antisense effects of neutral, anionic and cationic oligonucleotide analogs Peter Sazani, Shin-Hong Kang, Martin A. Maier, Changfu Wei, Jennifer Dillman, James Summerton, Muthiah Manoharan, and Ryszard Kole PMCID: PMC60237 Promiscuous patching of broken chromosomes in mammalian cells with extrachromosomal DNA Yunfu Lin and Alan S. Waldman PMCID: PMC60240 Class-1 translation termination factors: invariant GGQ minidomain is essential for release activity and ribosome binding but not for stop codon recognition Alim Seit-Nebi, Ludmila Frolova, Just Justesen, and Lev Kisselev PMCID: PMC60236 PROSPECT improves cis-acting regulatory element prediction by integrating expression profile data with consensus pattern searches Wataru Fujibuchi, John S. J. Anderson, and David Landsman PMCID: PMC60241 Methylation of the nucleobases in RNA oligonucleotides mediates duplex–hairpin conversion Ronald Micura, Werner Pils, Claudia Höbartner, Karl Grubmayr, Marc-Olivier Ebert, and Bernhard Jaun PMCID: PMC115353 A computational scan for U12-dependent introns in the human genome sequence Aaron Levine and Richard Durbin PMCID: PMC60238 An active retrotransposon in Candida albicans Nicholas J. Holton, Timothy J. D. Goodwin, Margaret I. Butler, and Russell T. M. Poulter PMCID: PMC60234 Covalent capture of a human O6-alkylguanine alkyltransferase–DNA complex using N1,O6-ethanoxanthosine, a mechanism-based crosslinker David M. Noll and Neil D. Clarke PMCID: PMC60232 Suppression of sterol 12α-hydroxylase transcription by the short heterodimer partner: insights into the repression mechanism Antonio del Castillo-Olivares and Gregorio Gil PMCID: PMC60248 Specific distribution of the Saccharomyces cerevisiae linker histone homolog HHO1p in the chromatin Ilya Freidkin and Don J. Katcoff PMCID: PMC60231 Psoralen-modified clamp-forming antisense oligonucleotides reduce cellular c-Myc protein expression and B16-F0 proliferation Delisha A. Stewart, Shelia D. Thomas, Charles A. Mayfield, and Donald M. Miller PMCID: PMC60243 New chemically reactive dsDNAs containing single internucleotide monophosphoryldithio links: reactivity of 5′-mercapto-oligodeoxyribonucleotides Valeri G. Metelev, Oxana A. Borisova, Eugene M. Volkov, Tatiana S. Oretskaya, and Nina G. Dolinnaya PMCID: PMC60246 Activation of the human PAX6 gene through the exon 1 enhancer by transcription factors SEF and Sp1 Jessica B. Zheng, Yi-Hong Zhou, Tapati Maity, Warren S.-L. Liao, and Grady F. Saunders PMCID: PMC60230 Identification and characterisation of a developmentally regulated mammalian gene that utilises –1 programmed ribosomal frameshifting Kazuhiro Shigemoto, Jane Brennan, Elizabeth Walls, Christine J. Watson, David Stott, Peter W. J. Rigby, and Alastair D. Reith PMCID: PMC60235 Comparison between CUUG and UUCG tetraloops: thermodynamic stability and structural features analyzed by UV absorption and vibrational spectroscopy Vladimir Baumruk, Catherine Gouyette, Tam Huynh-Dinh, Jian-Sheng Sun, and Mahmoud Ghomi PMCID: PMC60239 NAR Methods Online Sugar additives for MALDI matrices improve signal allowing the smallest nucleotide change (A:T) in a DNA sequence to be resolved Mona Shahgholi, Benjamin A. Garcia, Norman H. L. Chiu, Paul J. Heaney, and Kai Tang PMCID: PMC60251 DNA microarrays with stem–loop DNA probes: preparation and applications Natalia E. Broude, Karen Woodward, Robert Cavallo, Charles R. Cantor, and David Englert PMCID: PMC60252 Quantitative detection of single nucleotide polymorphisms for a pooled sample by a bioluminometric assay coupled with modified primer extension reactions (BAMPER) Guo-hua Zhou, Masao Kamahori, Kazunori Okano, Gao Chuan, Kunio Harada, and Hideki Kambara PMCID: PMC60253 C-SPACE (cleavage-specific amplification of cDNA ends): a novel method of ribozyme-mediated gene identification Martin Krüger, Carmela Beger, Peter J. Welch, Jack R. Barber, and Flossie Wong-Staal PMCID: PMC60254 Molecular indexing of human genomic DNA D. Ross Sibson and Fiona E. M. Gibbs PMCID: PMC60255 |
