| | Articles SURVEY AND SUMMARY: Difference in conformational diversity between nucleic acids with a six-membered ‘sugar’ unit and natural ‘furanose’ nucleic acids Eveline Lescrinier, Matheus Froeyen, and Piet Herdewijn PMCID: PMC162241 Human activation-induced cytidine deaminase causes transcription-dependent, strand-biased C to U deaminations Anjum Sohail, Joanna Klapacz, Mala Samaranayake, Asad Ullah, and Ashok S. Bhagwat PMCID: PMC162340 Genomic DNA of Nostoc commune (Cyanobacteria) becomes covalently modified during long-term (decades) desiccation but is protected from oxidative damage and degradation Breanne Shirkey, Nicole J. McMaster, Sue C. Smith, Deborah J. Wright, Henry Rodriguez, Pawel Jaruga, Mustafa Birincioglu, Richard F. Helm, and Malcolm Potts PMCID: PMC162238 Bimodal interaction between replication-protein A and Dna2 is critical for Dna2 function both in vivo and in vitro Kwang-Hee Bae, Hee-Sook Kim, Sung-Ho Bae, Ho-Young Kang, Steven Brill, and Yeon-Soo Seo PMCID: PMC162255 Identification of novel co-repressor molecules for Interferon Regulatory Factor-2 Kay S. Childs and Stephen Goodbourn PMCID: PMC162335 A DNA Spiegelmer to staphylococcal enterotoxin B Werner G. Purschke, Falko Radtke, Frank Kleinjung, and Sven Klussmann PMCID: PMC162247 Yeast Ume6p repressor permits activator binding but restricts TBP binding at the HOP1 promoter Mitsuhiro Shimizu, Keiko Takahashi, Teresa M. Lamb, Heisaburo Shindo, and Aaron P. Mitchell PMCID: PMC162329 The C-terminal domain of Escherichia coli MutY is involved in DNA binding and glycosylase activities Lina Li and A-Lien Lu PMCID: PMC162338 Single-chain Tet transregulators Christel Krueger, Christian Berens, Andreas Schmidt, Dirk Schnappinger, and Wolfgang Hillen PMCID: PMC162254 OligoArray 2.0: design of oligonucleotide probes for DNA microarrays using a thermodynamic approach Jean-Marie Rouillard, Michael Zuker, and Erdogan Gulari PMCID: PMC162330 Specific interaction of heterogeneous nuclear ribonucleoprotein A1 with the –219T allelic form modulates APOE promoter activity Mónica Campillos, José Ramón Lamas, Miguel Angel García, María Jesús Bullido, Fernando Valdivieso, and Jesús Vázquez PMCID: PMC162339 The nicking homing endonuclease I-BasI is encoded by a group I intron in the DNA polymerase gene of the Bacillus thuringiensis phage Bastille Markus Landthaler and David A. Shub PMCID: PMC162337 DNA sequence representation without degeneracy Stephen S. -T. Yau, Jiasong Wang, Amir Niknejad, Chaoxiao Lu, Ning Jin, and Yee-Kin Ho PMCID: PMC162336 Sequence analysis of three mitochondrial DNA molecules reveals interesting differences among Saccharomyces yeasts R. B. Langkjær, S. Casaregola, D. W. Ussery, C. Gaillardin, and J. Piškur PMCID: PMC162263 Cc RNase: the Ceratitis capitata ortholog of a novel highly conserved protein family in metazoans Theodoros N. Rampias, Diamantis C. Sideris, and Emmanuel G. Fragoulis PMCID: PMC162248 Transcription of mouse DNA methyltransferase 1 (Dnmt1) is regulated by both E2F-Rb-HDAC-dependent and -independent pathways Hiromichi Kimura, Takahisa Nakamura, Tomoya Ogawa, Satoshi Tanaka, and Kunio Shiota PMCID: PMC162240 The SV40 T antigen modulates CBP histone acetyltransferase activity Ester Valls, Xavier de la Cruz, and Marian A. Martínez-Balbás PMCID: PMC162251 Histone deacetylase inhibition is associated with transcriptional repression of the Hmga2 gene Mark Ferguson, Patricia A. Henry, and R. Alexander Currie PMCID: PMC162237 Inter-strand photoproducts are produced in high yield within A-DNA exposed to UVC radiation Thierry Douki, Grégory Laporte, and Jean Cadet PMCID: PMC162242 Inactivation of the nod box distal half-site allows tetrameric NodD to activate nodA transcription in an inducer-independent manner Jie Feng, Qiang Li, Hai-Liang Hu, Xiao-Chun Chen, and Guo-Fan Hong PMCID: PMC162245 The Upf-dependent decay of wild-type PPR1 mRNA depends on its 5′-UTR and first 92 ORF nucleotides B. Kebaara, T. Nazarenus, R. Taylor, A. Forch, and A. L. Atkin PMCID: PMC162334 Characterization of the 2′–5′-oligoadenylate synthetase ubiquitin-like family Signe Eskildsen, Just Justesen, Mikkel Heide Schierup, and Rune Hartmann PMCID: PMC162331 Ribosomes stalling on uORF1 in the Xenopus Cx41 5′ UTR inhibit downstream translation initiation Hedda A. Meijer and Adri A. M. Thomas PMCID: PMC162333 Comparison of different antisense strategies in mammalian cells using locked nucleic acids, 2′-O-methyl RNA, phosphorothioates and small interfering RNA Arnold Grünweller, Eliza Wyszko, Birgit Bieber, Ricarda Jahnel, Volker A. Erdmann, and Jens Kurreck PMCID: PMC162243 Alternatively spliced isoforms of the human constitutive androstane receptor Scott S. Auerbach, Richard Ramsden, Matthew A. Stoner, Christophe Verlinde, Christopher Hassett, and Curtis J. Omiecinski PMCID: PMC162252 Canonical nucleosides can be utilized by T4 DNA ligase as universal template bases at ligation junctions Rashada C. Alexander, Ashley K. Johnson, Jeffrey A. Thorpe, Travis Gevedon, and Stephen M. Testa PMCID: PMC162249 N-terminus of hMLH1 confers interaction of hMutLα and hMutLβ with hMutSα Guido Plotz, Jochen Raedle, Angela Brieger, Jörg Trojan, and Stefan Zeuzem PMCID: PMC162253 Peptidyl-tRNA hydrolase from Sulfolobus solfataricus Michel Fromant, Maria-Laura Ferri-Fioni, Pierre Plateau, and Sylvain Blanquet PMCID: PMC162332 The acidic C-terminal domain and A-box of HMGB-1 regulates p53-mediated transcription Sourav Banerjee and Tapas K. Kundu PMCID: PMC162246 Stimulation of Tat-independent transcriptional processivity from the HIV-1 LTR promoter by matrix attachment regions Shravanti Rampalli, Asavari Kulkarni, Pavan Kumar, Devraj Mogare, Sanjeev Galande, Debashis Mitra, and Samit Chattopadhyay PMCID: PMC162244 Nuclear matrix association of the human β-globin locus utilizing a novel approach to quantitative real-time PCR G. Charles Ostermeier, Zhandong Liu, Rui Pires Martins, Rikki R. Bharadwaj, James Ellis, Sorin Draghici, and Stephen A. Krawetz PMCID: PMC162328 Triplex formation with 2′-O,4′-C-ethylene-bridged nucleic acids (ENA) having C3′-endo conformation at physiological pH Makoto Koizumi, Koji Morita, Makiko Daigo, Shinya Tsutsumi, Koji Abe, Satoshi Obika, and Takeshi Imanishi PMCID: PMC162250 DNA binding properties of the adenovirus DNA replication priming protein pTP R. N. de Jong, L. A. T. Meijer, and P. C. van der Vliet PMCID: PMC162239 NAR Methods Online Optimization of high-density cDNA-microarray protocols by ‘design of experiments’ Gunnar Wrobel, Joerg Schlingemann, Lars Hummerich, Heidi Kramer, Peter Lichter, and Meinhard Hahn PMCID: PMC162342 T-linker-specific ligation PCR (T-linker PCR): an advanced PCR technique for chromosome walking or for isolation of tagged DNA ends Yan Yuanxin, An Chengcai, Li Li, Gu Jiayu, Tan Guihong, and Chen Zhangliang PMCID: PMC162343 Conditional human VEGF-mediated vascularization in chicken embryos using a novel temperature-inducible gene regulation (TIGR) system Wilfried Weber, René R. Marty, Nils Link, Martin Ehrbar, Bettina Keller, Cornelia C. Weber, Andreas H. Zisch, Christoph Heinzen, Valentin Djonov, and Martin Fussenegger PMCID: PMC162344 Erratum Nucleic Acids Res. 2003 June 15; 31(12): 3287. PMCID: PMC162341 Corrects: Karen A. Bunting, et al. Crystal structure of the Escherichia coli dcm very-short-patch DNA repair endonuclease bound to its reaction product-site in a DNA superhelix. Nucleic Acids Res. 2003 March 15; 31(6): 1633–1639. |
