| | Articles The human vitamin D-binding protein gene contains locus control determinants sufficient for autonomous activation in hepatic chromatin Tomoko Hiroki, Young-Han Song, Stephen A. Liebhaber, and Nancy E. Cooke PMCID: PMC1450336 Deoxyribozymes that recode sequence information Jeffrey J. Tabor, Matthew Levy, and Andrew D. Ellington PMCID: PMC1450334 The molecular mechanism of DNA damage recognition by MutS homologs and its consequences for cell death response Freddie R. Salsbury, Jr, Jill E. Clodfelter, Michael B. Gentry, Thomas Hollis, and Karin Drotschmann Scarpinato PMCID: PMC1450329 Crystallographic identification of an ordered C-terminal domain and a second nucleotide-binding site in RecA: new insights into allostery R. Krishna, G. P. Manjunath, P. Kumar, A. Surolia, Nagasuma R. Chandra, K. Muniyappa, and M. Vijayan PMCID: PMC1450331 Structural stabilization of GTP-binding domains in circularly permuted GTPases: Implications for RNA binding Baskaran Anand, Sunil Kumar Verma, and Balaji Prakash PMCID: PMC1450330 Hairpin-induced tRNA-mediated (HITME) recombination in HIV-1 Pavlina Konstantinova, Peter de Haan, Atze T. Das, and Ben Berkhout PMCID: PMC1456326 A sequence motif conserved in diverse nuclear proteins identifies a protein interaction domain utilised for nuclear targeting by human TFIIS Yan Ling, Abigail J. Smith, and Garry T. Morgan PMCID: PMC1450333 The phosphatase activity of mammalian polynucleotide kinase takes precedence over its kinase activity in repair of single strand breaks Caroline J. Dobson and Sarah L. Allinson PMCID: PMC1450335 A clustering property of highly-degenerate transcription factor binding sites in the mammalian genome Chaolin Zhang, Zhenyu Xuan, Stefanie Otto, John R. Hover, Sean R. McCorkle, Gail Mandel, and Michael Q. Zhang PMCID: PMC1456330 Hydroxyproline-based DNA mimics provide an efficient gene silencing in vitro and in vivo Vladimir A. Efimov, Klara R. Birikh, Dmitri B. Staroverov, Sergei A. Lukyanov, Maria B. Tereshina, Andrey G. Zaraisky, and Oksana G. Chakhmakhcheva PMCID: PMC1456331 Homologous recombination prevents methylation-induced toxicity in Escherichia coli Anetta Nowosielska, Stephen A. Smith, Bevin P. Engelward, and M. G. Marinus PMCID: PMC1456334 Mobile D-loops are a preferred substrate for the Bloom's syndrome helicase Csanád Z. Bachrati, Rhona H. Borts, and Ian D. Hickson PMCID: PMC1456333 The trans-silencing capacity of invertedly repeated transgenes depends on their epigenetic state in tobacco Miloslava Fojtová, Annick Bleys, Jana Bedřichová, Helena Van Houdt, Kateřina Křížová, Anna Depicker, and Aleš Kovařík PMCID: PMC1456325 Improved targeting of miRNA with antisense oligonucleotides Scott Davis, Bridget Lollo, Susan Freier, and Christine Esau PMCID: PMC1459537 Genetic effects of oxidative DNA damages: comparative mutagenesis of the imidazole ring-opened formamidopyrimidines (Fapy lesions) and 8-oxo-purines in simian kidney cells M. Abul Kalam, Kazuhiro Haraguchi, Sushil Chandani, Edward L. Loechler, Maasaki Moriya, Marc M. Greenberg, and Ashis K. Basu PMCID: PMC1458282 Involvement of DNA curvature in intergenic regions of prokaryotes Limor Kozobay-Avraham, Sergey Hosid, and Alexander Bolshoy PMCID: PMC1458280 Targeting the dimerization initiation site of HIV-1 RNA with aminoglycosides: from crystal to cell Eric Ennifar, Jean-Christophe Paillart, Anne Bodlenner, Philippe Walter, Jean-Marc Weibel, Anne-Marie Aubertin, Patrick Pale, Philippe Dumas, and Roland Marquet PMCID: PMC1458285 Automated extraction and classification of RNA tertiary structure cyclic motifs Sébastien Lemieux and François Major PMCID: PMC1458283 A novel DNA damage recognition protein in Schizosaccharomyces pombe Steven J. Pearson, Stephen Wharton, Amanda J. Watson, Ghazala Begum, Amna Butt, Nicola Glynn, David M. Williams, Takayuki Shibata, Mauro F. Santibáñez-Koref, and Geoffrey P. Margison PMCID: PMC1458281 The uORF-containing thrombopoietin mRNA escapes nonsense-mediated decay (NMD) Clemens Stockklausner, Stephen Breit, Gabriele Neu-Yilik, Nicole Echner, Matthias W. Hentze, Andreas E. Kulozik, and Niels H. Gehring PMCID: PMC1458284 Oligoribonuclease is a common downstream target of lithium-induced pAp accumulation in Escherichia coli and human cells Undine Mechold, Vasily Ogryzko, Saravuth Ngo, and Antoine Danchin PMCID: PMC1458514 Alu RNP and Alu RNA regulate translation initiation in vitro Julien Häsler and Katharina Strub PMCID: PMC1458521 Kinetics of double-chain reversals bridging contiguous quartets in tetramolecular quadruplexes Jean-Louis Mergny, Anne De Cian, Samir Amrane, and Mateus Webba da Silva PMCID: PMC1458523 Modulation of nucleosome-binding activity of FACT by poly(ADP-ribosyl)ation Jing-Yi Huang, Wei-Hao Chen, Ya-Ling Chang, Hsiao-Ting Wang, Wan-ting Chuang, and Sheng-Chung Lee PMCID: PMC1458519 Telomeres, chromosome instability and cancer Susan M. Bailey and John P. Murnane PMCID: PMC1458522 Detecting uber-operons in prokaryotic genomes Dongsheng Che, Guojun Li, Fenglou Mao, Hongwei Wu, and Ying Xu PMCID: PMC1458513 A periodic pattern of mRNA secondary structure created by the genetic code Svetlana A. Shabalina, Aleksey Y. Ogurtsov, and Nikolay A. Spiridonov PMCID: PMC1458515 Evidence supporting predicted metabolic pathways for Vibrio cholerae: gene expression data and clinical tests Jing Shi, Pedro R. Romero, Gary K. Schoolnik, Alfred M. Spormann, and Peter D. Karp PMCID: PMC1458520 Characterization of long RNA-cleaving deoxyribozymes with short catalytic cores: the effect of excess sequence elements on the outcome of in vitro selection Kenny Schlosser, Jeffrey C.F. Lam, and Yingfu Li PMCID: PMC1458524 Structure and function of negative feedback loops at the interface of genetic and metabolic networks Sandeep Krishna, Anna M. C. Andersson, Szabolcs Semsey, and Kim Sneppen PMCID: PMC1459064 Probing the DNA sequence specificity of Escherichia coli RECA protein Rakhi Rajan, James W. Wisler, and Charles E. Bell PMCID: PMC1459065 Complete DNA sequences of the mitochondrial genomes of the pathogenic yeasts Candida orthopsilosis and Candida metapsilosis: insight into the evolution of linear DNA genomes from mitochondrial telomere mutants Peter Kosa, Matus Valach, Lubomir Tomaska, Kenneth H. Wolfe, and Jozef Nosek PMCID: PMC1459067 Methods Online Genomic analysis of insertion behavior and target specificity of mini-Tn7 and Tn3 transposons in Saccharomyces cerevisiae Michael Seringhaus, Anuj Kumar, John Hartigan, Michael Snyder, and Mark Gerstein PMCID: PMC1450332 A large field CCD system for quantitative imaging of microarrays G. Hamilton, N. Brown, V. Oseroff, B. Huey, R. Segraves, D. Sudar, J. Kumler, D. Albertson, and D. Pinkel PMCID: PMC1456328 Novel method for high throughput DNA methylation marker evaluation using PNA-probe library hybridization and MALDI-TOF detection Philipp Schatz, Jürgen Distler, Kurt Berlin, and Matthias Schuster PMCID: PMC1456329 Design of LNA probes that improve mismatch discrimination Yong You, Bernardo G. Moreira, Mark A. Behlke, and Richard Owczarzy PMCID: PMC1456327 Rapid quantification of DNA methylation through dNMP analysis following bisulfite-PCR Inchul Yang, In Young Park, Sung-Moon Jang, Lian Hua Shi, Hyung-Keun Ku, and Sang-Ryoul Park PMCID: PMC1458279 Phage display mediated immuno-PCR Yong-Chao Guo, Ya-Feng Zhou, Xian-En Zhang, Zhi-Ping Zhang, Yan-Mei Qiao, Li-Jun Bi, Ji-Kai Wen, Mi-Fang Liang, and Ji-Bin Zhang PMCID: PMC1458518 Characterization of RNase R-digested cellular RNA source that consists of lariat and circular RNAs from pre-mRNA splicing Hitoshi Suzuki, Yuhong Zuo, Jinhua Wang, Michael Q. Zhang, Arun Malhotra, and Akila Mayeda PMCID: PMC1458517 Hydroxyl radical footprinting in vivo: mapping macromolecular structures with synchrotron radiation Tadepalli Adilakshmi, Richard A. Lease, and Sarah A. Woodson PMCID: PMC1458516 Corrigendum The proteasomal ATPase complex is required for stress-induced transcription in yeast Rita Sulahian, Stephen Albert Johnston, and Thomas Kodadek PMCID: PMC1459066 Corrects: Rita Sulahian, et al. The proteasomal ATPase complex is required for stress-induced transcription in yeast. Nucleic Acids Res. 2006; 34(5): 1351–1357. Retraction siRNAs generated by recombinant human Dicer induce specific and significant but target site-independent gene silencing in human cells H. Kawasaki, E. Suyama, M. Iyo, and K. Taira PMCID: PMC1456332 Retracts: Hiroaki Kawasaki, et al. siRNAs generated by recombinant human Dicer induce specific and significant but target site-independent gene silencing in human cells. Nucleic Acids Res. 2003 February 1; 31(3): 981–987. |
