Nucleic Acids Research

Articles:

Niklas Schultz, Elena Lopez, Nasrollah Saleh-Gohari, and Thomas Helleday

Poly(ADP-ribose) polymerase (PARP-1) has a controlling role in homologous recombination
Nucl. Acids Res. 2003 31: 4959-4964; doi:10.1093/nar/gkg703 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Laura Tsujikawa, Michael Weinfield, and Linda J. Reha-Krantz

Differences in replication of a DNA template containing an ethyl phosphotriester by T4 DNA polymerase and Escherichia coli DNA polymerase I
Nucl. Acids Res. 2003 31: 4965-4972; doi:10.1093/nar/gkg722 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Alexandra Boutla, Christos Delidakis, and Martin Tabler

Developmental defects by antisense-mediated inactivation of micro-RNAs 2 and 13 in Drosophila and the identification of putative target genes
Nucl. Acids Res. 2003 31: 4973-4980; doi:10.1093/nar/gkg707 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Denise R. Clark, Wolfgang Zacharias, Luminita Panaitescu, and W. Glenn McGregor

Ribozyme-mediated REV1 inhibition reduces the frequency of UV-induced mutations in the human HPRT gene
Nucl. Acids Res. 2003 31: 4981-4988; doi:10.1093/nar/gkg725 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

O. V. Matveeva, D. H. Mathews, A. D. Tsodikov, S. A. Shabalina, R. F. Gesteland, J. F. Atkins, and S. M. Freier

Thermodynamic criteria for high hit rate antisense oligonucleotide design
Nucl. Acids Res. 2003 31: 4989-4994; doi:10.1093/nar/gkg710 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Stephanie S.-I Tseng-Rogenski, Jean-Leon Chong, Christopher B. Thomas, Shinichiro Enomoto, Judith Berman, and Tien-Hsien Chang

Functional conservation of Dhh1p, a cytoplasmic DExD/H-box protein present in large complexes
Nucl. Acids Res. 2003 31: 4995-5002; doi:10.1093/nar/gkg712 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Geneviève Girard, Andreas Roussis, Alexander P. Gultyaev, Cornelis W. A. Pleij, and Herman P. Spaink

Structural motifs in the RNA encoded by the early nodulation gene enod40 of soybean
Nucl. Acids Res. 2003 31: 5003-5015; doi:10.1093/nar/gkg721 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Neelima Mondal, Ye Zhang, Zophonias Jonsson, Suman Kumar Dhar, Madhu Kannapiran, and Jeffrey D. Parvin

Elongation by RNA polymerase II on chromatin templates requires topoisomerase activity
Nucl. Acids Res. 2003 31: 5016-5024; doi:10.1093/nar/gkg705 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Brett Beitzel and Frederic Bushman

Construction and analysis of cells lacking the HMGA gene family
Nucl. Acids Res. 2003 31: 5025-5032; doi:10.1093/nar/gkg684 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Daniel Boden, Oliver Pusch, Fredrick Lee, Lynne Tucker, Peter R. Shank, and Bharat Ramratnam

Promoter choice affects the potency of HIV-1 specific RNA interference
Nucl. Acids Res. 2003 31: 5033-5038; doi:10.1093/nar/gkg704 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Heike L. Garstka, Wolfgang E. Schmitt, Jeanette Schultz, Bettina Sogl, Barbara Silakowski, Acisclo Pérez-Martos, Julio Montoya, and Rudolf J. Wiesner

Import of mitochondrial transcription factor A (TFAM) into rat liver mitochondria stimulates transcription of mitochondrial DNA
Nucl. Acids Res. 2003 31: 5039-5047; doi:10.1093/nar/gkg717 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Michael J. Moser and James R. Prudent

Enzymatic repair of an expanded genetic information system
Nucl. Acids Res. 2003 31: 5048-5053; doi:10.1093/nar/gkg709 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Tatsuya Kibe, Kazunori Tomita, Akira Matsuura, Daisuke Izawa, Tsutomu Kodaira, Takashi Ushimaru, Masahiro Uritani, and Masaru Ueno

Fission yeast Rhp51 is required for the maintenance of telomere structure in the absence of the Ku heterodimer
Nucl. Acids Res. 2003 31: 5054-5063; doi:10.1093/nar/gkg718 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Peter Meister, Mickaël Poidevin, Stefania Francesconi, Isabelle Tratner, Patrick Zarzov, and Giuseppe Baldacci

Nuclear factories for signalling and repairing DNA double strand breaks in living fission yeast
Nucl. Acids Res. 2003 31: 5064-5073; doi:10.1093/nar/gkg719 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Maria A. Xaplanteri, Athanasios Andreou, George P. Dinos, and Dimitrios L. Kalpaxis

Effect of polyamines on the inhibition of peptidyltransferase by antibiotics: revisiting the mechanism of chloramphenicol action
Nucl. Acids Res. 2003 31: 5074-5083; doi:10.1093/nar/gkg686 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Greg L. Olsen, Elizabeth A. Louie, Gary P. Drobny, and Snorri Th. Sigurdsson

Determination of DNA minor groove width in distamycin-DNA complexes by solid-state NMR
Nucl. Acids Res. 2003 31: 5084-5089; doi:10.1093/nar/gkg720 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Mark Odell, Lucy Malinina, Verl Sriskanda, Marianna Teplova, and Stewart Shuman

Analysis of the DNA joining repertoire of Chlorella virus DNA ligase and a new crystal structure of the ligase–adenylate intermediate
Nucl. Acids Res. 2003 31: 5090-5100; doi:10.1093/nar/gkg665 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Besik I. Kankia

Mg²⁺-induced triplex formation of an equimolar mixture of poly(rA) and poly(rU)
Nucl. Acids Res. 2003 31: 5101-5107; doi:10.1093/nar/gkg698 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Xiang-Jun Lu and Wilma K. Olson

3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures
Nucl. Acids Res. 2003 31: 5108-5121; doi:10.1093/nar/gkg680 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Jason D. Marshall, Edith M. Hessel, Josh Gregorio, Christina Abbate, Priscilla Yee, Mabel Chu, Gary Van Nest, Robert L. Coffman, and Karen L. Fearon

Novel chimeric immunomodulatory compounds containing short CpG oligodeoxyribonucleotides have differential activities in human cells
Nucl. Acids Res. 2003 31: 5122-5133; doi:10.1093/nar/gkg700 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Jeff M. Zimmerman and L. James Maher III

Solution measurement of DNA curvature in papillomavirus E2 binding sites
Nucl. Acids Res. 2003 31: 5134-5139; doi:10.1093/nar/gkg697 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Teresa Corona, Qiuye Bao, Nicole Christ, Thomas Schwartz, Jinming Li, and Peter Dröge

Activation of site-specific DNA integration in human cells by a single chain integration host factor
Nucl. Acids Res. 2003 31: 5140-5148; doi:10.1093/nar/gkg711 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Sara Richter, Barbara Gatto, Daniele Fabris, Ken-ichi Takao, Susumu Kobayashi, and Manlio Palumbo

Clerocidin alkylates DNA through its epoxide function: evidence for a fine tuned mechanism of action
Nucl. Acids Res. 2003 31: 5149-5156; doi:10.1093/nar/gkg696 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Jingfang Ju, Chunli Huang, Stacey A. Minskoff, Jane E. Mayotte, Bruce E. Taillon, and Jan F. Simons

Simultaneous gene expression analysis of steady-state and actively translated mRNA populations from osteosarcoma MG-63 cells in response to IL-1 via an open expression analysis platform
Nucl. Acids Res. 2003 31: 5157-5166; doi:10.1093/nar/gkg702 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Bechan Sharma, Neerja Kaushik, Alok Upadhyay, Snehlata Tripathi, Kamalendra Singh, and Virendra N. Pandey

A positively charged side chain at position 154 on the ß8–E loop of HIV-1 RT is required for stable ternary complex formation
Nucl. Acids Res. 2003 31: 5167-5174; doi:10.1093/nar/gkg708 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Sun Yong Jeong, Annkatrin Rose, and Iris Meier

MFP1 is a thylakoid-associated, nucleoid-binding protein with a coiled-coil structure
Nucl. Acids Res. 2003 31: 5175-5185; doi:10.1093/nar/gkg693 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Hendrik Huthoff, Katarzyna Bugala, Jan Barciszewski, and Ben Berkhout

On the importance of the primer activation signal for initiation of tRNA^lys3-primed reverse transcription of the HIV-1 RNA genome
Nucl. Acids Res. 2003 31: 5186-5194; doi:10.1093/nar/gkg714 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Yoshihito Niimura, Mahito Terabe, Takashi Gojobori, and Kin-ichiro Miura

Comparative analysis of the base biases at the gene terminal portions in seven eukaryote genomes
Nucl. Acids Res. 2003 31: 5195-5201; doi:10.1093/nar/gkg701 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Isabelle Salles-Passador, Anil Munshi, Dominique Cannella, Vincent Pennaneach, Stephane Koundrioukoff, Michel Jaquinod, Eric Forest, Vladimir Podust, Arun Fotedar, and Rati Fotedar

Phosphorylation of the PCNA binding domain of the large subunit of replication factor C on Thr⁵⁰⁶ by cyclin-dependent kinases regulates binding to PCNA
Nucl. Acids Res. 2003 31: 5202-5211; doi:10.1093/nar/gkg692 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Alexander E. Vinogradov

Isochores and tissue-specificity
Nucl. Acids Res. 2003 31: 5212-5220; doi:10.1093/nar/gkg699 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

NAR Methods Online:

Xu Gang Xia, Hongxia Zhou, Hongliu Ding, El Bashir Affar, Yang Shi, and Zuoshang Xu

An enhanced U6 promoter for synthesis of short hairpin RNA
Nucl. Acids Res. 2003 31: e100; doi:10.1093/nar/gng098 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Kari J. Airenne, Erik Peltomaa, Vesa P. Hytönen, Olli H. Laitinen, and Seppo Ylä-Herttuala

Improved generation of recombinant baculovirus genomes in Escherichia coli
Nucl. Acids Res. 2003 31: e101; doi:10.1093/nar/gng102 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Dieter Hüsken, Fred Asselbergs, Bernd Kinzel, Francois Natt, Jan Weiler, Pierre Martin, Robert Häner, and Jonathan Hall

mRNA fusion constructs serve in a general cell-based assay to profile oligonucleotide activity
Nucl. Acids Res. 2003 31: e102; doi:10.1093/nar/gng103 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Johan Banér, Anders Isaksson, Erik Waldenström, Jonas Jarvius, Ulf Landegren, and Mats Nilsson

Parallel gene analysis with allele-specific padlock probes and tag microarrays
Nucl. Acids Res. 2003 31: e103; doi:10.1093/nar/gng104 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Jun Nakamura, Shoji Asakura, Susan D. Hester, Gilbert de Murcia, Keith W. Caldecott, and James A. Swenberg

Quantitation of intracellular NAD(P)H can monitor an imbalance of DNA single strand break repair in base excision repair deficient cells in real time
Nucl. Acids Res. 2003 31: e104; doi:10.1093/nar/gng105 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Tzachi Bar, Anders Ståhlberg, Anders Muszta, and Mikael Kubista

Kinetic Outlier Detection (KOD) in real-time PCR
Nucl. Acids Res. 2003 31: e105; doi:10.1093/nar/gng106 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Lisa Herron-Olson, John Freeman, Qing Zhang, Ernest F. Retzel, and Vivek Kapur

MGView: an alignment and visualization tool to enhance gap closure of microbial genomes
Nucl. Acids Res. 2003 31: e106; doi:10.1093/nar/gng107 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

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