Nucleic Acids Research

Articles:

Hiroyuki Kamiya

Mutagenic potentials of damaged nucleic acids produced by reactive oxygen/nitrogen species: approaches using synthetic oligonucleotides and nucleotides: SURVEY AND SUMMARY
Nucl. Acids Res. 2003 31: 517-531; doi:10.1093/nar/gkg137 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

S. Sri Krishna, Indraneel Majumdar, and Nick V. Grishin

Structural classification of zinc fingers: SURVEY AND SUMMARY
Nucl. Acids Res. 2003 31: 532-550; doi:10.1093/nar/gkg161 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Chris S. Schaumburg and Ming Tan

Mutational analysis of the Chlamydia trachomatis dnaK promoter defines the optimal –35 promoter element
Nucl. Acids Res. 2003 31: 551-555; doi:10.1093/nar/gkg150 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Geneviève Dom, Chloë Shaw-Jackson, Christelle Matis, Olivier Bouffioux, Jacques J. Picard, Alain Prochiantz, Marie-Paule Mingeot-Leclercq, Robert Brasseur, and René Rezsohazy

Cellular uptake of Antennapedia Penetratin peptides is a two-step process in which phase transfer precedes a tryptophan-dependent translocation
Nucl. Acids Res. 2003 31: 556-561; doi:10.1093/nar/gkg160 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Anne F. Nichols, Toshiki Itoh, Francesca Zolezzi, Stephanie Hutsell, and Stuart Linn

Basal transcriptional regulation of human damage-specific DNA-binding protein genes DDB1 and DDB2 by Sp1, E2F, N-myc and NF1 elements
Nucl. Acids Res. 2003 31: 562-569; doi:10.1093/nar/gkg152 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Devrim Gozuacik, Mounia Chami, David Lagorce, Jamila Faivre, Yoshiki Murakami, Olivier Poch, Esther Biermann, Rolf Knippers, Christian Bréchot, and Patrizia Paterlini-Bréchot

Identification and functional characterization of a new member of the human Mcm protein family: hMcm8
Nucl. Acids Res. 2003 31: 570-579; doi:10.1093/nar/gkg136 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Assen Marintchev, Michael R. Gryk, and Gregory P. Mullen

Site-directed mutagenesis analysis of the structural interaction of the single-strand-break repair protein, X-ray cross-complementing group 1, with DNA polymerase ß
Nucl. Acids Res. 2003 31: 580-588; doi:10.1093/nar/gkg159 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Mohammed Amarzguioui, Torgeir Holen, Eshrat Babaie, and Hans Prydz

Tolerance for mutations and chemical modifications in a siRNA
Nucl. Acids Res. 2003 31: 589-595; doi:10.1093/nar/gkg147 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Lisa M. Wittenhagen, Marc D. Roy, and Shana O. Kelley

The pathogenic U3271C human mitochondrial tRNA^Leu(UUR) mutation disrupts a fragile anticodon stem
Nucl. Acids Res. 2003 31: 596-601; doi:10.1093/nar/gkg131 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Jianzhi Zhang, Kimberly D. Dyer, and Helene F. Rosenberg

Human RNase 7: a new cationic ribonuclease of the RNase A superfamily
Nucl. Acids Res. 2003 31: 602-607; doi:10.1093/nar/gkg157 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Sylvain de Breyne, Viviane Simonet, Thierry Pelet, and Joseph Curran

Identification of a cis-acting element required for shunt-mediated translational initiation of the Sendai virus Y proteins
Nucl. Acids Res. 2003 31: 608-618; doi:10.1093/nar/gkg143 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Xiaohong Witmer, Raul Alvarez-Venegas, Phillip San-Miguel, Olga Danilevskaya, and Zoya Avramova

Putative subunits of the maize origin of replication recognition complex ZmORC1–ZmORC5
Nucl. Acids Res. 2003 31: 619-628; doi:10.1093/nar/gkg138 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Wen Li, Buyong Ma, and Bruce A. Shapiro

Binding interactions between the core central domain of 16S rRNA and the ribosomal protein S15 determined by molecular dynamics simulations
Nucl. Acids Res. 2003 31: 629-638; doi:10.1093/nar/gkg149 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Becky M. Pickering, Sally A. Mitchell, Joanne R. Evans, and Anne E. Willis

Polypyrimidine tract binding protein and poly r(C) binding protein 1 interact with the BAG-1 IRES and stimulate its activity in vitro and in vivo
Nucl. Acids Res. 2003 31: 639-646; doi:10.1093/nar/gkg146 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Georg Mohr and Alan M. Lambowitz

Putative proteins related to group II intron reverse transcriptase/maturases are encoded by nuclear genes in higher plants
Nucl. Acids Res. 2003 31: 647-652; doi:10.1093/nar/gkg153 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Richard M. R. Coulson and Christos A. Ouzounis

The phylogenetic diversity of eukaryotic transcription
Nucl. Acids Res. 2003 31: 653-660; doi:10.1093/nar/gkg156 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Shota Atsumi, Yoshiya Ikawa, Hideaki Shiraishi, and Tan Inoue

Selections for constituting new RNA–protein interactions in catalytic RNP
Nucl. Acids Res. 2003 31: 661-669; doi:10.1093/nar/gkg140 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Frank Czauderna, Melanie Fechtner, Hüseyin Aygün, Wolfgang Arnold, Anke Klippel, Klaus Giese, and Jörg Kaufmann

Functional studies of the PI(3)-kinase signalling pathway employing synthetic and expressed siRNA
Nucl. Acids Res. 2003 31: 670-682; doi:10.1093/nar/gkg141 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Anna R. Panchenko

Finding weak similarities between proteins by sequence profile comparison
Nucl. Acids Res. 2003 31: 683-689; doi:10.1093/nar/gkg154 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Weidong Chen, Jean Bucaria, David A. Band, Ann Sutton, and Rolf Sternglanz

Enp1, a yeast protein associated with U3 and U14 snoRNAs, is required for pre-rRNA processing and 40S subunit synthesis
Nucl. Acids Res. 2003 31: 690-699; doi:10.1093/nar/gkg145 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Hiroaki Kawasaki and Kazunari Taira

Short hairpin type of dsRNAs that are controlled by tRNA^Val promoter significantly induce RNAi-mediated gene silencing in the cytoplasm of human cells
Nucl. Acids Res. 2003 31: 700-707; doi:10.1093/nar/gkg158 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Shiyue Fang and Donald E. Bergstrom

Fluoride-cleavable biotinylation phosphoramidite for 5'-end-labeling and affinity purification of synthetic oligonucleotides
Nucl. Acids Res. 2003 31: 708-715; doi:10.1093/nar/gkg130 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Masanori Kugita, Akira Kaneko, Yuhei Yamamoto, Yuko Takeya, Tohoru Matsumoto, and Koichi Yoshinaga

The complete nucleotide sequence of the hornwort (Anthoceros formosae) chloroplast genome: insight into the earliest land plants
Nucl. Acids Res. 2003 31: 716-721; doi:10.1093/nar/gkg155 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Sylvie Paulous, Cécile E. Malnou, Yanne M. Michel, Katherine M. Kean, and Andrew M. Borman

Comparison of the capacity of different viral internal ribosome entry segments to direct translation initiation in poly(A)-dependent reticulocyte lysates
Nucl. Acids Res. 2003 31: 722-733; doi:10.1093/nar/gkf695 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Béatrice Tallet-Lopez, Lydia Aldaz-Carroll, Sandrine Chabas, Eric Dausse, Cathy Staedel, and Jean-Jacques Toulmé

Antisense oligonucleotides targeted to the domain IIId of the hepatitis C virus IRES compete with 40S ribosomal subunit binding and prevent in vitro translation
Nucl. Acids Res. 2003 31: 734-742; doi:10.1093/nar/gkg139 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Egle Cesnaviciene, Goda Mitkaite, Kornelijus Stankevicius, Arvydas Janulaitis, and Arvydas Lubys

Esp1396I restriction–modification system: structural organization and mode of regulation
Nucl. Acids Res. 2003 31: 743-749; doi:10.1093/nar/gkg135 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Kevin J. Luebke, Robert P. Balog, and Harold R. Garner

Prioritized selection of oligodeoxyribonucleotide probes for efficient hybridization to RNA transcripts
Nucl. Acids Res. 2003 31: 750-758; doi:10.1093/nar/gkg133 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

C. E. Bullerwell, J. Leigh, L. Forget, and B. F. Lang

A comparison of three fission yeast mitochondrial genomes
Nucl. Acids Res. 2003 31: 759-768; doi:10.1093/nar/gkg134 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Jinshui Fan, Murray N. Schnare, and Robert W. Lee

Characterization of fragmented mitochondrial ribosomal RNAs of the colorless green alga Polytomella parva
Nucl. Acids Res. 2003 31: 769-778; doi:10.1093/nar/gkg144 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Miguel Ángel Reyes-López, Alfonso Méndez-Tenorio, Rogelio Maldonado-Rodríguez, Mitchel J. Doktycz, James T. Fleming, and Kenneth L. Beattie

Fingerprinting of prokaryotic 16S rRNA genes using oligodeoxyribonucleotide microarrays and virtual hybridization
Nucl. Acids Res. 2003 31: 779-789; doi:10.1093/nar/gkg132 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Christian Blouin, Yan Boucher, and Andrew J. Roger

Inferring functional constraints and divergence in protein families using 3D mapping of phylogenetic information
Nucl. Acids Res. 2003 31: 790-797; doi:10.1093/nar/gkg151 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

NAR Methods Online:

Alexei L. Drobyshev, Christine Machka, Marion Horsch, Matthias Seltmann, Volkmar Liebscher, Martin Hrabé de Angelis, and Johannes Beckers

Specificity assessment from fractionation experiments (SAFE): a novel method to evaluate microarray probe specificity based on hybridisation stringencies
Nucl. Acids Res. 2003 31: e1; doi:10.1093/nar/gng001 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Dirk Stach, Oliver J. Schmitz, Stephan Stilgenbauer, Axel Benner, Hartmut Döhner, Manfred Wiessler, and Frank Lyko

Capillary electrophoretic analysis of genomic DNA methylation levels
Nucl. Acids Res. 2003 31: e2; doi:10.1093/nar/gng002 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Henning Wege, Michael S. Chui, Hai T. Le, Julie M. Tran, and Mark A. Zern

SYBR Green real-time telomeric repeat amplification protocol for the rapid quantification of telomerase activity
Nucl. Acids Res. 2002 31: e3; doi:10.1093/nar/gng003 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Chihaya Maesawa, Toru Inaba, Hidetoshi Sato, Sin Iijima, Kaoru Ishida, Masanori Terashima, Ryo Sato, Michihiro Suzuki, Akiko Yashima, Satoshi Ogasawara, Hiroki Oikawa, Nobuhiro Sato, Kazuyoshi Saito, and Tomoyuki Masuda

A rapid biosensor chip assay for measuring of telomerase activity using surface plasmon resonance
Nucl. Acids Res. 2003 31: e4; doi:10.1093/nar/gng004 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Veronika Zabarovska, Alexey S. Kutsenko, Lev Petrenko, Gelena Kilosanidze, Olle Ljungqvist, Elisabeth Norin, Tore Midtvedt, Gösta Winberg, Roland Möllby, Vladimir I. Kashuba, Ingemar Ernberg, and Eugene R. Zabarovsky

NotI passporting to identify species composition of complex microbial systems
Nucl. Acids Res. 2003 31: e5; doi:10.1093/nar/gng005 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Yuguang Zhao, David A. G. Chapman, and Ian M. Jones

Improving baculovirus recombination
Nucl. Acids Res. 2003 31: e6; doi:10.1093/nar/gng006 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

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