Nucleic Acids Research

Articles:

Richard J. Roberts, Marlene Belfort, Timothy Bestor, Ashok S. Bhagwat, Thomas A. Bickle, Jurate Bitinaite, Robert M. Blumenthal, Sergey Kh. Degtyarev, David T. F. Dryden, Kevin Dybvig, Keith Firman, Elizaveta S. Gromova, Richard I. Gumport, Stephen E. Halford, Stanley Hattman, Joseph Heitman, David P. Hornby, Arvydas Janulaitis, Albert Jeltsch, Jytte Josephsen, Antal Kiss, Todd R. Klaenhammer, Ichizo Kobayashi, Huimin Kong, Detlev H. Krüger, Sanford Lacks, Martin G. Marinus, Michiko Miyahara, Richard D. Morgan, Noreen E. Murray, Valakunja Nagaraja, Andrzej Piekarowicz, Alfred Pingoud, Elisabeth Raleigh, Desirazu N. Rao, Norbert Reich, Vladimir E. Repin, Eric U. Selker, Pang-Chui Shaw, Daniel C. Stein, Barry L. Stoddard, Waclaw Szybalski, Thomas A. Trautner, James L. Van Etten, Jorge M. B. Vitor, Geoffrey G. Wilson, and Shuang-yong Xu

A nomenclature for restriction enzymes, DNA methyltransferases, homing endonucleases and their genes
Nucl. Acids Res. 2003 31: 1805-1812; doi:10.1093/nar/gkg274 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Ruth Hershberg, Shoshy Altuvia, and Hanah Margalit

A survey of small RNA-encoding genes in Escherichia coli
Nucl. Acids Res. 2003 31: 1813-1820; doi:10.1093/nar/gkg297 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Jeremy A. Bruenn

A structural and primary sequence comparison of the viral RNA-dependent RNA polymerases
Nucl. Acids Res. 2003 31: 1821-1829; doi:10.1093/nar/gkg277 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Ai-Min Li, Alice Watson, and Judith L. Fridovich-Keil

Scp160p associates with specific mRNAs in yeast
Nucl. Acids Res. 2003 31: 1830-1837; doi:10.1093/nar/gkg284 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Alexander E. Vinogradov

DNA helix: the importance of being GC-rich
Nucl. Acids Res. 2003 31: 1838-1844; doi:10.1093/nar/gkg296 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Cinzia Puppin, Angela V. D’Elia, Lucia Pellizzari, Diego Russo, Franco Arturi, Ivan Presta, Sebastiano Filetti, Clifford W. Bogue, Lee A. Denson, and Giuseppe Damante

Thyroid-specific transcription factors control Hex promoter activity
Nucl. Acids Res. 2003 31: 1845-1852; doi:10.1093/nar/gkg295 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Beatrix Suess, Shane Hanson, Christian Berens, Barbara Fink, Renée Schroeder, and Wolfgang Hillen

Conditional gene expression by controlling translation with tetracycline-binding aptamers
Nucl. Acids Res. 2003 31: 1853-1858; doi:10.1093/nar/gkg285 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Beth A. Krizek

AINTEGUMENTA utilizes a mode of DNA recognition distinct from that used by proteins containing a single AP2 domain
Nucl. Acids Res. 2003 31: 1859-1868; doi:10.1093/nar/gkg292 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Steffen Porwollik, Jonathan Frye, Liliana D. Florea, Felisa Blackmer, and Michael McClelland

A non-redundant microarray of genes for two related bacteria
Nucl. Acids Res. 2003 31: 1869-1876; doi:10.1093/nar/gkg298 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Sander Granneman, Jennifer E. G. Gallagher, Judith Vogelzangs, Wendy Horstman, Walther J. van Venrooij, Susan J. Baserga, and Ger J. M. Pruijn

The human Imp3 and Imp4 proteins form a ternary complex with hMpp10, which only interacts with the U3 snoRNA in 60–80S ribonucleoprotein complexes
Nucl. Acids Res. 2003 31: 1877-1887; doi:10.1093/nar/gkg300 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Nidhanapathi K. Raghavendra and Desirazu N. Rao

Functional cooperation between exonucleases and endonucleases—basis for the evolution of restriction enzymes
Nucl. Acids Res. 2003 31: 1888-1896; doi:10.1093/nar/gkg275 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

F. Barone, E. Dogliotti, L. Cellai, C. Giordano, M. Bjørås, and F. Mazzei

Influence of DNA torsional rigidity on excision of 7,8-dihydro-8-oxo-2'-deoxyguanosine in the presence of opposing abasic sites by human OGG1 protein
Nucl. Acids Res. 2003 31: 1897-1903; doi:10.1093/nar/gkg289 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Louis Levinger, Richard Giegé, and Catherine Florentz

Pathology-related substitutions in human mitochondrial tRNA^Ile reduce precursor 3' end processing efficiency in vitro
Nucl. Acids Res. 2003 31: 1904-1912; doi:10.1093/nar/gkg282 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Martin Laging, Eric Lindner, Hans-Joachim Fritz, and Wilfried Kramer

Repair of hydrolytic DNA deamination damage in thermophilic bacteria: cloning and characterization of a Vsr endonuclease homolog from Bacillus stearothermophilus
Nucl. Acids Res. 2003 31: 1913-1920; doi:10.1093/nar/gkg276 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Ashley K. Johnson, Dana A. Baum, Jesse Tye, Michael A. Bell, and Stephen M. Testa

Molecular recognition properties of IGS-mediated reactions catalyzed by a Pneumocystis carinii group I intron
Nucl. Acids Res. 2003 31: 1921-1934; doi:10.1093/nar/gkg280 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Fumiko Nishikawa, Nobuko Kakiuchi, Kohei Funaji, Kotaro Fukuda, Satoru Sekiya, and Satoshi Nishikawa

Inhibition of HCV NS3 protease by RNA aptamers in cells
Nucl. Acids Res. 2003 31: 1935-1943; doi:10.1093/nar/gkg291 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Gertrud Mannhaupt, Corinna Montrone, Dirk Haase, H. Werner Mewes, Verena Aign, Jörg D. Hoheisel, Berthold Fartmann, Gerald Nyakatura, Frank Kempken, Josef Maier, and Ulrich Schulte

What’s in the genome of a filamentous fungus? Analysis of the Neurospora genome sequence
Nucl. Acids Res. 2003 31: 1944-1954; doi:10.1093/nar/gkg293 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Soyoun Kim, Hua Shi, Dong-ki Lee, and John T. Lis

Specific SR protein-dependent splicing substrates identified through genomic SELEX
Nucl. Acids Res. 2003 31: 1955-1961; doi:10.1093/nar/gkg286 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Doeke Hekstra, Alexander R. Taussig, Marcelo Magnasco, and Felix Naef

Absolute mRNA concentrations from sequence-specific calibration of oligonucleotide arrays
Nucl. Acids Res. 2003 31: 1962-1968; doi:10.1093/nar/gkg283 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Keita Miyoshi, Chiharu Shirai, and Keiko Mizuta

Transcription of genes encoding trans-acting factors required for rRNA maturation/ribosomal subunit assembly is coordinately regulated with ribosomal protein genes and involves Rap1 in Saccharomyces cerevisiae
Nucl. Acids Res. 2003 31: 1969-1973; doi:10.1093/nar/gkg278 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Elana Miriami, Hanah Margalit, and Ruth Sperling

Conserved sequence elements associated with exon skipping
Nucl. Acids Res. 2003 31: 1974-1983; doi:10.1093/nar/gkg279 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Soobong Park, Mahadevan Seetharaman, Alexis Ogdie, David Ferguson, and Natalia Tretyakova

3'-Exonuclease resistance of DNA oligodeoxynucleotides containing O⁶-[4-oxo-4-(3-pyridyl)butyl]guanine
Nucl. Acids Res. 2003 31: 1984-1994; doi:10.1093/nar/gkg299 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Jiashun Zheng, Jiajin Wu, and Zhirong Sun

An approach to identify over-represented cis-elements in related sequences
Nucl. Acids Res. 2003 31: 1995-2005; doi:10.1093/nar/gkg287 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Junji Kitagawa, Yasuhiro Futamura, and Kenji Yamamoto

Analysis of the conformational energy landscape of human snRNA with a metric based on tree representation of RNA structures
Nucl. Acids Res. 2003 31: 2006-2013; doi:10.1093/nar/gkg288 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

LeAnn J. Godderz, Negar S. Rahman, George M. Risinger, Janeen L. Arbuckle, and Karla K. Rodgers

Self-association and conformational properties of RAG1: implications for formation of the V(D)J recombinase
Nucl. Acids Res. 2003 31: 2014-2023; doi:10.1093/nar/gkg281 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

NAR Methods Online:

Masahiro Kawahara, Hiroshi Ueda, Sumiyo Morita, Kouhei Tsumoto, Izumi Kumagai, and Teruyuki Nagamune

Bypassing antibiotic selection: positive screening of genetically modified cells with an antigen-dependent proliferation switch
Nucl. Acids Res. 2003 31: e32; doi:10.1093/nar/gng032 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Martina Olivero, Tina Ruggiero, Nadia Coltella, Antonella Maffe’, Raffaele Calogero, Enzo Medico, and Maria Flavia Di Renzo

Amplification of repeat-containing transcribed sequences (ARTS): a transcriptome fingerprinting strategy to detect functionally relevant microsatellite mutations in cancer
Nucl. Acids Res. 2003 31: e33; doi:10.1093/nar/gng033 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Christian Frauendorf, Felix Hausch, Ingo Röhl, Andrea Lichte, Stefan Vonhoff, and Sven Klussmann

Internal ³²P-labeling of L-deoxyoligonucleotides
Nucl. Acids Res. 2003 31: e34; doi:10.1093/nar/gng034 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Thomas J. Albert, Jason Norton, Markus Ott, Todd Richmond, Kate Nuwaysir, Emile F. Nuwaysir, Klaus-Peter Stengele, and Roland D. Green

Light-directed 5'3' synthesis of complex oligonucleotide microarrays
Nucl. Acids Res. 2003 31: e35; doi:10.1093/nar/gng035 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Ilya Shmulevich, Jaakko Astola, David Cogdell, Stanley R. Hamilton, and Wei Zhang

Data extraction from composite oligonucleotide microarrays
Nucl. Acids Res. 2003 31: e36; doi:10.1093/nar/gng036 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Stefan Krebs, Ivica Medugorac, Doris Seichter, and Martin Förster

RNaseCut: a MALDI mass spectrometry-based method for SNP discovery
Nucl. Acids Res. 2003 31: e37; doi:10.1093/nar/gng037 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Muhammad Sohail, Graeme Doran, Johann Riedemann, Val Macaulay, and Edwin M. Southern

A simple and cost-effective method for producing small interfering RNAs with high efficacy
Nucl. Acids Res. 2003 31: e38; doi:10.1093/nar/gng038 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Hubert Zipper, Christiane Buta, Katrin Lämmle, Herwig Brunner, Jürgen Bernhagen, and Frank Vitzthum

Mechanisms underlying the impact of humic acids on DNA quantification by SYBR Green I and consequences for the analysis of soils and aquatic sediments
Nucl. Acids Res. 2003 31: e39; doi:10.1093/nar/gng039 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Rebecca A. Perlow, Thomas M. Schinecker, Se Jun Kim, Nicholas E. Geacintov, and David A. Scicchitano

Construction and purification of site-specifically modified DNA templates for transcription assays
Nucl. Acids Res. 2003 31: e40; doi:10.1093/nar/gng040 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Corrigenda:

CORRIGENDUM
Nucl. Acids Res. 2003 31: 2024; doi:10.1093/nar/gkg290 [Extract] [FREE Full Text] [Print PDF] [Request Permissions]  

CORRIGENDUM
Nucl. Acids Res. 2003 31: 2024; doi:10.1093/nar/gkg325 [Extract] [FREE Full Text] [Print PDF] [Request Permissions]  

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