Nucleic Acids Research

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Get checked abstract Cameron Neylon

Chemical and biochemical strategies for the randomization of protein encoding DNA sequences: library construction methods for directed evolution
Nucl. Acids Res. 2004 32: 1448-1459; doi:10.1093/nar/gkh315 [Abstract] [FREE Full Text] [Print PDF]  

Articles

Get checked abstract Li Chen, Zhihua Peng, and Erik Bateman

In vivo interactions of the Acanthamoeba TBP gene promoter
Nucl. Acids Res. 2004 32: 1251-1260; doi:10.1093/nar/gkh297 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Alissa Resch, Yi Xing, Alexander Alekseyenko, Barmak Modrek, and Christopher Lee

Evidence for a subpopulation of conserved alternative splicing events under selection pressure for protein reading frame preservation
Nucl. Acids Res. 2004 32: 1261-1269; doi:10.1093/nar/gkh284 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Dineshkumar H. Dandekar, Krishna N. Ganesh, and Debashis Mitra

HIV-1 Tat directly binds to NFB enhancer sequence: role in viral and cellular gene expression
Nucl. Acids Res. 2004 32: 1270-1278; doi:10.1093/nar/gkh289 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Ines Raineri, Daniel Wegmueller, Brigitte Gross, Ulrich Certa, and Christoph Moroni

Roles of AUF1 isoforms, HuR and BRF1 in ARE-dependent mRNA turnover studied by RNA interference
Nucl. Acids Res. 2004 32: 1279-1288; doi:10.1093/nar/gkh282 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Michael J. Dixon and Robert S. Lahue

DNA elements important for CAG·CTG repeat thresholds in Saccharomyces cerevisiae
Nucl. Acids Res. 2004 32: 1289-1297; doi:10.1093/nar/gkh292 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Julie D. Thompson, Véronique Prigent, and Olivier Poch

LEON: multiple aLignment Evaluation Of Neighbours
Nucl. Acids Res. 2004 32: 1298-1307; doi:10.1093/nar/gkh294 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Kobong Choi, Jong Heon Kim, Xiaoyu Li, Ki Young Paek, Sang Hoon Ha, Sung Ho Ryu, Eckard Wimmer, and Sung Key Jang

Identification of cellular proteins enhancing activities of internal ribosomal entry sites by competition with oligodeoxynucleotides
Nucl. Acids Res. 2004 32: 1308-1317; doi:10.1093/nar/gkh300 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract So Young Park, Young-Shin Kim, Dong-Jin Yang, and Mi-Ae Yoo

Transcriptional regulation of the Drosophila catalase gene by the DRE/DREF system
Nucl. Acids Res. 2004 32: 1318-1324; doi:10.1093/nar/gkh302 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Nicola Minshall and Nancy Standart

The active form of Xp54 RNA helicase in translational repression is an RNA-mediated oligomer
Nucl. Acids Res. 2004 32: 1325-1334; doi:10.1093/nar/gkh303 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Philippe Rousseau, Erwan Gueguen, Guy Duval-Valentin, and Mick Chandler

The helix–turn–helix motif of bacterial insertion sequence IS911 transposase is required for DNA binding
Nucl. Acids Res. 2004 32: 1335-1344; doi:10.1093/nar/gkh276 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Deborah Wilsker, Antonia Patsialou, Steven D. Zumbrun, Suhkmann Kim, Yuan Chen, Peter B. Dallas, and Elizabeth Moran

The DNA-binding properties of the ARID-containing subunits of yeast and mammalian SWI/SNF complexes
Nucl. Acids Res. 2004 32: 1345-1353; doi:10.1093/nar/gkh277 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Viviana Valadez-Graham, Sergey V. Razin, and Félix Recillas-Targa

CTCF-dependent enhancer blockers at the upstream region of the chicken -globin gene domain
Nucl. Acids Res. 2004 32: 1354-1362; doi:10.1093/nar/gkh301 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Wolfgang Ludwig, Oliver Strunk, Ralf Westram, Lothar Richter, Harald Meier, Yadhukumar, Arno Buchner, Tina Lai, Susanne Steppi, Gangolf Jobb, Wolfram Förster, Igor Brettske, Stefan Gerber, Anton W. Ginhart, Oliver Gross, Silke Grumann, Stefan Hermann, Ralf Jost, Andreas König, Thomas Liss, Ralph Lüßmann, Michael May, Björn Nonhoff, Boris Reichel, Robert Strehlow, Alexandros Stamatakis, Norbert Stuckmann, Alexander Vilbig, Michael Lenke, Thomas Ludwig, Arndt Bode, and Karl-Heinz Schleifer

ARB: a software environment for sequence data
Nucl. Acids Res. 2004 32: 1363-1371; doi:10.1093/nar/gkh293 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Martin C. Frith, Yutao Fu, Liqun Yu, Jiang-Fan Chen, Ulla Hansen, and Zhiping Weng

Detection of functional DNA motifs via statistical over-representation
Nucl. Acids Res. 2004 32: 1372-1381; doi:10.1093/nar/gkh299 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Xue-Qing Wang and Joseph A. Rothnagel

5'-Untranslated regions with multiple upstream AUG codons can support low-level translation via leaky scanning and reinitiation
Nucl. Acids Res. 2004 32: 1382-1391; doi:10.1093/nar/gkh305 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Robert M. Dirks, Milo Lin, Erik Winfree, and Niles A. Pierce

Paradigms for computational nucleic acid design
Nucl. Acids Res. 2004 32: 1392-1403; doi:10.1093/nar/gkh291 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material]  

Get checked abstract Jennifer E. G. Gallagher and Susan J. Baserga

Two-hybrid Mpp10p interaction-defective Imp4 proteins are not interaction defective in vivo but do confer specific pre-rRNA processing defects in Saccharomyces cerevisiae
Nucl. Acids Res. 2004 32: 1404-1413; doi:10.1093/nar/gkh318 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Eric W. Klee, Daniel F. Carlson, Scott C. Fahrenkrug, Stephen C. Ekker, and Lynda B. M. Ellis

Identifying secretomes in people, pufferfish and pigs
Nucl. Acids Res. 2004 32: 1414-1421; doi:10.1093/nar/gkh286 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material]  

Get checked abstract Kulwadee Phannachet and Raven H. Huang

Conformational change of pseudouridine 55 synthase upon its association with RNA substrate
Nucl. Acids Res. 2004 32: 1422-1429; doi:10.1093/nar/gkh287 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material]  

Get checked abstract Frédéric Lincker, Gabriel Philipps, and Marie-Edith Chabouté

UV-C response of the ribonucleotide reductase large subunit involves both E2F-mediated gene transcriptional regulation and protein subcellular relocalization in tobacco cells
Nucl. Acids Res. 2004 32: 1430-1438; doi:10.1093/nar/gkh310 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract F. Constantinesco, P. Forterre, E. V. Koonin, L. Aravind, and C. Elie

A bipolar DNA helicase gene, herA, clusters with rad50, mre11 and nurA genes in thermophilic archaea
Nucl. Acids Res. 2004 32: 1439-1447; doi:10.1093/nar/gkh283 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Hiren P. Patel, Lu Lu, Richard T. Blaszak, and John J. Bissler

PKD1 intron 21: triplex DNA formation and effect on replication
Nucl. Acids Res. 2004 32: 1460-1468; doi:10.1093/nar/gkh312 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Petr Pancoska, Zdenek Moravek, and Ute M. Moll

Efficient RNA interference depends on global context of the target sequence: quantitative analysis of silencing efficiency using Eulerian graph representation of siRNA
Nucl. Acids Res. 2004 32: 1469-1479; doi:10.1093/nar/gkh314 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Claudette L. Doe and Matthew C. Whitby

The involvement of Srs2 in post-replication repair and homologous recombination in fission yeast
Nucl. Acids Res. 2004 32: 1480-1491; doi:10.1093/nar/gkh317 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Hongyan Qin, Jishu Wang, Yingmin Liang, Yoshihito Taniguchi, Kenji Tanigaki, and Hua Han

RING1 inhibits transactivation of RBP-J by Notch through interaction with LIM protein KyoT2
Nucl. Acids Res. 2004 32: 1492-1501; doi:10.1093/nar/gkh295 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Joshua S. Weinger, David Kitchen, Stephen A. Scaringe, Scott A. Strobel, and Gregory W. Muth

Solid phase synthesis and binding affinity of peptidyl transferase transition state mimics containing 2'-OH at P-site position A76
Nucl. Acids Res. 2004 32: 1502-1511; doi:10.1093/nar/gkh311 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Peng Liu, Mark Kronenberg, Xi Jiang, and David Rowe

Modified U1 snRNA suppresses expression of a targeted endogenous RNA by inhibiting polyadenylation of the transcript
Nucl. Acids Res. 2004 32: 1512-1517; doi:10.1093/nar/gkh316 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Tatjana Shapkina, Simon Lappi, Stefan Franzen, and Paul Wollenzien

Efficiency and pattern of UV pulse laser-induced RNA–RNA cross-linking in the ribosome
Nucl. Acids Res. 2004 32: 1518-1526; doi:10.1093/nar/gkh320 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract C. Calmels, V. Richard de Soultrait, A. Caumont, C. Desjobert, A. Faure, M. Fournier, L. Tarrago-Litvak, and V. Parissi

Biochemical and random mutagenesis analysis of the region carrying the catalytic E152 amino acid of HIV-1 integrase
Nucl. Acids Res. 2004 32: 1527-1538; doi:10.1093/nar/gkh298 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Chandravanu Dash, Jason W. Rausch, and Stuart F. J. Le Grice

Using pyrrolo-deoxycytosine to probe RNA/DNA hybrids containing the human immunodeficiency virus type-1 3' polypurine tract
Nucl. Acids Res. 2004 32: 1539-1547; doi:10.1093/nar/gkh307 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Yukiko Mishina, Chih-Hui J. Lee, and Chuan He

Interaction of human and bacterial AlkB proteins with DNA as probed through chemical cross-linking studies
Nucl. Acids Res. 2004 32: 1548-1554; doi:10.1093/nar/gkh319 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Hirofumi Fujimoto, Yukiko Hirukawa, Hideki Tani, Yoshiharu Matsuura, Kazuo Hashido, Kozo Tsuchida, Naoko Takada, Masahiko Kobayashi, and Hideaki Maekawa

Integration of the 5' end of the retrotransposon, R2Bm, can be complemented by homologous recombination
Nucl. Acids Res. 2004 32: 1555-1565; doi:10.1093/nar/gkh304 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material]  

Get checked abstract Axel Schumacher and Walter Doerfler

Influence of in vitro manipulation on the stability of methylation patterns in the Snurf/Snrpn-imprinting region in mouse embryonic stem cells
Nucl. Acids Res. 2004 32: 1566-1576; doi:10.1093/nar/gkh322 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Helmut Laumen, Cornelia Brunner, Axel Greiner, and Thomas Wirth

Myosin light chain 1 atrial isoform (MLC1A) is expressed in pre-B cells under control of the BOB.1/OBF.1 coactivator
Nucl. Acids Res. 2004 32: 1577-1583; doi:10.1093/nar/gkh327 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Chu H. Choi, George Kalosakas, Kim Ø. Rasmussen, Makoto Hiromura, Alan R. Bishop, and Anny Usheva

DNA dynamically directs its own transcription initiation
Nucl. Acids Res. 2004 32: 1584-1590; doi:10.1093/nar/gkh335 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Alexander V. Sidorov, Jane A. Grasby, and David M. Williams

Sequence-specific cleavage of RNA in the absence of divalent metal ions by a DNAzyme incorporating imidazolyl and amino functionalities
Nucl. Acids Res. 2004 32: 1591-1601; doi:10.1093/nar/gkh326 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material]  

Get checked abstract Melanie Gulston, Catherine de Lara, Terry Jenner, Emma Davis, and Peter O’Neill

Processing of clustered DNA damage generates additional double-strand breaks in mammalian cells post-irradiation
Nucl. Acids Res. 2004 32: 1602-1609; doi:10.1093/nar/gkh306 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material]  

Get checked abstract Beatrix Suess, Barbara Fink, Christian Berens, Régis Stentz, and Wolfgang Hillen

A theophylline responsive riboswitch based on helix slipping controls gene expression in vivo
Nucl. Acids Res. 2004 32: 1610-1614; doi:10.1093/nar/gkh321 [Abstract] [FREE Full Text] [Print PDF]  

NAR Methods Online

Get checked abstract Eugene Berezikov, Cornelia I. Bargmann, and Ronald H. A. Plasterk

Homologous gene targeting in Caenorhabditis elegans by biolistic transformation
Nucl. Acids Res. 2004 32: e40; doi:10.1093/nar/gnh033 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Peter A. C. ’t Hoen, Rolf Turk, Judith M. Boer, Ellen Sterrenburg, Renée X. de Menezes, Gert-Jan B. van Ommen, and Johan T. den Dunnen

Intensity-based analysis of two-colour microarrays enables efficient and flexible hybridization designs
Nucl. Acids Res. 2004 32: e41; doi:10.1093/nar/gnh038 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material]  

Get checked abstract Binzhi Ren, Jing-Min Zhou, and Makoto Komiyama

Straightforward detection of SNPs in double-stranded DNA by using exonuclease III/nuclease S1/PNA system
Nucl. Acids Res. 2004 32: e42; doi:10.1093/nar/gnh039 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Thomas D. Schmittgen, Jinmai Jiang, Qian Liu, and Liuqing Yang

A high-throughput method to monitor the expression of microRNA precursors
Nucl. Acids Res. 2004 32: e43; doi:10.1093/nar/gnh040 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material]  

Get checked abstract Jane Linnell, Richard Mott, Simon Field, Dominic P. Kwiatkowski, Jiannis Ragoussis, and Irina A. Udalova

Quantitative high-throughput analysis of transcription factor binding specificities
Nucl. Acids Res. 2004 32: e44; doi:10.1093/nar/gnh042 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material]  

Get checked abstract Tong Xiang Li, JinKe Wang, YunFei Bai, XiangDong Sun, and ZuHong Lu

A novel method for screening species-specific gDNA probes for species identification
Nucl. Acids Res. 2004 32: e45; doi:10.1093/nar/gnh041 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Leonid Brodsky, Andrei Leontovich, Michael Shtutman, and Elena Feinstein

Identification and handling of artifactual gene expression profiles emerging in microarray hybridization experiments
Nucl. Acids Res. 2004 32: e46; doi:10.1093/nar/gnh043 [Abstract] [FREE Full Text] [Print PDF]  

Get checked abstract Michiel J. T. van Eijk, José L. N. Broekhof, Hein J. A. van der Poel, René C. J. Hogers, Harrie Schneiders, Judith Kamerbeek, Esther Verstege, Joris W. van Aart, Henk Geerlings, Jaap B. Buntjer, A. Jan van Oeveren, and Pieter Vos

SNPWave^TM: a flexible multiplexed SNP genotyping technology
Nucl. Acids Res. 2004 32: e47; doi:10.1093/nar/gnh045 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material]  

Erratum

Erratum
Nucl. Acids Res. 2004 32: 1616; doi:10.1093/nar/gkh323 [Extract] [FREE Full Text] [Print PDF]  

Corrigendum

Corrigendum
Nucl. Acids Res. 2004 32: 1615; doi:10.1093/nar/gkh308 [Extract] [FREE Full Text] [Print PDF]  

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