Nucleic Acids Research

Articles:

Anna Jasinska, Gracjan Michlewski, Mateusz de Mezer, Krzysztof Sobczak, Piotr Kozlowski, Marek Napierala, and Wlodzimierz J. Krzyzosiak

Structures of trinucleotide repeats in human transcripts and their functional implications
Nucl. Acids Res. 2003 31: 5463-5468; doi:10.1093/nar/gkg767 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Krzysztof Sobczak, Mateusz de Mezer, Gracjan Michlewski, Jacek Krol, and Wlodzimierz J. Krzyzosiak

RNA structure of trinucleotide repeats associated with human neurological diseases
Nucl. Acids Res. 2003 31: 5469-5482; doi:10.1093/nar/gkg766 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Holly Maier, Rachel Ostraat, Sarah Parenti, Daniel Fitzsimmons, Lawrence J. Abraham, Colin W. Garvie, and James Hagman

Requirements for selective recruitment of Ets proteins and activation of mb-1/Ig- gene transcription by Pax-5 (BSAP)
Nucl. Acids Res. 2003 31: 5483-5489; doi:10.1093/nar/gkg785 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Kenneth F. Blount and Yitzhak Tor

Using pyrene-labeled HIV-1 TAR to measure RNA–small molecule binding
Nucl. Acids Res. 2003 31: 5490-5500; doi:10.1093/nar/gkg755 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Stephen Durant and Peter Karran

Vanillins—a novel family of DNA-PK inhibitors
Nucl. Acids Res. 2003 31: 5501-5512; doi:10.1093/nar/gkg753 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Yong-Sik Kim, Gen Nakanishi, Mark Lewandoski, and Anton M. Jetten

GLIS3, a novel member of the GLIS subfamily of Krüppel-like zinc finger proteins with repressor and activation functions
Nucl. Acids Res. 2003 31: 5513-5525; doi:10.1093/nar/gkg776 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Sherif F. El-Khamisy, Mitsuko Masutani, Hiroshi Suzuki, and Keith W. Caldecott

A requirement for PARP-1 for the assembly or stability of XRCC1 nuclear foci at sites of oxidative DNA damage
Nucl. Acids Res. 2003 31: 5526-5533; doi:10.1093/nar/gkg761 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Mariyana Gozmanova, Michela Alessandra Denti, Ivan Nikiforov Minkov, Mina Tsagris, and Martin Tabler

Characterization of the RNA motif responsible for the specific interaction of potato spindle tuber viroid RNA (PSTVd) and the tomato protein Virp1
Nucl. Acids Res. 2003 31: 5534-5543; doi:10.1093/nar/gkg777 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Shigeyoshi Matsumura, Yoshiya Ikawa, and Tan Inoue

Biochemical characterization of the kink-turn RNA motif
Nucl. Acids Res. 2003 31: 5544-5551; doi:10.1093/nar/gkg760 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Srikanta Goswami, Saibal Chatterjee, Suvendra Nath Bhattacharyya, Sudarshana Basu, and Samit Adhya

Allosteric regulation of tRNA import: interactions between tRNA domains at the inner membrane of Leishmania mitochondria
Nucl. Acids Res. 2003 31: 5552-5559; doi:10.1093/nar/gkg773 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Kellen L. Meadows, Binwei Song, and Paul W. Doetsch

Characterization of AP lyase activities of Saccharomyces cerevisiae Ntg1p and Ntg2p: implications for biological function
Nucl. Acids Res. 2003 31: 5560-5567; doi:10.1093/nar/gkg749 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Sean M. Post, Alan E. Tomkinson, and Eva Y.-H. P. Lee

The human checkpoint Rad protein Rad17 is chromatin-associated throughout the cell cycle, localizes to DNA replication sites, and interacts with DNA polymerase
Nucl. Acids Res. 2003 31: 5568-5575; doi:10.1093/nar/gkg765 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Stefan A. Haas, Marc Hild, Anthony P. H. Wright, Torsten Hain, Driss Talibi, and Martin Vingron

Genome-scale design of PCR primers and long oligomers for DNA microarrays
Nucl. Acids Res. 2003 31: 5576-5581; doi:10.1093/nar/gkg752 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Dong Xu, Victor Olman, Li Wang, and Ying Xu

EXCAVATOR: a computer program for efficiently mining gene expression data
Nucl. Acids Res. 2003 31: 5582-5589; doi:10.1093/nar/gkg783 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Kausiki Datta and Vince J. LiCata

Thermodynamics of the binding of Thermus aquaticus DNA polymerase to primed-template DNA
Nucl. Acids Res. 2003 31: 5590-5597; doi:10.1093/nar/gkg774 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Peter L. James, Tom Brown, and Keith R. Fox

Thermodynamic and kinetic stability of intermolecular triple helices containing different proportions of C⁺·GC and T·AT triplets
Nucl. Acids Res. 2003 31: 5598-5606; doi:10.1093/nar/gkg782 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Gregory E. Sims and Sung-Hou Kim

Global mapping of nucleic acid conformational space: dinucleoside monophosphate conformations and transition pathways among conformational classes
Nucl. Acids Res. 2003 31: 5607-5616; doi:10.1093/nar/gkg750 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Noam Kaplan, Avishay Vaaknin, and Michal Linial

PANDORA: keyword-based analysis of protein sets by integration of annotation sources
Nucl. Acids Res. 2003 31: 5617-5626; doi:10.1093/nar/gkg769 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Odile Humbert, Ikbel Achour, Dominique Lautier, Guy Laurent, and Bernard Salles

hMSH2 expression is driven by AP1-dependent regulation through phorbol-ester exposure
Nucl. Acids Res. 2003 31: 5627-5634; doi:10.1093/nar/gkg781 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Qiang Xu and Christopher Lee

Discovery of novel splice forms and functional analysis of cancer-specific alternative splicing in human expressed sequences
Nucl. Acids Res. 2003 31: 5635-5643; doi:10.1093/nar/gkg786 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Kathryn M. Goolsby and David J. Shapiro

RNAi-mediated depletion of the 15 KH domain protein, vigilin, induces death of dividing and non-dividing human cells but does not initially inhibit protein synthesis
Nucl. Acids Res. 2003 31: 5644-5653; doi:10.1093/nar/gkg768 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Brian J. Haas, Arthur L. Delcher, Stephen M. Mount, Jennifer R. Wortman, Roger K. Smith, Jr, Linda I. Hannick, Rama Maiti, Catherine M. Ronning, Douglas B. Rusch, Christopher D. Town, Steven L. Salzberg, and Owen White

Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies
Nucl. Acids Res. 2003 31: 5654-5666; doi:10.1093/nar/gkg770 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Itsik Pe’er, Naama Arbili, Yi Liu, Colby Enck, Craig A. Gelfand, and Ron Shamir

Advanced computational techniques for re-sequencing DNA with polymerase signaling assay arrays
Nucl. Acids Res. 2003 31: 5667-5675; doi:10.1093/nar/gkg757 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Paul K. Tan, Thomas J. Downey, Edward L. Spitznagel, Jr, Pin Xu, Dadin Fu, Dimiter S. Dimitrov, Richard A. Lempicki, Bruce M. Raaka, and Margaret C. Cam

Evaluation of gene expression measurements from commercial microarray platforms
Nucl. Acids Res. 2003 31: 5676-5684; doi:10.1093/nar/gkg763 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Christopher D. Claeboe, Rong Gao, and Sidney M. Hecht

3'-Modified oligonucleotides by reverse DNA synthesis
Nucl. Acids Res. 2003 31: 5685-5691; doi:10.1093/nar/gkg734 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

U. Santhosh and Gary B. Schuster

Long-distance radical cation reactions in DNA three-way junctions: inter-arm interaction and migration through the junction
Nucl. Acids Res. 2003 31: 5692-5699; doi:10.1093/nar/gkg756 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Manjula Rajendran and Andrew D. Ellington

In vitro selection of molecular beacons
Nucl. Acids Res. 2003 31: 5700-5713; doi:10.1093/nar/gkg764 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Nathalie Vilain, Monika Tsai-Pflugfelder, Audrey Benoit, Susan M. Gasser, and Didier Leroy

Modulation of drug sensitivity in yeast cells by the ATP-binding domain of human DNA topoisomerase II
Nucl. Acids Res. 2003 31: 5714-5722; doi:10.1093/nar/gkg737 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Takumi Takizawa, Wataru Ochiai, Kinichi Nakashima, and Tetsuya Taga

Enhanced gene activation by Notch and BMP signaling cross-talk
Nucl. Acids Res. 2003 31: 5723-5731; doi:10.1093/nar/gkg778 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Nathan W. Luedtke, Judy S. Hwang, Eileen Nava, Dalia Gut, Moshe Kol, and Yitzhak Tor

The DNA and RNA specificity of eilatin Ru(II) complexes as compared to eilatin and ethidium bromide
Nucl. Acids Res. 2003 31: 5732-5740; doi:10.1093/nar/gkg758 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Ming-Lung Hung, Ping Chao, and Kung-Yao Chang

dsRBM1 and a proline-rich domain of RNA helicase A can form a composite binder to recognize a specific dsDNA
Nucl. Acids Res. 2003 31: 5741-5753; doi:10.1093/nar/gkg759 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Sébastien Lyonnais, Robert J. Gorelick, Jean-Louis Mergny, Eric Le Cam, and Gilles Mirambeau

G-quartets direct assembly of HIV-1 nucleocapsid protein along single-stranded DNA
Nucl. Acids Res. 2003 31: 5754-5763; doi:10.1093/nar/gkg716 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Mickaël Rigourd, Valérie Goldschmidt, Fabienne Brulé, Casey D. Morrow, Bernard Ehresmann, Chantal Ehresmann, and Roland Marquet

Structure–function relationships of the initiation complex of HIV-1 reverse transcription: the case of mutant viruses using tRNA^His as primer
Nucl. Acids Res. 2003 31: 5764-5775; doi:10.1093/nar/gkg754 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Frédéric Pileur, Marie-Line Andreola, Eric Dausse, Justine Michel, Serge Moreau, Hirofumi Yamada, Sergei A. Gaidamakov, Robert J. Crouch, Jean-Jacques Toulmé, and Christian Cazenave

Selective inhibitory DNA aptamers of the human RNase H1
Nucl. Acids Res. 2003 31: 5776-5788; doi:10.1093/nar/gkg748 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

Franck Gadal, Christophe Bozic, Céline Pillot-Brochet, Sophie Malinge, Sarah Wagner, Aurélie Le Cam, Laurent Buffat, Michel Crepin, and François Iris

Integrated transcriptome analysis of the cellular mechanisms associated with Ha-ras-dependent malignant transformation of the human breast epithelial MCF7 cell line
Nucl. Acids Res. 2003 31: 5789-5804; doi:10.1093/nar/gkg762 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

NAR Methods Online:

Andrew J. Flavell, Viacheslav N. Bolshakov, Allan Booth, Runchun Jing, Joanne Russell, T. H. Noel Ellis, and Peter Isaac

A microarray-based high throughput molecular marker genotyping method: the tagged microarray marker (TAM) approach
Nucl. Acids Res. 2003 31: e115; doi:10.1093/nar/gng113 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Oliver D. King and Frederick P. Roth

A non-parametric model for transcription factor binding sites
Nucl. Acids Res. 2003 31: e116; doi:10.1093/nar/gng117 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Knut Rudi and Askild L. Holck

Real-time closed tube single nucleotide polymorphism (SNP) quantification in pooled samples by quencher extension (QEXT)
Nucl. Acids Res. 2003 31: e117; doi:10.1093/nar/gng118 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Masato Yonezawa, Nobuhide Doi, Yuko Kawahashi, Toru Higashinakagawa, and Hiroshi Yanagawa

DNA display for in vitro selection of diverse peptide libraries
Nucl. Acids Res. 2003 31: e118; doi:10.1093/nar/gng119 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Ole Brandt, Julia Feldner, Achim Stephan, Markus Schröder, Martina Schnölzer, Heinrich F. Arlinghaus, Jörg D. Hoheisel, and Anette Jacob

PNA microarrays for hybridisation of unlabelled DNA samples
Nucl. Acids Res. 2003 31: e119; doi:10.1093/nar/gng120 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Laurence Vernis, Jure Piskur, and John F. X. Diffley

Reconstitution of an efficient thymidine salvage pathway in Saccharomyces cerevisiae
Nucl. Acids Res. 2003 31: e120; doi:10.1093/nar/gng121 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

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