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Previous Next 		Contents: Volume 35, Number 10, May 2007    [Index by Author] 
      Down Chemistry
      Down Computational Biology
      Down Genomics
      Down Molecular Biology
      Down Nucleic Acid Enzymes
      Down RNA
      Down Structural Biology
      Down Methods Online
      Down Corrigenda
 

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To see an article, click its [Full Text] or [PDF] link. To review many abstracts, check the boxes to the left of the titles you want, and click the 'Get All Checked Abstract(s)' button. To see one abstract at a time, click its [Abstract] link.

Chemistry:Back

Yoshinobu Shiba, Hirofumi Masuda, Naoki Watanabe, Takeshi Ego, Kazuchika Takagaki, Kouichi Ishiyama, Tadaaki Ohgi, and Junichi Yano
Chemical synthesis of a very long oligoribonucleotide with 2-cyanoethoxymethyl (CEM) as the 2'-O-protecting group: structural identification and biological activity of a synthetic 110mer precursor-microRNA candidate
Nucleic Acids Research Advance Access published on April 25, 2007
Nucl. Acids Res. 2007 35: 3287-3296; doi:10.1093/nar/gkm202 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Anjana Sen and Peter E. Nielsen
On the stability of peptide nucleic acid duplexes in the presence of organic solvents
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: 3367-3374; doi:10.1093/nar/gkm210 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Computational Biology:Back

German Gaston Leparc and Robi David Mitra
Non-EST-based prediction of novel alternatively spliced cassette exons with cell signaling function in Caenorhabditis elegans and human
Nucleic Acids Research Advance Access published on April 22, 2007
Nucl. Acids Res. 2007 35: 3192-3202; doi:10.1093/nar/gkm187 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Saran Vardhanabhuti, Junwen Wang, and Sridhar Hannenhalli
Position and distance specificity are important determinants of cis-regulatory motifs in addition to evolutionary conservation
Nucleic Acids Research Advance Access published on April 22, 2007
Nucl. Acids Res. 2007 35: 3203-3213; doi:10.1093/nar/gkm201 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

S. Smit, J. Widmann, and R. Knight
Evolutionary rates vary among rRNA structural elements
Nucleic Acids Research Advance Access published on April 27, 2007
Nucl. Acids Res. 2007 35: 3339-3354; doi:10.1093/nar/gkm101 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Sitao Wu and Yang Zhang
LOMETS: A local meta-threading-server for protein structure prediction
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: 3375-3382; doi:10.1093/nar/gkm251 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Genomics:Back

Eriko Greene, Lata Mahishi, Ali Entezam, Daman Kumari, and Karen Usdin
Repeat-induced epigenetic changes in intron 1 of the frataxin gene and its consequences in Friedreich ataxia
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: 3383-3390; doi:10.1093/nar/gkm271 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Molecular Biology:Back

Alexandra Ahlgren-Berg, Petri Henriksson-Peltola, Wilhelmina Sehlén, and Elisabeth Haggård-Ljungquist
A comparison of the DNA binding and bending capacities and the oligomeric states of the immunity repressors of heteroimmune coliphages P2 and W{Phi}
Nucleic Acids Research Advance Access published on May 7, 2007
Nucl. Acids Res. 2007 35: 3167-3180; doi:10.1093/nar/gkm171 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Petri Henriksson-Peltola, Wilhelmina Sehlén, and Elisabeth Haggård-Ljungquist
Determination of the DNA-binding kinetics of three related but heteroimmune bacteriophage repressors using EMSA and SPR analysis
Nucleic Acids Research Advance Access published on April 4, 2007
Nucl. Acids Res. 2007 35: 3181-3191; doi:10.1093/nar/gkm172 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Fujihiko Matsunaga, Annie Glatigny, Marie-Hélène Mucchielli-Giorgi, Nicolas Agier, Hervé Delacroix, Laetitia Marisa, Patrice Durosay, Yoshizumi Ishino, Lawrence Aggerbeck, and Patrick Forterre
Genomewide and biochemical analyses of DNA-binding activity of Cdc6/Orc1 and Mcm proteins in Pyrococcus sp.
Nucleic Acids Research Advance Access published on April 22, 2007
Nucl. Acids Res. 2007 35: 3214-3222; doi:10.1093/nar/gkm212 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Yuko Takayama and Kohta Takahashi
Differential regulation of repeated histone genes during the fission yeast cell cycle
Nucleic Acids Research Advance Access published on April 22, 2007
Nucl. Acids Res. 2007 35: 3223-3237; doi:10.1093/nar/gkm213 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Sjoerd Wanrooij, Steffi Goffart, Jaakko L.O. Pohjoismäki, Takehiro Yasukawa, and Johannes N. Spelbrink
Expression of catalytic mutants of the mtDNA helicase Twinkle and polymerase POLG causes distinct replication stalling phenotypes
Nucleic Acids Research Advance Access published on April 22, 2007
Nucl. Acids Res. 2007 35: 3238-3251; doi:10.1093/nar/gkm215 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Grégory Éot-Houllier, Marta Gonera, Didier Gasparutto, Céline Giustranti, and Evelyne Sage
Interplay between DNA N-glycosylases/AP lyases at multiply damaged sites and biological consequences
Nucleic Acids Research Advance Access published on April 27, 2007
Nucl. Acids Res. 2007 35: 3355-3366; doi:10.1093/nar/gkm190 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Shao-An Xue and Beverly E. Griffin
Complexities associated with expression of Epstein–Barr virus (EBV) lytic origins of DNA replication
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: 3391-3406; doi:10.1093/nar/gkm170 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Milind Gupta, Rob Till, and Margaret C. M. Smith
Sequences in attB that affect the ability of {phi}C31 integrase to synapse and to activate DNA cleavage
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: 3407-3419; doi:10.1093/nar/gkm206 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Hervé Roy, Hubert Dominique Becker, Marie-Hélène Mazauric, and Daniel Kern
Structural elements defining elongation factor Tu mediated suppression of codon ambiguity
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: 3420-3430; doi:10.1093/nar/gkm211 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Natalia Rybtsova, Elisa Leimgruber, Queralt Seguin-Estévez, Isabelle Dunand-Sauthier, Michal Krawczyk, and Walter Reith
Transcription-coupled deposition of histone modifications during MHC class II gene activation
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: 3431-3441; doi:10.1093/nar/gkm214 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Jeong Do Kim, Christopher Faulk, and Joomyeong Kim
Retroposition and evolution of the DNA-binding motifs of YY1, YY2 and REX1
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: 3442-3452; doi:10.1093/nar/gkm235 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Evelyne Myslinski, Marie-Aline Gérard, Alain Krol, and Philippe Carbon
Transcription of the human cell cycle regulated BUB1B gene requires hStaf/ZNF143
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: 3453-3464; doi:10.1093/nar/gkm239 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Denis Nguyen, Martine Bail, Genevieve Pesant, Virginie N. Dupont, Étienne Rouault, Julie Deschênes, Walter Rocha, Geneviève Melançon, Sergey V. Steinberg, and Sylvie Mader
Rational design of an estrogen receptor mutant with altered DNA-binding specificity
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: 3465-3477; doi:10.1093/nar/gkm241 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Rebecca L. Barnes and Richard McCulloch
Trypanosoma brucei homologous recombination is dependent on substrate length and homology, though displays a differential dependence on mismatch repair as substrate length decreases
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: 3478-3493; doi:10.1093/nar/gkm249 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Nucleic Acid Enzymes:Back

Jaunius Urbonavicius, Gunilla Jäger, and Glenn R. Björk
Amino acid residues of the Escherichia coli tRNA(m5U54)methyltransferase (TrmA) critical for stability, covalent binding of tRNA and enzymatic activity
Nucleic Acids Research Advance Access published on April 25, 2007
Nucl. Acids Res. 2007 35: 3297-3305; doi:10.1093/nar/gkm205 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

RNA:Back

Sophie Fleurdépine, Jean-Marc Deragon, Martine Devic, Jocelyne Guilleminot, and Cécile Bousquet-Antonelli
A bona fide La protein is required for embryogenesis in Arabidopsis thaliana
Nucleic Acids Research Advance Access published on April 25, 2007
Nucl. Acids Res. 2007 35: 3306-3321; doi:10.1093/nar/gkm200 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Annette W. Coleman
Pan-eukaryote ITS2 homologies revealed by RNA secondary structure
Nucleic Acids Research Advance Access published on April 25, 2007
Nucl. Acids Res. 2007 35: 3322-3329; doi:10.1093/nar/gkm233 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Gert Emmerechts, Sofie Barbé, Piet Herdewijn, Jozef Anné, and Jef Rozenski
Post-transcriptional modification mapping in the Clostridium acetobutylicum 16S rRNA by mass spectrometry and reverse transcriptase assays
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: 3494-3503; doi:10.1093/nar/gkm248 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Structural Biology:Back

Jesús Mendieta, Laura Pérez-Lago, Margarita Salas, and Ana Camacho
DNA sequence-specific recognition by a transcriptional regulator requires indirect readout of A-tracts
Nucleic Acids Research Advance Access published on April 22, 2007
Nucl. Acids Res. 2007 35: 3252-3261; doi:10.1093/nar/gkm180 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Jesús Prieto, Pilar Redondo, Daniel Padró, Sylvain Arnould, Jean-Charles Epinat, Frédéric Pâques, Francisco J. Blanco, and Guillermo Montoya
The C-terminal loop of the homing endonuclease I-CreI is essential for site recognition, DNA binding and cleavage
Nucleic Acids Research Advance Access published on April 22, 2007
Nucl. Acids Res. 2007 35: 3262-3271; doi:10.1093/nar/gkm183 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Christopher M. Barbieri, Annankoil R. Srinivasan, Suzanne G. Rzuczek, Joseph E. Rice, Edmond J. LaVoie, and Daniel S. Pilch
Defining the mode, energetics and specificity with which a macrocyclic hexaoxazole binds to human telomeric G-quadruplex DNA
Nucleic Acids Research Advance Access published on April 22, 2007
Nucl. Acids Res. 2007 35: 3272-3286; doi:10.1093/nar/gkm188 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Agnes Noy, Alberto Pérez, Charles A. Laughton, and Modesto Orozco
Theoretical study of large conformational transitions in DNA: the B{leftrightarrow}A conformational change in water and ethanol/water
Nucleic Acids Research Advance Access published on April 25, 2007
Nucl. Acids Res. 2007 35: 3330-3338; doi:10.1093/nar/gkl1135 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Cyril M. Sanders, Dmytro Sizov, Philippa R. Seavers, Miguel Ortiz-Lombardía, and Alfred A. Antson
Transcription activator structure reveals redox control of a replication initiation reaction
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: 3504-3515; doi:10.1093/nar/gkm166 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Methods Online:Back

Phillip Stafford and Marcel Brun
Three methods for optimization of cross-laboratory and cross-platform microarray expression data
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: e72; doi:10.1093/nar/gkl1133 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Jan Mrázek, Simone B. Kreutmayer, Friedrich A. Grässer, Norbert Polacek, and Alexander Hüttenhofer
Subtractive hybridization identifies novel differentially expressed ncRNA species in EBV-infected human B cells
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: e73; doi:10.1093/nar/gkm244 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Darren J. Carter and R. Bruce Cary
Lateral flow microarrays: a novel platform for rapid nucleic acid detection based on miniaturized lateral flow chromatography
Nucleic Acids Research Advance Access published on May 3, 2007
Nucl. Acids Res. 2007 35: e74; doi:10.1093/nar/gkm269 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Hugh P. Morgan, Peter Estibeiro, Martin A. Wear, Klaas E.A. Max, Udo Heinemann, Liza Cubeddu, Maurice P. Gallagher, Peter J. Sadler, and Malcolm D. Walkinshaw
Sequence specificity of single-stranded DNA-binding proteins: a novel DNA microarray approach
Nucleic Acids Research Advance Access published on May 8, 2007
Nucl. Acids Res. 2007 35: e75; doi:10.1093/nar/gkm040 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Brent C. Satterfield, Jay A.A. West, and Michael R. Caplan
Tentacle probes: eliminating false positives without sacrificing sensitivity
Nucleic Acids Research Advance Access published on May 21, 2007
Nucl. Acids Res. 2007 35: e76; doi:10.1093/nar/gkm113 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Gian Paola G. Grant and Peter Z. Qin
A facile method for attaching nitroxide spin labels at the 5' terminus of nucleic acids
Nucleic Acids Research Advance Access published on May 21, 2007
Nucl. Acids Res. 2007 35: e77; doi:10.1093/nar/gkm240 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Adolfo Rivero-Müller, Svetlana Lajic, and Ilpo Huhtaniemi
Assisted large fragment insertion by Red/ET-recombination (ALFIRE)—an alternative and enhanced method for large fragment recombineering
Nucleic Acids Research Advance Access published on May 21, 2007
Nucl. Acids Res. 2007 35: e78; doi:10.1093/nar/gkm250 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Ian M. Carr, Elizabeth M. A. Valleley, Sarah F. Cordery, Alexander F. Markham, and David T. Bonthron
Sequence analysis and editing for bisulphite genomic sequencing projects
Nucleic Acids Research Advance Access published on May 21, 2007
Nucl. Acids Res. 2007 35: e79; doi:10.1093/nar/gkm330 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Corrigenda:Back

Kumar M. R. Bhat, Nityanand Maddodi, Cooduvalli Shashikant, and Vijayasaradhi Setaluri
Transcriptional regulation of human MAP2 gene in melanoma: role of neuronal bHLH factors and Notch1 signaling
Nucl. Acids Res. 2007 35: 3516; doi:10.1093/nar/gkm136 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Lilia Ganova-Raeva, Xinjian Zhang, Fengli Cao, Howard Fields, and Yury Khudyakov
Primer extension enrichment reaction (PEER): a new subtraction method for identification of genetic differences between biological specimens
Nucl. Acids Res. 2007 35: 3517; doi:10.1093/nar/gkm242 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Céline Loot, Néstor Santiago, Alicia Sanz, and Josep M. Casacuberta
The proteins encoded by the pogo-like Lemi1 element bind the TIRs and subterminal repeated motifs of the Arabidopsis Emigrant MITE. Consequences for the transposition mechanism of MITEs
Nucleic Acids Research Advance Access published on June 1, 2007
Nucl. Acids Res. 2007 35: 3518; doi:10.1093/nar/gkm398 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

To see an article, click its [Full Text] or [PDF] link. To review many abstracts, check the boxes to the left of the titles you want, and click the 'Get All Checked Abstract(s)' button. To see one abstract at a time, click its [Abstract] link.