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Contents: Volume 38, Number 5, March 2010   [Index by Author] 

Down Survey and Summary
Down Gene Regulation, Chromatin and Epigenetics
Down Genome Integrity, Repair and Replication
Down Genomics
Down Molecular Biology
Down Nucleic Acid Enzymes
Down RNA
Down Structural Biology
Down Synthetic Biology and Chemistry
Down Methods Online
Down Front-Matter/Back-Matter


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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.

Survey and Summary Back

Yuri Motorin, Frank Lyko, and Mark Helm
5-methylcytosine in RNA: detection, enzymatic formation and biological functions
Nucleic Acids Research Advance Access published on December 8, 2009
Nucl. Acids Res. 2010 38: 1415-1430; doi:10.1093/nar/gkp1117 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Gene Regulation, Chromatin and Epigenetics Back

Yakun Wan, Jung-Hsien Chiang, Chan-Hsien Lin, Christina E. Arens, Ramsey A. Saleem, Jennifer J. Smith, and John D. Aitchison
Histone chaperone Chz1p regulates H2B ubiquitination and subtelomeric anti-silencing
Nucleic Acids Research Advance Access published on December 14, 2009
Nucl. Acids Res. 2010 38: 1431-1440; doi:10.1093/nar/gkp1099 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

T. Y. Erkina, Y. Zou, S. Freeling, V. I. Vorobyev, and A. M. Erkine
Functional interplay between chromatin remodeling complexes RSC, SWI/SNF and ISWI in regulation of yeast heat shock genes
Nucleic Acids Research Advance Access published on December 16, 2009
Nucl. Acids Res. 2010 38: 1441-1449; doi:10.1093/nar/gkp1130 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Genome Integrity, Repair and Replication Back

Ronita Nag, McKenna Kyriss, John W. Smerdon, John J. Wyrick, and Michael J. Smerdon
A cassette of N-terminal amino acids of histone H2B are required for efficient cell survival, DNA repair and Swi/Snf binding in UV irradiated yeast
Nucleic Acids Research Advance Access published on December 9, 2009
Nucl. Acids Res. 2010 38: 1450-1460; doi:10.1093/nar/gkp1074 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Shivani Malik, Priyasri Chaurasia, Shweta Lahudkar, Geetha Durairaj, Abhijit Shukla, and Sukesh R. Bhaumik
Rad26p, a transcription-coupled repair factor, is recruited to the site of DNA lesion in an elongating RNA polymerase II-dependent manner in vivo
Nucleic Acids Research Advance Access published on December 9, 2009
Nucl. Acids Res. 2010 38: 1461-1477; doi:10.1093/nar/gkp1147 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Pierre Boesch, Noha Ibrahim, André Dietrich, and Robert N. Lightowlers
Membrane association of mitochondrial DNA facilitates base excision repair in mammalian mitochondria
Nucleic Acids Research Advance Access published on December 10, 2009
Nucl. Acids Res. 2010 38: 1478-1488; doi:10.1093/nar/gkp1143 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Olivier J. Becherel, Burkhard Jakob, Amy L. Cherry, Nuri Gueven, Markus Fusser, Amanda W. Kijas, Cheng Peng, Sachin Katyal, Peter J. McKinnon, Junjie Chen, Bernd Epe, Stephen J. Smerdon, Gisela Taucher-Scholz, and Martin F. Lavin
CK2 phosphorylation-dependent interaction between aprataxin and MDC1 in the DNA damage response
Nucleic Acids Research Advance Access published on December 14, 2009
Nucl. Acids Res. 2010 38: 1489-1503; doi:10.1093/nar/gkp1149 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Genomics Back

Jonathan Livny and Matthew K. Waldor
Mining regulatory 5'UTRs from cDNA deep sequencing datasets
Nucleic Acids Research Advance Access published on December 7, 2009
Nucl. Acids Res. 2010 38: 1504-1514; doi:10.1093/nar/gkp1121 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Asaf Levy, Schraga Schwartz, and Gil Ast
Large-scale discovery of insertion hotspots and preferential integration sites of human transposed elements
Nucleic Acids Research Advance Access published on December 14, 2009
Nucl. Acids Res. 2010 38: 1515-1530; doi:10.1093/nar/gkp1134 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Molecular Biology Back

Jacques Bonnet, Marthe Colotte, Delphine Coudy, Vincent Couallier, Joseph Portier, Bénédicte Morin, and Sophie Tuffet
Chain and conformation stability of solid-state DNA: implications for room temperature storage
Nucleic Acids Research Advance Access published on December 7, 2009
Nucl. Acids Res. 2010 38: 1531-1546; doi:10.1093/nar/gkp1060 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Jie Yi, Na Chang, Xinwen Liu, Gaier Guo, Lixiang Xue, Tanjun Tong, Myriam Gorospe, and Wengong Wang
Reduced nuclear export of HuR mRNA by HuR is linked to the loss of HuR in replicative senescence
Nucleic Acids Research Advance Access published on December 8, 2009
Nucl. Acids Res. 2010 38: 1547-1558; doi:10.1093/nar/gkp1114 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

J. Saadi Imam, Jayanthi P. Gudikote, Wai-kin Chan, and Miles F. Wilkinson
Frame-disrupting mutations elicit pre-mRNA accumulation independently of frame disruption
Nucleic Acids Research Advance Access published on December 9, 2009
Nucl. Acids Res. 2010 38: 1559-1574; doi:10.1093/nar/gkp1115 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Samuel J. Balin and Marilia Cascalho
The rate of mutation of a single gene
Nucleic Acids Research Advance Access published on December 9, 2009
Nucl. Acids Res. 2010 38: 1575-1582; doi:10.1093/nar/gkp1119 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Chul-Hwan Lee, Yong-Keol Shin, Thi Thu Huong Phung, Jae Seok Bae, Young-Hoon Kang, Tuan Anh Nguyen, Jeong-Hoon Kim, Do-Hyung Kim, Min-Jung Kang, Sung-Ho Bae, and Yeon-Soo Seo
Involvement of Vts1, a structure-specific RNA-binding protein, in Okazaki fragment processing in yeast
Nucleic Acids Research Advance Access published on December 9, 2009
Nucl. Acids Res. 2010 38: 1583-1595; doi:10.1093/nar/gkp1135 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Woo-Ram Lee, Ji-Young Jang, Jeong-Sun Kim, Myung-Hee Kwon, and Yong-Sung Kim
Gene silencing by cell-penetrating, sequence-selective and nucleic-acid hydrolyzing antibodies
Nucleic Acids Research Advance Access published on December 9, 2009
Nucl. Acids Res. 2010 38: 1596-1609; doi:10.1093/nar/gkp1145 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Martin Lützelberger, Claudia A. Bottner, Wiebke Schwelnus, Susanne Zock-Emmenthal, Aleh Razanau, and Norbert F. Käufer
The N-terminus of Prp1 (Prp6/U5-102 K) is essential for spliceosome activation in vivo
Nucleic Acids Research Advance Access published on December 9, 2009
Nucl. Acids Res. 2010 38: 1610-1622; doi:10.1093/nar/gkp1155 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Enid W. Choi, Lalitha V. Nayak, and Paula J. Bates
Cancer-selective antiproliferative activity is a general property of some G-rich oligodeoxynucleotides
Nucleic Acids Research Advance Access published on December 11, 2009
Nucl. Acids Res. 2010 38: 1623-1635; doi:10.1093/nar/gkp1088 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Katarzyna Potrykus, Helen Murphy, Xiongfong Chen, Jonathan A. Epstein, and Michael Cashel
Imprecise transcription termination within Escherichia coli greA leader gives rise to an array of short transcripts, GraL
Nucleic Acids Research Advance Access published on December 14, 2009
Nucl. Acids Res. 2010 38: 1636-1651; doi:10.1093/nar/gkp1150 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Nucleic Acid Enzymes Back

Katarzyna H. Kaminska, Elzbieta Purta, Lykke H. Hansen, Janusz M. Bujnicki, Birte Vester, and Katherine S. Long
Insights into the structure, function and evolution of the radical-SAM 23S rRNA methyltransferase Cfr that confers antibiotic resistance in bacteria
Nucleic Acids Research Advance Access published on December 10, 2009
Nucl. Acids Res. 2010 38: 1652-1663; doi:10.1093/nar/gkp1142 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Richard D. Hutton, Timothy D. Craggs, Malcolm F. White, and J.Carlos Penedo
PCNA and XPF cooperate to distort DNA substrates
Nucleic Acids Research Advance Access published on December 11, 2009
Nucl. Acids Res. 2010 38: 1664-1675; doi:10.1093/nar/gkp1104 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

RNA Back

Ming-Yuan Chou and Kung-Yao Chang
An intermolecular RNA triplex provides insight into structural determinants for the pseudoknot stimulator of 1 ribosomal frameshifting
Nucleic Acids Research Advance Access published on December 8, 2009
Nucl. Acids Res. 2010 38: 1676-1685; doi:10.1093/nar/gkp1107 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Cheryl Bolinger, Amit Sharma, Deepali Singh, Lianbo Yu, and Kathleen Boris-Lawrie
RNA helicase A modulates translation of HIV-1 and infectivity of progeny virions
Nucleic Acids Research Advance Access published on December 9, 2009
Nucl. Acids Res. 2010 38: 1686-1696; doi:10.1093/nar/gkp1075 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Tarita Biver, Alessia Boggioni, Begoña García, José M. Leal, Rebeca Ruiz, Fernando Secco, and Marcella Venturini
New aspects of the interaction of the antibiotic coralyne with RNA: coralyne induces triple helix formation in poly(rA)•poly(rU)
Nucleic Acids Research Advance Access published on December 14, 2009
Nucl. Acids Res. 2010 38: 1697-1710; doi:10.1093/nar/gkp1146 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Ivan Dotu, William A. Lorenz, Pascal Van Hentenryck, and Peter Clote
Computing folding pathways between RNA secondary structures
Nucleic Acids Research Advance Access published on December 30, 2009
Nucl. Acids Res. 2010 38: 1711-1722; doi:10.1093/nar/gkp1054 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Structural Biology Back

Dimitra Serfiotis-Mitsa, Andrew P. Herbert, Gareth A. Roberts, Dinesh C. Soares, John H. White, Garry W. Blakely, Dusan Uhrín, and David T. F. Dryden
The structure of the KlcA and ArdB proteins reveals a novel fold and antirestriction activity against Type I DNA restriction systems in vivo but not in vitro
Nucleic Acids Research Advance Access published on December 9, 2009
Nucl. Acids Res. 2010 38: 1723-1737; doi:10.1093/nar/gkp1144 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Hsing-Mao Chu, Tzu-Ping Ko, and Andrew H.-J. Wang
Crystal structure and substrate specificity of plant adenylate isopentenyltransferase from Humulus lupulus: distinctive binding affinity for purine and pyrimidine nucleotides
Nucleic Acids Research Advance Access published on December 10, 2009
Nucl. Acids Res. 2010 38: 1738-1748; doi:10.1093/nar/gkp1093 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Synthetic Biology and Chemistry Back

Glenna E. Meister, Srinivasan Chandrasegaran, and Marc Ostermeier
Heterodimeric DNA methyltransferases as a platform for creating designer zinc finger methyltransferases for targeted DNA methylation in cells
Nucleic Acids Research Advance Access published on December 9, 2009
Nucl. Acids Res. 2010 38: 1749-1759; doi:10.1093/nar/gkp1126 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Kazumitsu Onizuka, Yosuke Taniguchi, and Shigeki Sasaki
A new usage of functionalized oligodeoxynucleotide probe for site-specific modification of a guanine base within RNA
Nucleic Acids Research Advance Access published on January 31, 2010
Nucl. Acids Res. 2010 38: 1760-1766; doi:10.1093/nar/gkp930 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Methods Online Back

Alex E. Pozhitkov, Idrissa Boube, Marius H. Brouwer, and Peter A. Noble
Beyond Affymetrix arrays: expanding the set of known hybridization isotherms and observing pre-wash signal intensities
Nucleic Acids Research Advance Access published on December 6, 2009
Nucl. Acids Res. 2010 38: e28; doi:10.1093/nar/gkp1122 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Igor V. Kutyavin
New approach to real-time nucleic acids detection: folding polymerase chain reaction amplicons into a secondary structure to improve cleavage of Förster resonance energy transfer probes in 5'-nuclease assays
Nucleic Acids Research Advance Access published on December 7, 2009
Nucl. Acids Res. 2010 38: e29; doi:10.1093/nar/gkp1138 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Renaud Geslain, Laia Cubells, Teresa Bori-Sanz, Roberto Álvarez-Medina, David Rossell, Elisa Martí, and Lluís Ribas de Pouplana
Chimeric tRNAs as tools to induce proteome damage and identify components of stress responses
Nucleic Acids Research Advance Access published on December 8, 2009
Nucl. Acids Res. 2010 38: e30; doi:10.1093/nar/gkp1083 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Elodie Ayel and Christophe Escudé
In vitro selection of oligonucleotides that bind double-stranded DNA in the presence of triplex-stabilizing agents
Nucleic Acids Research Advance Access published on December 8, 2009
Nucl. Acids Res. 2010 38: e31; doi:10.1093/nar/gkp1139 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

K. Nehlsen, S. Herrmann, J. Zauers, H. Hauser, and D. Wirth
Toxin–antitoxin based transgene expression in mammalian cells
Nucleic Acids Research Advance Access published on December 8, 2009
Nucl. Acids Res. 2010 38: e32; doi:10.1093/nar/gkp1140 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data] [Supplementary Data]  

Nobutaka Suzuki, Toshihide Itou, Yoshinori Hasegawa, Tsuneko Okazaki, and Masashi Ikeno
Cell to cell transfer of the chromatin-packaged human β-globin gene cluster
Nucleic Acids Research Advance Access published on December 10, 2009
Nucl. Acids Res. 2010 38: e33; doi:10.1093/nar/gkp1168 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Lorena Pantano, Xavier Estivill, and Eulàlia Martí
SeqBuster, a bioinformatic tool for the processing and analysis of small RNAs datasets, reveals ubiquitous miRNA modifications in human embryonic cells
Nucleic Acids Research Advance Access published on December 11, 2009
Nucl. Acids Res. 2010 38: e34; doi:10.1093/nar/gkp1127 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Front-Matter/Back-Matter Back

Nucleic Acids Research: VOLUME 38 ISSUE 5 2010
Nucl. Acids Res. 2010 38: i; doi:10.1093/nar/gkq190 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Nucleic Acids Research
Nucl. Acids Res. 2010 38: ii; doi:10.1093/nar/gkq189 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Subscriptions
Nucl. Acids Res. 2010 38: iii; doi:10.1093/nar/gkq191 [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.