Nucleic Acids Research

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Get checked abstract Tej K. Pandita and Christine Richardson

Chromatin remodeling finds its place in the DNA double-strand break response
Nucleic Acids Research Advance Access published on January 12, 2009
Nucl. Acids Res. 2009 37: 1363-1377; doi:10.1093/nar/gkn1071 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Chemistry and Synthetic Biology

Get checked abstract Yusuke Sato, Seiichi Nishizawa, Keitaro Yoshimoto, Takehiro Seino, Toshiki Ichihashi, Kotaro Morita, and Norio Teramae

Influence of substituent modifications on the binding of 2-amino-1,8-naphthyridines to cytosine opposite an AP site in DNA duplexes: thermodynamic characterization
Nucleic Acids Research Advance Access published on January 9, 2009
Nucl. Acids Res. 2009 37: 1411-1422; doi:10.1093/nar/gkn1079 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Vinciane Borsenberger and Stefan Howorka

Diene-modified nucleotides for the Diels–Alder-mediated functional tagging of DNA
Nucleic Acids Research Advance Access published on January 12, 2009
Nucl. Acids Res. 2009 37: 1477-1485; doi:10.1093/nar/gkn1066 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Kristof Stevens and Annemieke Madder

Furan-modified oligonucleotides for fast, high-yielding and site-selective DNA inter-strand cross-linking with non-modified complements
Nucleic Acids Research Advance Access published on January 16, 2009
Nucl. Acids Res. 2009 37: 1555-1565; doi:10.1093/nar/gkn1077 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Marcel Hollenstein, Christopher J. Hipolito, Curtis H. Lam, and David M. Perrin

A self-cleaving DNA enzyme modified with amines, guanidines and imidazoles operates independently of divalent metal cations (M²⁺)
Nucleic Acids Research Advance Access published on January 19, 2009
Nucl. Acids Res. 2009 37: 1638-1649; doi:10.1093/nar/gkn1070 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Walter A. Baase, Davis Jose, Benjamin C. Ponedel, Peter H. von Hippel, and Neil P. Johnson

DNA models of trinucleotide frameshift deletions: the formation of loops and bulges at the primer–template junction
Nucleic Acids Research Advance Access published on January 20, 2009
Nucl. Acids Res. 2009 37: 1682-1689; doi:10.1093/nar/gkn1042 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Computational Biology

Get checked abstract S. Smit, R. Knight, and J. Heringa

RNA structure prediction from evolutionary patterns of nucleotide composition
Nucleic Acids Research Advance Access published on January 7, 2009
Nucl. Acids Res. 2009 37: 1378-1386; doi:10.1093/nar/gkn987 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Yonit Halperin, Chaim Linhart, Igor Ulitsky, and Ron Shamir

Allegro: Analyzing expression and sequence in concert to discover regulatory programs
Nucleic Acids Research Advance Access published on January 16, 2009
Nucl. Acids Res. 2009 37: 1566-1579; doi:10.1093/nar/gkn1064 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Gene Regulation, Chromatin and Epigenetics

Get checked abstract Marie Brázdová, Timo Quante, Lars Tögel, Korden Walter, Christine Loscher, Vlastimil Tichy, Lenka Cincárová, Wolfgang Deppert, and Genrich V. Tolstonog

Modulation of gene expression in U251 glioblastoma cells by binding of mutant p53 R273H to intronic and intergenic sequences
Nucleic Acids Research Advance Access published on January 12, 2009
Nucl. Acids Res. 2009 37: 1486-1500; doi:10.1093/nar/gkn1085 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Genome Integrity, Repair and Replication

Get checked abstract Jun-Hyuk Choi, Laura A. Lindsey-Boltz, and Aziz Sancar

Cooperative activation of the ATR checkpoint kinase by TopBP1 and damaged DNA
Nucleic Acids Research Advance Access published on January 12, 2009
Nucl. Acids Res. 2009 37: 1501-1509; doi:10.1093/nar/gkn1075 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Hui Li, Stefan Pellenz, Umut Ulge, Barry L. Stoddard, and Raymond J. Monnat, Jr

Generation of single-chain LAGLIDADG homing endonucleases from native homodimeric precursor proteins
Nucleic Acids Research Advance Access published on January 19, 2009
Nucl. Acids Res. 2009 37: 1650-1662; doi:10.1093/nar/gkp004 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Shubho Chaudhuri, John J. Wyrick, and Michael J. Smerdon

Histone H3 Lys79 methylation is required for efficient nucleotide excision repair in a silenced locus of Saccharomyces cerevisiae
Nucleic Acids Research Advance Access published on January 20, 2009
Nucl. Acids Res. 2009 37: 1690-1700; doi:10.1093/nar/gkp003 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Molecular Biology

Get checked abstract Philippe Leprohon, Danielle Légaré, Frédéric Raymond, Éric Madore, Gary Hardiman, Jacques Corbeil, and Marc Ouellette

Gene expression modulation is associated with gene amplification, supernumerary chromosomes and chromosome loss in antimony-resistant Leishmania infantum
Nucleic Acids Research Advance Access published on January 7, 2009
Nucl. Acids Res. 2009 37: 1387-1399; doi:10.1093/nar/gkn1069 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Xi-Miao Hou, Xing-Hua Zhang, Kong-Ji Wei, Chao Ji, Shuo-Xing Dou, Wei-Chi Wang, Ming Li, and Peng-Ye Wang

Cisplatin induces loop structures and condensation of single DNA molecules
Nucleic Acids Research Advance Access published on January 7, 2009
Nucl. Acids Res. 2009 37: 1400-1410; doi:10.1093/nar/gkn933 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Hiroyuki Ida, Noriyuki Suzusho, Osamu Suyari, Hideki Yoshida, Katsuhito Ohno, Fumiko Hirose, Masanobu Itoh, and Masamitsu Yamaguchi

Genetic screening for modifiers of the DREF pathway in Drosophila melanogaster: identification and characterization of HP6 as a novel target of DREF
Nucleic Acids Research Advance Access published on January 9, 2009
Nucl. Acids Res. 2009 37: 1423-1437; doi:10.1093/nar/gkn1068 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Keisuke Miyazaki, Shoko Inoue, Kazuhiko Yamada, Masashi Watanabe, Qin Liu, Toshiki Watanabe, Mimi Tamamori Adachi, Yujiro Tanaka, and Shigetaka Kitajima

Differential usage of alternate promoters of the human stress response gene ATF3 in stress response and cancer cells
Nucleic Acids Research Advance Access published on January 9, 2009
Nucl. Acids Res. 2009 37: 1438-1451; doi:10.1093/nar/gkn1082 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Amaury Herpin, Shuhei Nakamura, Toni U. Wagner, Minoru Tanaka, and Manfred Schartl

A highly conserved cis-regulatory motif directs differential gonadal synexpression of Dmrt1 transcripts during gonad development
Nucleic Acids Research Advance Access published on January 12, 2009
Nucl. Acids Res. 2009 37: 1510-1520; doi:10.1093/nar/gkn1065 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Eddy van der Linden, Humberto Sanchez, Eri Kinoshita, Roland Kanaar, and Claire Wyman

RAD50 and NBS1 form a stable complex functional in DNA binding and tethering
Nucleic Acids Research Advance Access published on January 16, 2009
Nucl. Acids Res. 2009 37: 1580-1588; doi:10.1093/nar/gkn1072 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Nucleic Acid Enzymes

Get checked abstract Laura J. Cliffe, Rudo Kieft, Timothy Southern, Shanda R. Birkeland, Marion Marshall, Kate Sweeney, and Robert Sabatini

JBP1 and JBP2 are two distinct thymidine hydroxylases involved in J biosynthesis in genomic DNA of African trypanosomes
Nucleic Acids Research Advance Access published on January 9, 2009
Nucl. Acids Res. 2009 37: 1452-1462; doi:10.1093/nar/gkn1067 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Matthieu Fonvielle, Maryline Chemama, Régis Villet, Maxime Lecerf, Ahmed Bouhss, Jean-Marc Valéry, Mélanie Ethève-Quelquejeu, and Michel Arthur

Aminoacyl-tRNA recognition by the FemX_Wv transferase for bacterial cell wall synthesis
Nucleic Acids Research Advance Access published on January 16, 2009
Nucl. Acids Res. 2009 37: 1589-1601; doi:10.1093/nar/gkn1039 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

RNA

Get checked abstract Elizaveta Vinogradova, Thalia Salinas, Valérie Cognat, Claire Remacle, and Laurence Maréchal-Drouard

Steady-state levels of imported tRNAs in Chlamydomonas mitochondria are correlated with both cytosolic and mitochondrial codon usages
Nucleic Acids Research Advance Access published on January 12, 2009
Nucl. Acids Res. 2009 37: 1521-1528; doi:10.1093/nar/gkn1073 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Jana Hertel, Danielle de Jong, Manja Marz, Dominic Rose, Hakim Tafer, Andrea Tanzer, Bernd Schierwater, and Peter F. Stadler

Non-coding RNA annotation of the genome of Trichoplax adhaerens
Nucleic Acids Research Advance Access published on January 16, 2009
Nucl. Acids Res. 2009 37: 1602-1615; doi:10.1093/nar/gkn1084 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Chie Takemoto, Linda L. Spremulli, Lisa A. Benkowski, Takuya Ueda, Takashi Yokogawa, and Kimitsuna Watanabe

Unconventional decoding of the AUA codon as methionine by mitochondrial tRNA^Met with the anticodon f⁵CAU as revealed with a mitochondrial in vitro translation system
Nucleic Acids Research Advance Access published on January 16, 2009
Nucl. Acids Res. 2009 37: 1616-1627; doi:10.1093/nar/gkp001 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Roberto Marcucci, Maurizio Romano, Fabian Feiguin, Mary A. O'Connell, and Francisco E. Baralle

Dissecting the splicing mechanism of the Drosophila editing enzyme; dADAR
Nucleic Acids Research Advance Access published on January 19, 2009
Nucl. Acids Res. 2009 37: 1663-1671; doi:10.1093/nar/gkn1080 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Young-Kook Kim, Jieun Yu, Tae Su Han, Seong-Yeon Park, Bumjin Namkoong, Dong Hyuk Kim, Keun Hur, Moon-Won Yoo, Hyuk-Joon Lee, Han-Kwang Yang, and V. Narry Kim

Functional links between clustered microRNAs: suppression of cell-cycle inhibitors by microRNA clusters in gastric cancer
Nucleic Acids Research Advance Access published on January 19, 2009
Nucl. Acids Res. 2009 37: 1672-1681; doi:10.1093/nar/gkp002 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Structural Biology

Get checked abstract Phu Nguyen Le Minh, Neel Devroede, Jan Massant, Dominique Maes, and Daniel Charlier

Insights into the architecture and stoichiometry of Escherichia coli PepA•DNA complexes involved in transcriptional control and site-specific DNA recombination by atomic force microscopy
Nucleic Acids Research Advance Access published on January 9, 2009
Nucl. Acids Res. 2009 37: 1463-1476; doi:10.1093/nar/gkn1078 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Michael F. Bardaro, Jr, Zahra Shajani, Krystyna Patora-Komisarska, John A. Robinson, and Gabriele Varani

How binding of small molecule and peptide ligands to HIV-1 TAR alters the RNA motional landscape
Nucleic Acids Research Advance Access published on January 12, 2009
Nucl. Acids Res. 2009 37: 1529-1540; doi:10.1093/nar/gkn1074 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Ilene M. Pedroso, William Hayward, and Terace M. Fletcher

The effect of the TRF2 N-terminal and TRFH regions on telomeric G-quadruplex structures
Nucleic Acids Research Advance Access published on January 12, 2009
Nucl. Acids Res. 2009 37: 1541-1554; doi:10.1093/nar/gkn1081 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Nidhi Jain, Srinivasarao Meneni, Vipin Jain, and Bongsup P. Cho

Influence of flanking sequence context on the conformational flexibility of aminofluorene-modified dG adduct in dA mismatch DNA duplexes
Nucleic Acids Research Advance Access published on January 16, 2009
Nucl. Acids Res. 2009 37: 1628-1637; doi:10.1093/nar/gkn1063 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Ammar A. E. Ali, Rachel M. Jukes, Laurence H. Pearl, and Antony W. Oliver

Specific recognition of a multiply phosphorylated motif in the DNA repair scaffold XRCC1 by the FHA domain of human PNK
Nucleic Acids Research Advance Access published on January 20, 2009
Nucl. Acids Res. 2009 37: 1701-1712; doi:10.1093/nar/gkn1086 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Methods Online

Get checked abstract M. Abou El Hassan and R. Bremner

A rapid simple approach to quantify chromosome conformation capture
Nucleic Acids Research Advance Access published on January 30, 2009
Nucl. Acids Res. 2009 37: e35; doi:10.1093/nar/gkp028 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract William Nelson and Carol Soderlund

Integrating sequence with FPC fingerprint maps
Nucleic Acids Research Advance Access published on January 30, 2009
Nucl. Acids Res. 2009 37: e36; doi:10.1093/nar/gkp034 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Matej Butala, Stephen J. W. Busby, and David J. Lee

DNA sampling: a method for probing protein binding at specific loci on bacterial chromosomes
Nucleic Acids Research Advance Access published on January 30, 2009
Nucl. Acids Res. 2009 37: e37; doi:10.1093/nar/gkp043 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Javier Carrera, Guillermo Rodrigo, and Alfonso Jaramillo

Model-based redesign of global transcription regulation
Nucleic Acids Research Advance Access published on February 2, 2009
Nucl. Acids Res. 2009 37: e38; doi:10.1093/nar/gkp022 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Norihito Muranaka, Vandana Sharma, Yoko Nomura, and Yohei Yokobayashi

An efficient platform for genetic selection and screening of gene switches in Escherichia coli
Nucleic Acids Research Advance Access published on February 3, 2009
Nucl. Acids Res. 2009 37: e39; doi:10.1093/nar/gkp039 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Milko B. Kermekchiev, Lyubka I. Kirilova, Erika E. Vail, and Wayne M. Barnes

Mutants of Taq DNA polymerase resistant to PCR inhibitors allow DNA amplification from whole blood and crude soil samples
Nucleic Acids Research Advance Access published on February 10, 2009
Nucl. Acids Res. 2009 37: e40; doi:10.1093/nar/gkn1055 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Tomoyuki Tanaka and Terence H. Rabbitts

Selection of complementary single-variable domains for building monoclonal antibodies to native proteins
Nucleic Acids Research Advance Access published on February 10, 2009
Nucl. Acids Res. 2009 37: e41; doi:10.1093/nar/gkp069 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Front-Matter/Back-Matter

Nucleic Acids Research: VOLUME 37 ISSUE 5 2009
Nucl. Acids Res. 2009 37: i; doi:10.1093/nar/gkp203 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Nucleic Acids Research
Nucl. Acids Res. 2009 37: ii; doi:10.1093/nar/gkp202 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Subscriptions
Nucl. Acids Res. 2009 37: iii; doi:10.1093/nar/gkp204 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

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