Nucleic Acids Research

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Get checked abstract Thomas LaFramboise

Single nucleotide polymorphism arrays: a decade of biological, computational and technological advances
Nucleic Acids Research Advance Access published on July 1, 2009
Nucl. Acids Res. 2009 37: 4181-4193; doi:10.1093/nar/gkp552 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Chemistry and Synthetic Biology

Get checked abstract Mads E. Hansen, Thomas Bentin, and Peter E. Nielsen

High-affinity triplex targeting of double stranded DNA using chemically modified peptide nucleic acid oligomers
Nucleic Acids Research Advance Access published on May 27, 2009
Nucl. Acids Res. 2009 37: 4498-4507; doi:10.1093/nar/gkp437 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Samit Shah, Piyush K. Jain, Ashish Kala, Dipu Karunakaran, and Simon H. Friedman

Light-activated RNA interference using double-stranded siRNA precursors modified using a remarkable regiospecificity of diazo-based photolabile groups
Nucleic Acids Research Advance Access published on May 28, 2009
Nucl. Acids Res. 2009 37: 4508-4517; doi:10.1093/nar/gkp415 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Gene Regulation, Chromatin and Epigenetics

Get checked abstract Parimal Majumder, Sharmila Roy, Vladimir E. Belozerov, Dimple Bosu, Meena Puppali, and Haini N. Cai

Diverse transcription influences can be insulated by the Drosophila SF1 chromatin boundary
Nucleic Acids Research Advance Access published on May 12, 2009
Nucl. Acids Res. 2009 37: 4227-4233; doi:10.1093/nar/gkp362 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Ganit Yarden, Rofa Elfakess, Kfir Gazit, and Rivka Dikstein

Characterization of sINR, a strict version of the Initiator core promoter element
Nucleic Acids Research Advance Access published on May 13, 2009
Nucl. Acids Res. 2009 37: 4234-4246; doi:10.1093/nar/gkp315 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Belén Gómez-González and Andrés Aguilera

R-loops do not accumulate in transcription-defective hpr1-101 mutants: implications for the functional role of THO/TREX
Nucleic Acids Research Advance Access published on May 18, 2009
Nucl. Acids Res. 2009 37: 4315-4321; doi:10.1093/nar/gkp385 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Hehuang Xie, Min Wang, Maria de F. Bonaldo, Christina Smith, Veena Rajaram, Stewart Goldman, Tadanori Tomita, and Marcelo B. Soares

High-throughput sequence-based epigenomic analysis of Alu repeats in human cerebellum
Nucleic Acids Research Advance Access published on May 20, 2009
Nucl. Acids Res. 2009 37: 4331-4340; doi:10.1093/nar/gkp393 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Gabriel Leprivier, David Baillat, Agnès Begue, Brigitte Hartmann, and Marc Aumercier

Ets-1 p51 and p42 isoforms differentially modulate Stromelysin-1 promoter according to induced DNA bend orientation
Nucleic Acids Research Advance Access published on May 21, 2009
Nucl. Acids Res. 2009 37: 4341-4352; doi:10.1093/nar/gkp307 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Mingming Fang, Xiaocen Kong, Ping Li, Fei Fang, Xiaoyan Wu, Hui Bai, Xiaohong Qi, Qi Chen, and Yong Xu

RFXB and its splice variant RFXBSV mediate the antagonism between IFN and TGFβ on COL1A2 transcription in vascular smooth muscle cells
Nucleic Acids Research Advance Access published on May 22, 2009
Nucl. Acids Res. 2009 37: 4393-4406; doi:10.1093/nar/gkp398 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Katsushi Yokoyama, Hideki Nogami, Mamiko Kabasawa, Sonomi Ebihara, Ai Shimowasa, Keiko Hashimoto, Tsuyoshi Kawashima, Sanae A. Ishijima, and Masashi Suzuki

The DNA-recognition mode shared by archaeal feast/famine-regulatory proteins revealed by the DNA-binding specificities of TvFL3, FL10, FL11 and Ss-LrpB
Nucleic Acids Research Advance Access published on May 25, 2009
Nucl. Acids Res. 2009 37: 4407-4419; doi:10.1093/nar/gkp378 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Yan Xiao, Siva R. Wigneshweraraj, Robert Weinzierl, Yi-Ping Wang, and Martin Buck

Construction and functional analyses of a comprehensive ⁵⁴ site-directed mutant library using alanine–cysteine mutagenesis
Nucleic Acids Research Advance Access published on May 27, 2009
Nucl. Acids Res. 2009 37: 4482-4497; doi:10.1093/nar/gkp419 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Genome Integrity, Repair and Replication

Get checked abstract Sandra R. Bacman, Sion L. Williams, and Carlos T. Moraes

Intra- and inter-molecular recombination of mitochondrial DNA after in vivo induction of multiple double-strand breaks
Nucleic Acids Research Advance Access published on May 12, 2009
Nucl. Acids Res. 2009 37: 4218-4226; doi:10.1093/nar/gkp348 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Peter Burkovics, Ildikó Hajdú, Valéria Szukacsov, Ildiko Unk, and Lajos Haracska

Role of PCNA-dependent stimulation of 3'-phosphodiesterase and 3'–5' exonuclease activities of human Ape2 in repair of oxidative DNA damage
Nucleic Acids Research Advance Access published on May 13, 2009
Nucl. Acids Res. 2009 37: 4247-4255; doi:10.1093/nar/gkp357 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Anna Valenti, Giuseppe Perugino, Takehiko Nohmi, Mosè Rossi, and Maria Ciaramella

Inhibition of translesion DNA polymerase by archaeal reverse gyrase
Nucleic Acids Research Advance Access published on May 14, 2009
Nucl. Acids Res. 2009 37: 4287-4295; doi:10.1093/nar/gkp386 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Ivan V. Rosado, Wojciech Niedzwiedz, Arno F. Alpi, and Ketan J. Patel

The Walker B motif in avian FANCM is required to limit sister chromatid exchanges but is dispensable for DNA crosslink repair
Nucleic Acids Research Advance Access published on May 21, 2009
Nucl. Acids Res. 2009 37: 4360-4370; doi:10.1093/nar/gkp365 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Heike Summer, Ou Li, Qiuye Bao, Lihong Zhan, Sabrina Peter, Padmapriya Sathiyanathan, Dana Henderson, Thomas Klonisch, Steven D. Goodman, and Peter Dröge

HMGA2 exhibits dRP/AP site cleavage activity and protects cancer cells from DNA-damage-induced cytotoxicity during chemotherapy
Nucleic Acids Research Advance Access published on May 21, 2009
Nucl. Acids Res. 2009 37: 4371-4384; doi:10.1093/nar/gkp375 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Daman Kumari, Valentina Somma, Asako J. Nakamura, William M. Bonner, Ettoré D’Ambrosio, and Karen Usdin

The role of DNA damage response pathways in chromosome fragility in Fragile X syndrome
Nucleic Acids Research Advance Access published on May 21, 2009
Nucl. Acids Res. 2009 37: 4385-4392; doi:10.1093/nar/gkp391 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Junhua Zhao, Aklank Jain, Ravi R. Iyer, Paul L. Modrich, and Karen M. Vasquez

Mismatch repair and nucleotide excision repair proteins cooperate in the recognition of DNA interstrand crosslinks
Nucleic Acids Research Advance Access published on May 25, 2009
Nucl. Acids Res. 2009 37: 4420-4429; doi:10.1093/nar/gkp399 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Sophie Bellon, Naoya Shikazono, Siobhan Cunniffe, Martine Lomax, and Peter O’Neill

Processing of thymine glycol in a clustered DNA damage site: mutagenic or cytotoxic
Nucleic Acids Research Advance Access published on May 25, 2009
Nucl. Acids Res. 2009 37: 4430-4440; doi:10.1093/nar/gkp422 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Genomics

Get checked abstract Zheng Li, Min Liu, Li Zhang, Wenxia Zhang, Ge Gao, Zuoyan Zhu, Liping Wei, Qichang Fan, and Manyuan Long

Detection of intergenic non-coding RNAs expressed in the main developmental stages in Drosophila melanogaster
Nucleic Acids Research Advance Access published on May 18, 2009
Nucl. Acids Res. 2009 37: 4308-4314; doi:10.1093/nar/gkp334 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Molecular Biology

Get checked abstract Anjali Verma, Vinod Kumar Yadav, Richa Basundra, Akinchan Kumar, and Shantanu Chowdhury

Evidence of genome-wide G4 DNA-mediated gene expression in human cancer cells
Nucleic Acids Research Advance Access published on February 11, 2009
Nucl. Acids Res. 2009 37: 4194-4204; doi:10.1093/nar/gkn1076 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Bingsen Xu and Yingqun Huang

Histone H2a mRNA interacts with Lin28 and contains a Lin28-dependent posttranscriptional regulatory element
Nucleic Acids Research Advance Access published on May 13, 2009
Nucl. Acids Res. 2009 37: 4256-4263; doi:10.1093/nar/gkp372 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Yuichi Morozumi, Yoshimasa Takizawa, Motoki Takaku, and Hitoshi Kurumizaka

Human PSF binds to RAD51 and modulates its homologous-pairing and strand-exchange activities
Nucleic Acids Research Advance Access published on May 15, 2009
Nucl. Acids Res. 2009 37: 4296-4307; doi:10.1093/nar/gkp298 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Anne E. McBride, Ana K. Conboy, Shanique P. Brown, Chaiyaboot Ariyachet, and Kate L. Rutledge

Specific sequences within arginine–glycine-rich domains affect mRNA-binding protein function
Nucleic Acids Research Advance Access published on May 19, 2009
Nucl. Acids Res. 2009 37: 4322-4330; doi:10.1093/nar/gkp349 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Charlton Cooper, Jimin Guo, Yi Yan, Shilpa Chooniedass-Kothari, Florent Hube, Mohammad K. Hamedani, Leigh C. Murphy, Yvonne Myal, and Etienne Leygue

Increasing the relative expression of endogenous non-coding Steroid Receptor RNA Activator (SRA) in human breast cancer cells using modified oligonucleotides
Nucleic Acids Research Advance Access published on May 29, 2009
Nucl. Acids Res. 2009 37: 4518-4531; doi:10.1093/nar/gkp441 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Nucleic Acid Enzymes

Get checked abstract María Isabel Ponferrada-Marín, Teresa Roldán-Arjona, and Rafael R. Ariza

ROS1 5-methylcytosine DNA glycosylase is a slow-turnover catalyst that initiates DNA demethylation in a distributive fashion
Nucleic Acids Research Advance Access published on May 13, 2009
Nucl. Acids Res. 2009 37: 4264-4274; doi:10.1093/nar/gkp390 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Martin Samuels, Gaurav Gulati, Jae-Ho Shin, Rejoice Opara, Elizabeth McSweeney, Matt Sekedat, Stephen Long, Zvi Kelman, and David Jeruzalmi

A biochemically active MCM-like helicase in Bacillus cereus
Nucleic Acids Research Advance Access published on May 27, 2009
Nucl. Acids Res. 2009 37: 4441-4452; doi:10.1093/nar/gkp376 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Roger J. Heinze, Luis Giron-Monzon, Alexandra Solovyova, Sarah L. Elliot, Sven Geisler, Claire G. Cupples, Bernard A. Connolly, and Peter Friedhoff

Physical and functional interactions between Escherichia coli MutL and the Vsr repair endonuclease
Nucleic Acids Research Advance Access published on May 27, 2009
Nucl. Acids Res. 2009 37: 4453-4463; doi:10.1093/nar/gkp380 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Anne R. Karow and Dagmar Klostermeier

A conformational change in the helicase core is necessary but not sufficient for RNA unwinding by the DEAD box helicase YxiN
Nucleic Acids Research Advance Access published on May 27, 2009
Nucl. Acids Res. 2009 37: 4464-4471; doi:10.1093/nar/gkp397 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Lingfeng Liu, Yongfeng Li, Dennis Liotta, and Stefan Lutz

Directed evolution of an orthogonal nucleoside analog kinase via fluorescence-activated cell sorting
Nucleic Acids Research Advance Access published on May 27, 2009
Nucl. Acids Res. 2009 37: 4472-4481; doi:10.1093/nar/gkp400 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

RNA

Get checked abstract Joanne C. McGrail, André Krause, and Raymond T. O’Keefe

The RNA binding protein Cwc2 interacts directly with the U6 snRNA to link the nineteen complex to the spliceosome during pre-mRNA splicing
Nucleic Acids Research Advance Access published on May 12, 2009
Nucl. Acids Res. 2009 37: 4205-4217; doi:10.1093/nar/gkp341 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Young-Hwa Goo and Thomas A. Cooper

CUGBP2 directly interacts with U2 17S snRNP components and promotes U2 snRNA binding to cardiac troponin T pre-mRNA
Nucleic Acids Research Advance Access published on May 14, 2009
Nucl. Acids Res. 2009 37: 4275-4286; doi:10.1093/nar/gkp346 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Structural Biology

Get checked abstract Doyoun Kim, Sanjith Reddy, Dong Young Kim, Alexander Rich, Sangho Lee, Kyeong Kyu Kim, and Yang-Gyun Kim

Base extrusion is found at helical junctions between right- and left-handed forms of DNA and RNA
Nucleic Acids Research Advance Access published on May 21, 2009
Nucl. Acids Res. 2009 37: 4353-4359; doi:10.1093/nar/gkp364 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Methods Online

Get checked abstract Abdullah Ely, Tanusha Naidoo, and Patrick Arbuthnot

Efficient silencing of gene expression with modular trimeric Pol II expression cassettes comprising microRNA shuttles
Nucleic Acids Research Advance Access published on May 27, 2009
Nucl. Acids Res. 2009 37: e91; doi:10.1093/nar/gkp446 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Get checked abstract Ken Daigoro Yokoyama, Uwe Ohler, and Gregory A. Wray

Measuring spatial preferences at fine-scale resolution identifies known and novel cis-regulatory element candidates and functional motif-pair relationships
Nucleic Acids Research Advance Access published on May 29, 2009
Nucl. Acids Res. 2009 37: e92; doi:10.1093/nar/gkp423 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Joachim G. Schulz, Guido David, and Bassem A. Hassan

A novel method for tissue-specific RNAi rescue in Drosophila
Nucleic Acids Research Advance Access published on May 29, 2009
Nucl. Acids Res. 2009 37: e93; doi:10.1093/nar/gkp450 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Andrew J. Bonham, Thorsten Neumann, Matthew Tirrell, and Norbert O. Reich

Tracking transcription factor complexes on DNA using total internal reflectance fluorescence protein binding microarrays
Nucleic Acids Research Advance Access published on May 31, 2009
Nucl. Acids Res. 2009 37: e94; doi:10.1093/nar/gkp424 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Get checked abstract Tobias Mann, Richard Humbert, Michael Dorschner, John Stamatoyannopoulos, and William Stafford Noble

A thermodynamic approach to PCR primer design
Nucleic Acids Research Advance Access published on June 15, 2009
Nucl. Acids Res. 2009 37: e95; doi:10.1093/nar/gkp443 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Front-Matter/Back-Matter

Nucleic Acids Research: VOLUME 37 ISSUE 13 2009
Nucl. Acids Res. 2009 37: i; doi:10.1093/nar/gkp654 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Nucleic Acids Research
Nucl. Acids Res. 2009 37: ii; doi:10.1093/nar/gkp653 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Subscriptions
Nucl. Acids Res. 2009 37: iii; doi:10.1093/nar/gkp655 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

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