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Previous Next 		Contents: Volume 37, Number 14, August 2009   [Index by Author] 

Down Chemistry and Synthetic Biology
Down Computational Biology
Down Gene Regulation, Chromatin and Epigenetics
Down Genomics
Down Molecular Biology
Down Nucleic Acid Enzymes
Down RNA
Down Structural Biology
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.

Chemistry and Synthetic Biology Back

Gil Tae Hwang, Yoshiyuki Hari, and Floyd E. Romesberg
The effects of unnatural base pairs and mispairs on DNA duplex stability and solvation
Nucleic Acids Research Advance Access published on June 10, 2009
Nucl. Acids Res. 2009 37: 4757-4763; doi:10.1093/nar/gkp467 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Computational Biology Back

Shrihari Sonavane and Pinak Chakrabarti
Cavities in protein–DNA and protein–RNA interfaces
Nucleic Acids Research Advance Access published on June 3, 2009
Nucl. Acids Res. 2009 37: 4613-4620; doi:10.1093/nar/gkp488 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Zeba Wunderlich and Leonid A. Mirny
Using genome-wide measurements for computational prediction of SH2–peptide interactions
Nucleic Acids Research Advance Access published on June 5, 2009
Nucl. Acids Res. 2009 37: 4629-4641; doi:10.1093/nar/gkp394 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Alexandre V. Morozov, Karissa Fortney, Daria A. Gaykalova, Vasily M. Studitsky, Jonathan Widom, and Eric D. Siggia
Using DNA mechanics to predict in vitro nucleosome positions and formation energies
Nucleic Acids Research Advance Access published on June 9, 2009
Nucl. Acids Res. 2009 37: 4707-4722; doi:10.1093/nar/gkp475 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Eugene Melamud and John Moult
Structural implication of splicing stochastics
Nucleic Acids Research Advance Access published on June 15, 2009
Nucl. Acids Res. 2009 37: 4862-4872; doi:10.1093/nar/gkp444 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Eugene Melamud and John Moult
Stochastic noise in splicing machinery
Nucleic Acids Research Advance Access published on June 22, 2009
Nucl. Acids Res. 2009 37: 4873-4886; doi:10.1093/nar/gkp471 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Gene Regulation, Chromatin and Epigenetics Back

Yair Benita, Hirotoshi Kikuchi, Andrew D. Smith, Michael Q. Zhang, Daniel C. Chung, and Ramnik J. Xavier
An integrative genomics approach identifies Hypoxia Inducible Factor-1 (HIF-1)-target genes that form the core response to hypoxia
Nucleic Acids Research Advance Access published on June 2, 2009
Nucl. Acids Res. 2009 37: 4587-4602; doi:10.1093/nar/gkp425 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Katherine E. Varley, David G. Mutch, Tina B. Edmonston, Paul J. Goodfellow, and Robi D. Mitra
Intra-tumor heterogeneity of MLH1 promoter methylation revealed by deep single molecule bisulfite sequencing
Nucleic Acids Research Advance Access published on June 3, 2009
Nucl. Acids Res. 2009 37: 4603-4612; doi:10.1093/nar/gkp457 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Mads Heilskov Rasmussen, Bruce Wang, Matthias Wabl, Anders Lade Nielsen, and Finn Skou Pedersen
Activation of alternative Jdp2 promoters and functional protein isoforms in T-cell lymphomas by retroviral insertion mutagenesis
Nucleic Acids Research Advance Access published on June 5, 2009
Nucl. Acids Res. 2009 37: 4657-4671; doi:10.1093/nar/gkp469 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Sajad Hussain Syed, Mathieu Boulard, Manu Shubhdarshan Shukla, Thierry Gautier, Andrew Travers, Jan Bednar, Cendrine Faivre-Moskalenko, Stefan Dimitrov, and Dimitar Angelov
The incorporation of the novel histone variant H2AL2 confers unusual structural and functional properties of the nucleosome
Nucleic Acids Research Advance Access published on June 8, 2009
Nucl. Acids Res. 2009 37: 4684-4695; doi:10.1093/nar/gkp473 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Ana M. Hernández-Arriaga, Tania S. Rubio-Lepe, Manuel Espinosa, and Gloria del Solar
Repressor CopG prevents access of RNA polymerase to promoter and actively dissociates open complexes
Nucleic Acids Research Advance Access published on June 11, 2009
Nucl. Acids Res. 2009 37: 4799-4811; doi:10.1093/nar/gkp503 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

José F. da Silva Neto, Vânia S. Braz, Valéria C. S. Italiani, and Marilis V. Marques
Fur controls iron homeostasis and oxidative stress defense in the oligotrophic alpha-proteobacterium Caulobacter crescentus
Nucleic Acids Research Advance Access published on June 11, 2009
Nucl. Acids Res. 2009 37: 4812-4825; doi:10.1093/nar/gkp509 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Feng Jin and Joseph D. Fondell
A novel androgen receptor-binding element modulates Cdc6 transcription in prostate cancer cells during cell-cycle progression
Nucleic Acids Research Advance Access published on June 11, 2009
Nucl. Acids Res. 2009 37: 4826-4838; doi:10.1093/nar/gkp510 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Yuval Mazor and Martin Kupiec
Developmentally regulated MAPK pathways modulate heterochromatin in Saccharomyces cerevisiae
Nucleic Acids Research Advance Access published on June 11, 2009
Nucl. Acids Res. 2009 37: 4839-4849; doi:10.1093/nar/gkp512 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Poornima Bhat-Nakshatri, Guohua Wang, Nikail R. Collins, Michael J. Thomson, Tim R. Geistlinger, Jason S. Carroll, Myles Brown, Scott Hammond, Edward F. Srour, Yunlong Liu, and Harikrishna Nakshatri
Estradiol-regulated microRNAs control estradiol response in breast cancer cells
Nucleic Acids Research Advance Access published on June 14, 2009
Nucl. Acids Res. 2009 37: 4850-4861; doi:10.1093/nar/gkp500 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Genomics Back

Mark J. Lawson and Liqing Zhang
Sexy gene conversions: locating gene conversions on the X-chromosome
Nucleic Acids Research Advance Access published on May 31, 2009
Nucl. Acids Res. 2009 37: 4570-4579; doi:10.1093/nar/gkp421 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Molecular Biology Back

Xiaoxiao Cao, Shaohua Li, Liucun Chen, Hongmei Ding, Hua Xu, Yanping Huang, Jie Li, Nongle Liu, Weihong Cao, Yanjun Zhu, Beifen Shen, and Ningsheng Shao
Combining use of a panel of ssDNA aptamers in the detection of Staphylococcus aureus
Nucleic Acids Research Advance Access published on June 4, 2009
Nucl. Acids Res. 2009 37: 4621-4628; doi:10.1093/nar/gkp489 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Nucleic Acid Enzymes Back

Félix Romain, Isabelle Barbosa, Jérôme Gouge, François Rougeon, and Marc Delarue
Conferring a template-dependent polymerase activity to terminal deoxynucleotidyltransferase by mutations in the Loop1 region
Nucleic Acids Research Advance Access published on June 5, 2009
Nucl. Acids Res. 2009 37: 4642-4656; doi:10.1093/nar/gkp460 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Gautam Dhar, Meghan M. McLean, John K. Heiss, and Reid C. Johnson
The Hin recombinase assembles a tetrameric protein swivel that exchanges DNA strands
Nucleic Acids Research Advance Access published on June 10, 2009
Nucl. Acids Res. 2009 37: 4743-4756; doi:10.1093/nar/gkp466 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Andrew R. McEwan, Paul A. Rowley, and Margaret C. M. Smith
DNA binding and synapsis by the large C-terminal domain of {phi}C31 integrase
Nucleic Acids Research Advance Access published on June 10, 2009
Nucl. Acids Res. 2009 37: 4764-4773; doi:10.1093/nar/gkp485 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Shigeo Yoshinari, Tomoo Shiba, Daniel-Ken Inaoka, Takashi Itoh, Genji Kurisu, Shigeharu Harada, Kiyoshi Kita, and Yoh-ichi Watanabe
Functional importance of Crenarchaea-specific extra-loop revealed by an X-ray structure of a heterotetrameric crenarchaeal splicing endonuclease
Nucleic Acids Research Advance Access published on June 10, 2009
Nucl. Acids Res. 2009 37: 4787-4798; doi:10.1093/nar/gkp506 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

RNA Back

Veronica A. Raker, Andrei A. Mironov, Mikhail S. Gelfand, and Dmitri D. Pervouchine
Modulation of alternative splicing by long-range RNA structures in Drosophila
Nucleic Acids Research Advance Access published on May 22, 2009
Nucl. Acids Res. 2009 37: 4533-4544; doi:10.1093/nar/gkp407 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Laurence Crombez, May Catherine Morris, Sandrine Dufort, Gudrun Aldrian-Herrada, Quan Nguyen, Gary Mc Master, Jean-Luc Coll, Frederic Heitz, and Gilles Divita
Targeting cyclin B1 through peptide-based delivery of siRNA prevents tumour growth
Nucleic Acids Research Advance Access published on May 29, 2009
Nucl. Acids Res. 2009 37: 4559-4569; doi:10.1093/nar/gkp451 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Stefania Millevoi, Adrien Decorsière, Clarisse Loulergue, Jason Iacovoni, Sandra Bernat, Michael Antoniou, and Stéphan Vagner
A physical and functional link between splicing factors promotes pre-mRNA 3' end processing
Nucleic Acids Research Advance Access published on June 8, 2009
Nucl. Acids Res. 2009 37: 4672-4683; doi:10.1093/nar/gkp470 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Martha E. Christiansen and Brent M. Znosko
Thermodynamic characterization of tandem mismatches found in naturally occurring RNA
Nucleic Acids Research Advance Access published on June 9, 2009
Nucl. Acids Res. 2009 37: 4696-4706; doi:10.1093/nar/gkp465 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Stefan Prasch, Marcel Jurk, Robert S. Washburn, Max E. Gottesman, Birgitta M. Wöhrl, and Paul Rösch
RNA-binding specificity of E. coli NusA
Nucleic Acids Research Advance Access published on June 10, 2009
Nucl. Acids Res. 2009 37: 4736-4742; doi:10.1093/nar/gkp452 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Alessandra Villa, Jens Wöhnert, and Gerhard Stock
Molecular dynamics simulation study of the binding of purine bases to the aptamer domain of the guanine sensing riboswitch
Nucleic Acids Research Advance Access published on June 10, 2009
Nucl. Acids Res. 2009 37: 4774-4786; doi:10.1093/nar/gkp486 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Structural Biology Back

Sarah Sainsbury, Laura A. Lane, Jingshan Ren, Robert J. Gilbert, Nigel J. Saunders, Carol V. Robinson, David I. Stuart, and Raymond J. Owens
The structure of CrgA from Neisseria meningitidis reveals a new octameric assembly state for LysR transcriptional regulators
Nucleic Acids Research Advance Access published on May 27, 2009
Nucl. Acids Res. 2009 37: 4545-4558; doi:10.1093/nar/gkp445 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Robert A. Forties, Ralf Bundschuh, and Michael G. Poirier
The flexibility of locally melted DNA
Nucleic Acids Research Advance Access published on May 31, 2009
Nucl. Acids Res. 2009 37: 4580-4586; doi:10.1093/nar/gkp442 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Thirumananseri Kumarevel, Tomoyuki Tanaka, Takashi Umehara, and Shigeyuki Yokoyama
ST1710–DNA complex crystal structure reveals the DNA binding mechanism of the MarR family of regulators
Nucleic Acids Research Advance Access published on June 9, 2009
Nucl. Acids Res. 2009 37: 4723-4735; doi:10.1093/nar/gkp496 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Methods Online Back

Valentina De Riso, Raffaella Raniello, Florian Maumus, Alessandra Rogato, Chris Bowler, and Angela Falciatore
Gene silencing in the marine diatom Phaeodactylum tricornutum
Nucleic Acids Research Advance Access published on May 31, 2009
Nucl. Acids Res. 2009 37: e96; doi:10.1093/nar/gkp448 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Justina Krawczyk, Thomas A. Kohl, Alexander Goesmann, Jörn Kalinowski, and Jan Baumbach
From Corynebacterium glutamicum to Mycobacterium tuberculosis—towards transfers of gene regulatory networks and integrated data analyses with MycoRegNet
Nucleic Acids Research Advance Access published on June 3, 2009
Nucl. Acids Res. 2009 37: e97; doi:10.1093/nar/gkp453 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Mark Johnson, Hui Hui Phua, Sophia C. Bennett, Jennifer M. Spence, and Christine J. Farr
Studying vertebrate topoisomerase 2 function using a conditional knockdown system in DT40 cells
Nucleic Acids Research Advance Access published on June 3, 2009
Nucl. Acids Res. 2009 37: e98; doi:10.1093/nar/gkp480 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Anders Gunnarsson, Peter Jönsson, Vladimir P. Zhdanov, and Fredrik Höök
Kinetic and thermodynamic characterization of single-mismatch discrimination using single-molecule imaging
Nucleic Acids Research Advance Access published on June 9, 2009
Nucl. Acids Res. 2009 37: e99; doi:10.1093/nar/gkp487 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Jing Lu and Andrew Tsourkas
Imaging individual microRNAs in single mammalian cells in situ
Nucleic Acids Research Advance Access published on June 10, 2009
Nucl. Acids Res. 2009 37: e100; doi:10.1093/nar/gkp482 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Front-Matter/Back-Matter Back

Nucleic Acids Research: VOLUME 37 ISSUE 14 2009
Nucl. Acids Res. 2009 37: i; doi:10.1093/nar/gkp691 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Nucleic Acids Research
Nucl. Acids Res. 2009 37: ii; doi:10.1093/nar/gkp690 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Subscriptions
Nucl. Acids Res. 2009 37: iii; doi:10.1093/nar/gkp692 [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.