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Previous 		Contents: Volume 36, Number 17, October 2008   [Index by Author] 

Down Survey and Summary
Down Chemistry and Synthetic Biology
Down Gene regulation, Chromatin and Epigenetics
Down Genome integrity, repair and replication
Down Molecular Biology
Down Nucleic Acid Enzymes
Down RNA
Down Structural Biology
Down Methods Online


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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

Andrea Kinner, Wenqi Wu, Christian Staudt, and George Iliakis
{gamma}-H2AX in recognition and signaling of DNA double-strand breaks in the context of chromatin
Nucleic Acids Research Advance Access published on September 4, 2008
Nucl. Acids Res. 2008 36: 5678-5694; doi:10.1093/nar/gkn550 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Chemistry and Synthetic Biology Back

Yasuko Osakada, Kiyohiko Kawai, Mamoru Fujitsuka, and Tetsuro Majima
Kinetics of charge transfer in DNA containing a mismatch
Nucleic Acids Research Advance Access published on August 30, 2008
Nucl. Acids Res. 2008 36: 5562-5570; doi:10.1093/nar/gkn505 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Haijia Yu, Xiaohui Wang, Manliang Fu, Jinsong Ren, and Xiaogang Qu
Chiral metallo-supramolecular complexes selectively recognize human telomeric G-quadruplex DNA
Nucleic Acids Research Advance Access published on September 6, 2008
Nucl. Acids Res. 2008 36: 5695-5703; doi:10.1093/nar/gkn569 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Gene regulation, Chromatin and Epigenetics Back

C. Claus Stolt, Petra Lommes, Simone Hillgärtner, and Michael Wegner
The transcription factor Sox5 modulates Sox10 function during melanocyte development
Nucleic Acids Research Advance Access published on August 14, 2008
Nucl. Acids Res. 2008 36: 5427-5440; doi:10.1093/nar/gkn527 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Michelle M. Thiaville, Elizabeth E. Dudenhausen, Keytam S. Awad, Altin Gjymishka, Can Zhong, and Michael S. Kilberg
Activated transcription via mammalian amino acid response elements does not require enhanced recruitment of the Mediator complex
Nucleic Acids Research Advance Access published on August 30, 2008
Nucl. Acids Res. 2008 36: 5571-5580; doi:10.1093/nar/gkn538 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Genome integrity, repair and replication Back

Erwin van den Born, Marina V. Omelchenko, Anders Bekkelund, Vibeke Leihne, Eugene V. Koonin, Valerian V. Dolja, and Pål Ø. Falnes
Viral AlkB proteins repair RNA damage by oxidative demethylation
Nucleic Acids Research Advance Access published on August 21, 2008
Nucl. Acids Res. 2008 36: 5451-5461; doi:10.1093/nar/gkn519 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Hélène Labit, Irène Perewoska, Thomas Germe, Olivier Hyrien, and Kathrin Marheineke
DNA replication timing is deterministic at the level of chromosomal domains but stochastic at the level of replicons in Xenopus egg extracts
Nucleic Acids Research Advance Access published on September 2, 2008
Nucl. Acids Res. 2008 36: 5623-5634; doi:10.1093/nar/gkn533 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Nasim Sabouri, Jörgen Viberg, Dinesh Kumar Goyal, Erik Johansson, and Andrei Chabes
Evidence for lesion bypass by yeast replicative DNA polymerases during DNA damage
Nucleic Acids Research Advance Access published on September 4, 2008
Nucl. Acids Res. 2008 36: 5660-5667; doi:10.1093/nar/gkn555 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Molecular Biology Back

Naoyuki Sarai, Wataru Kagawa, Norie Fujikawa, Kengo Saito, Juri Hikiba, Kozo Tanaka, Kiyoshi Miyagawa, Hitoshi Kurumizaka, and Shigeyuki Yokoyama
Biochemical analysis of the N-terminal domain of human RAD54B
Nucleic Acids Research Advance Access published on August 20, 2008
Nucl. Acids Res. 2008 36: 5441-5450; doi:10.1093/nar/gkn516 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Aaron Wynveen, Dominic J. Lee, Alexei A. Kornyshev, and Sergey Leikin
Helical coherence of DNA in crystals and solution
Nucleic Acids Research Advance Access published on August 28, 2008
Nucl. Acids Res. 2008 36: 5540-5551; doi:10.1093/nar/gkn514 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Ju Youn Lee, Zhe Ji, and Bin Tian
Phylogenetic analysis of mRNA polyadenylation sites reveals a role of transposable elements in evolution of the 3'-end of genes
Nucleic Acids Research Advance Access published on August 30, 2008
Nucl. Acids Res. 2008 36: 5581-5590; doi:10.1093/nar/gkn540 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Maren Mierau, Guido A. Drexler, André Kutzera, Kerstin Braunschmidt, Joachim Ellwart, Friederike Eckardt-Schupp, Eberhard Fritz, Jürgen Bachl, and Berit Jungnickel
Non-conservative homologous recombination in human B lymphocytes is promoted by activation-induced cytidine deaminase and transcription
Nucleic Acids Research Advance Access published on August 30, 2008
Nucl. Acids Res. 2008 36: 5591-5601; doi:10.1093/nar/gkn542 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Carmen Losasso, Erica Cretaio, Paola Fiorani, Ilda D’Annessa, Giovanni Chillemi, and Piero Benedetti
A single mutation in the 729 residue modulates human DNA topoisomerase IB DNA binding and drug resistance
Nucleic Acids Research Advance Access published on September 4, 2008
Nucl. Acids Res. 2008 36: 5635-5644; doi:10.1093/nar/gkn557 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Giovanni Chillemi, Ilda D’Annessa, Paola Fiorani, Carmen Losasso, Piero Benedetti, and Alessandro Desideri
Thr729 in human topoisomerase I modulates anti-cancer drug resistance by altering protein domain communications as suggested by molecular dynamics simulations
Nucleic Acids Research Advance Access published on September 2, 2008
Nucl. Acids Res. 2008 36: 5645-5651; doi:10.1093/nar/gkn558 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Leila Shokri, Boriana Marintcheva, Mootaz Eldib, Andreas Hanke, Ioulia Rouzina, and Mark C. Williams
Kinetics and thermodynamics of salt-dependent T7 gene 2.5 protein binding to single- and double-stranded DNA
Nucleic Acids Research Advance Access published on September 4, 2008
Nucl. Acids Res. 2008 36: 5668-5677; doi:10.1093/nar/gkn551 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Chureerat Phokaew, Supakit Kowudtitham, Keskanya Subbalekha, Shanop Shuangshoti, and Apiwat Mutirangura
LINE-1 methylation patterns of different loci in normal and cancerous cells
Nucleic Acids Research Advance Access published on September 6, 2008
Nucl. Acids Res. 2008 36: 5704-5712; doi:10.1093/nar/gkn571 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Nucleic Acid Enzymes Back

Christof Maucksch, Manish Kumar Aneja, Elisabeth Hennen, Alexander Bohla, Florian Hoffmann, Markus Elfinger, Joseph Rosenecker, and Carsten Rudolph
Cell type differences in activity of the Streptomyces bacteriophage {phi}C31 integrase
Nucleic Acids Research Advance Access published on August 21, 2008
Nucl. Acids Res. 2008 36: 5462-5471; doi:10.1093/nar/gkn532 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Xiao Su Pan, Miriam Dias, Manlio Palumbo, and L. Mark Fisher
Clerocidin selectively modifies the gyrase-DNA gate to induce irreversible and reversible DNA damage
Nucleic Acids Research Advance Access published on August 22, 2008
Nucl. Acids Res. 2008 36: 5516-5529; doi:10.1093/nar/gkn539 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Gyri Teien Haugland, Nozomi Sakakibara, Angel L. Pey, Claire R. Rollor, Nils-Kåre Birkeland, and Zvi Kelman
Thermoplasma acidophilum Cdc6 protein stimulates MCM helicase activity by regulating its ATPase activity
Nucleic Acids Research Advance Access published on August 30, 2008
Nucl. Acids Res. 2008 36: 5602-5609; doi:10.1093/nar/gkn548 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Joyce C.Y. Cheung, Brenda Salerno, and Les A. Hanakahi
Evidence for an inositol hexakisphosphate-dependent role for Ku in mammalian nonhomologous end joining that is independent of its role in the DNA-dependent protein kinase
Nucleic Acids Research Advance Access published on September 6, 2008
Nucl. Acids Res. 2008 36: 5713-5726; doi:10.1093/nar/gkn572 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

RNA Back

Ashley A. Frazer-Abel and Paul J. Hagerman
Core flexibility of a truncated metazoan mitochondrial tRNA
Nucleic Acids Research Advance Access published on August 21, 2008
Nucl. Acids Res. 2008 36: 5472-5481; doi:10.1093/nar/gkn529 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Nikolay G. Kolev, Emilia I. Hartland, and Paul W. Huber
A manganese-dependent ribozyme in the 3'-untranslated region of Xenopus Vg1 mRNA
Nucleic Acids Research Advance Access published on August 27, 2008
Nucl. Acids Res. 2008 36: 5530-5539; doi:10.1093/nar/gkn530 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Pratik Home, Saikat Mukherjee, and Samit Adhya
A mosaic of RNA binding and protein interaction motifs in a bifunctional mitochondrial tRNA import factor from Leishmania tropica
Nucleic Acids Research Advance Access published on August 28, 2008
Nucl. Acids Res. 2008 36: 5552-5561; doi:10.1093/nar/gkn536 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Stacy Miller, Laura E. Jones, Karen Giovannitti, Dan Piper, and Martin J. Serra
Thermodynamic analysis of 5' and 3' single- and 3' double-nucleotide overhangs neighboring wobble terminal base pairs
Nucleic Acids Research Advance Access published on September 2, 2008
Nucl. Acids Res. 2008 36: 5652-5659; doi:10.1093/nar/gkn525 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Structural Biology Back

Andrew N. Lane, J. Brad Chaires, Robert D. Gray, and John O. Trent
Stability and kinetics of G-quadruplex structures
Nucleic Acids Research Advance Access published on August 21, 2008
Nucl. Acids Res. 2008 36: 5482-5515; doi:10.1093/nar/gkn517 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Niti Kumar and Souvik Maiti
A thermodynamic overview of naturally occurring intramolecular DNA quadruplexes
Nucleic Acids Research Advance Access published on August 30, 2008
Nucl. Acids Res. 2008 36: 5610-5622; doi:10.1093/nar/gkn543 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Methods Online Back

Sattanathan Paramasivan and Philip H. Bolton
Mix and measure fluorescence screening for selective quadruplex binders
Nucleic Acids Research Advance Access published on July 28, 2008
Nucl. Acids Res. 2008 36: e106; doi:10.1093/nar/gkn487 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Tuval Ben Yehezkel, Gregory Linshiz, Hen Buaron, Shai Kaplan, Uri Shabi, and Ehud Shapiro
De novo DNA synthesis using single molecule PCR
Nucleic Acids Research Advance Access published on July 30, 2008
Nucl. Acids Res. 2008 36: e107; doi:10.1093/nar/gkn457 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Matthew N. McCall and Rafael A. Irizarry
Consolidated strategy for the analysis of microarray spike-in data
Nucleic Acids Research Advance Access published on August 1, 2008
Nucl. Acids Res. 2008 36: e108; doi:10.1093/nar/gkn430 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Yong Lu, Roni Rosenfeld, Itamar Simon, Gerard J. Nau, and Ziv Bar-Joseph
A probabilistic generative model for GO enrichment analysis
Nucleic Acids Research Advance Access published on August 1, 2008
Nucl. Acids Res. 2008 36: e109; doi:10.1093/nar/gkn434 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Kyung Mo Kim, Samsun Sung, Gustavo Caetano-Anollés, Jae Yong Han, and Heebal Kim
An approach of orthology detection from homologous sequences under minimum evolution
Nucleic Acids Research Advance Access published on August 1, 2008
Nucl. Acids Res. 2008 36: e110; doi:10.1093/nar/gkn485 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Weimin L. Kaufman, Ibrahim Kocman, Vishal Agrawal, Hans-Peter Rahn, Daniel Besser, and Manfred Gossen
Homogeneity and persistence of transgene expression by omitting antibiotic selection in cell line isolation
Nucleic Acids Research Advance Access published on August 5, 2008
Nucl. Acids Res. 2008 36: e111; doi:10.1093/nar/gkn508 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Nigel M. Williams, Hywel Williams, Elisa Majounie, Nadine Norton, Beate Glaser, Huw R. Morris, Michael J. Owen, and Michael C. O’Donovan
Analysis of copy number variation using quantitative interspecies competitive PCR
Nucleic Acids Research Advance Access published on August 12, 2008
Nucl. Acids Res. 2008 36: e112; doi:10.1093/nar/gkn495 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Jun Fu, Silke C. Wenzel, Olena Perlova, Junping Wang, Frank Gross, Zhiru Tang, Yulong Yin, A. Francis Stewart, Rolf Müller, and Youming Zhang
Efficient transfer of two large secondary metabolite pathway gene clusters into heterologous hosts by transposition
Nucleic Acids Research Advance Access published on August 13, 2008
Nucl. Acids Res. 2008 36: e113; doi:10.1093/nar/gkn499 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

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.