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Previous Next 		Contents: Volume 36, Number 19, November 2008   [Index by Author] 

Down Survey and Summary
Down Computational Biology
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 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

Jasmine Singh, Alka Saxena, John Christodoulou, and David Ravine
MECP2 genomic structure and function: insights from ENCODE
Nucleic Acids Research Advance Access published on September 27, 2008
Nucl. Acids Res. 2008 36: 6035-6047; doi:10.1093/nar/gkn591 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Computational Biology Back

Sahand Jamal Rahi, Peter Virnau, Leonid A. Mirny, and Mehran Kardar
Predicting transcription factor specificity with all-atom models
Nucleic Acids Research Advance Access published on October 1, 2008
Nucl. Acids Res. 2008 36: 6209-6217; doi:10.1093/nar/gkn589 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Gene Regulation, Chromatin and Epigenetics Back

E. Soragni, D. Herman, S. Y. R. Dent, J. M. Gottesfeld, R. D. Wells, and M. Napierala
Long intronic GAA•TTC repeats induce epigenetic changes and reporter gene silencing in a molecular model of Friedreich ataxia
Nucleic Acids Research Advance Access published on September 27, 2008
Nucl. Acids Res. 2008 36: 6056-6065; doi:10.1093/nar/gkn604 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Wen-Ling Wang, Yi-Chao Lee, Wen-Ming Yang, Wen-Chang Chang, and Ju-Ming Wang
Sumoylation of LAP1 is involved in the HDAC4-mediated repression of COX-2 transcription
Nucleic Acids Research Advance Access published on September 27, 2008
Nucl. Acids Res. 2008 36: 6066-6079; doi:10.1093/nar/gkn607 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Hillel I. Sims, Cassandra B. Baughman, and Gavin R. Schnitzler
Human SWI/SNF directs sequence-specific chromatin changes on promoter polynucleosomes
Nucleic Acids Research Advance Access published on September 27, 2008
Nucl. Acids Res. 2008 36: 6118-6131; doi:10.1093/nar/gkn623 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Younggyu Kim, Yon W. Ebright, Adam R. Goodman, Danny Reinberg, and Richard H. Ebright
Nonradioactive, ultrasensitive site-specific protein–protein photocrosslinking: interactions of {alpha}-helix 2 of TATA-binding protein with general transcription factor TFIIA and transcriptional repressor NC2
Nucleic Acids Research Advance Access published on September 29, 2008
Nucl. Acids Res. 2008 36: 6143-6154; doi:10.1093/nar/gkn612 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Kaifu Chen, Qingshu Meng, Lina Ma, Qingyou Liu, Petrus Tang, Chungshung Chiu, Songnian Hu, and Jun Yu
A novel DNA sequence periodicity decodes nucleosome positioning
Nucleic Acids Research Advance Access published on October 1, 2008
Nucl. Acids Res. 2008 36: 6228-6236; doi:10.1093/nar/gkn626 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Leighcraft A. Shakes, Tennison L. Malcolm, Kevin L. Allen, Supriyo De, Ken R. Harewood, and Pradeep K. Chatterjee
Context dependent function of APPb enhancer identified using enhancer trap-containing BACs as transgenes in zebrafish
Nucleic Acids Research Advance Access published on October 1, 2008
Nucl. Acids Res. 2008 36: 6237-6248; doi:10.1093/nar/gkn628 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Genome Integrity, Repair and Replication Back

Shuren Liao, Thomas Toczylowski, and Hong Yan
Identification of the Xenopus DNA2 protein as a major nuclease for the 5'->3' strand-specific processing of DNA ends
Nucleic Acids Research Advance Access published on September 27, 2008
Nucl. Acids Res. 2008 36: 6091-6100; doi:10.1093/nar/gkn616 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Susumu Iiizumi, Aya Kurosawa, Sairei So, Yasuyuki Ishii, Yuichi Chikaraishi, Ayako Ishii, Hideki Koyama, and Noritaka Adachi
Impact of non-homologous end-joining deficiency on random and targeted DNA integration: implications for gene targeting
Nucleic Acids Research Advance Access published on October 3, 2008
Nucl. Acids Res. 2008 36: 6333-6342; doi:10.1093/nar/gkn649 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Genomics Back

Raquel S. Linheiro and Casey M. Bergman
Testing the palindromic target site model for DNA transposon insertion using the Drosophila melanogaster P-element
Nucleic Acids Research Advance Access published on October 1, 2008
Nucl. Acids Res. 2008 36: 6199-6208; doi:10.1093/nar/gkn563 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Julian Leon Huppert, Anthony Bugaut, Sunita Kumari, and Shankar Balasubramanian
G-quadruplexes: the beginning and end of UTRs
Nucleic Acids Research Advance Access published on October 2, 2008
Nucl. Acids Res. 2008 36: 6260-6268; doi:10.1093/nar/gkn511 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Mauro A. A. Castro, Rodrigo J. S. Dalmolin, José C. F. Moreira, José C. M. Mombach, and Rita M. C. de Almeida
Evolutionary origins of human apoptosis and genome-stability gene networks
Nucleic Acids Research Advance Access published on October 2, 2008
Nucl. Acids Res. 2008 36: 6269-6283; doi:10.1093/nar/gkn636 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Molecular Biology Back

Audrey Perreault, Clément Bellemer, and Francois Bachand
Nuclear export competence of pre-40S subunits in fission yeast requires the ribosomal protein Rps2
Nucleic Acids Research Advance Access published on September 27, 2008
Nucl. Acids Res. 2008 36: 6132-6142; doi:10.1093/nar/gkn625 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Ragnhild Weel-Sneve, Magnar Bjørås, and Knut Ivan Kristiansen
Overexpression of the LexA-regulated tisAB RNA in E. coli inhibits SOS functions; implications for regulation of the SOS response
Nucleic Acids Research Advance Access published on October 1, 2008
Nucl. Acids Res. 2008 36: 6249-6259; doi:10.1093/nar/gkn633 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Sascha Beneke, Odile Cohausz, Maria Malanga, Petra Boukamp, Felix Althaus, and Alexander Bürkle
Rapid regulation of telomere length is mediated by poly(ADP-ribose) polymerase-1
Nucleic Acids Research Advance Access published on October 3, 2008
Nucl. Acids Res. 2008 36: 6309-6317; doi:10.1093/nar/gkn615 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Nucleic Acid Enzymes Back

Seung-Won Park, Andrew M. Parrott, David T. Fritz, Yongkyu Park, Michael B. Mathews, and Chee-Gun Lee
Regulation of the catalytic function of topoisomerase II alpha through association with RNA
Nucleic Acids Research Advance Access published on September 27, 2008
Nucl. Acids Res. 2008 36: 6080-6090; doi:10.1093/nar/gkn614 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Gintautas Tamulaitis, Mindaugas Zaremba, Roman H. Szczepanowski, Matthias Bochtler, and Virginijus Siksnys
How PspGI, catalytic domain of EcoRII and Ecl18kI acquire specificities for different DNA targets
Nucleic Acids Research Advance Access published on September 27, 2008
Nucl. Acids Res. 2008 36: 6101-6108; doi:10.1093/nar/gkn621 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Anette Thyssen Jonstrup, Tina Thomsen, Yong Wang, Birgitta R. Knudsen, Jørn Koch, and Anni H. Andersen
Hairpin structures formed by alpha satellite DNA of human centromeres are cleaved by human topoisomerase II{alpha}
Nucleic Acids Research Advance Access published on September 29, 2008
Nucl. Acids Res. 2008 36: 6165-6174; doi:10.1093/nar/gkn640 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Christopher Torchia, Yuko Takagi, and C. Kiong Ho
Archaeal RNA ligase is a homodimeric protein that catalyzes intramolecular ligation of single-stranded RNA and DNA
Nucleic Acids Research Advance Access published on October 1, 2008
Nucl. Acids Res. 2008 36: 6218-6227; doi:10.1093/nar/gkn602 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Yongqing Gu, Yuji Masuda, and Kenji Kamiya
Biochemical analysis of human PIF1 helicase and functions of its N-terminal domain
Nucleic Acids Research Advance Access published on October 3, 2008
Nucl. Acids Res. 2008 36: 6295-6308; doi:10.1093/nar/gkn609 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

RNA Back

Yan Li, Jun Luo, Hui Zhou, Jian-You Liao, Li-Ming Ma, Yue-Qin Chen, and Liang-Hu Qu
Stress-induced tRNA-derived RNAs: a novel class of small RNAs in the primitive eukaryote Giardia lamblia
Nucleic Acids Research Advance Access published on September 27, 2008
Nucl. Acids Res. 2008 36: 6048-6055; doi:10.1093/nar/gkn596 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Kenji Okuda, Yuya Habata, Yoshichika Kobayashi, and Toshiharu Shikanai
Amino acid sequence variations in Nicotiana CRR4 orthologs determine the species-specific efficiency of RNA editing in plastids
Nucleic Acids Research Advance Access published on September 29, 2008
Nucl. Acids Res. 2008 36: 6155-6164; doi:10.1093/nar/gkn629 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Matthias Müllner, Brian Salmons, Walter H. Günzburg, and Stanislav Indik
Identification of the Rem-responsive element of mouse mammary tumor virus
Nucleic Acids Research Advance Access published on October 3, 2008
Nucl. Acids Res. 2008 36: 6284-6294; doi:10.1093/nar/gkn608 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Tanay Ghosh, Kartik Soni, Vinod Scaria, Mahantappa Halimani, Chaitali Bhattacharjee, and Beena Pillai
MicroRNA-mediated up-regulation of an alternatively polyadenylated variant of the mouse cytoplasmic β-actin gene
Nucleic Acids Research Advance Access published on October 3, 2008
Nucl. Acids Res. 2008 36: 6318-6332; doi:10.1093/nar/gkn624 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Structural Biology Back

Roman H. Szczepanowski, Michael A. Carpenter, Honorata Czapinska, Mindaugas Zaremba, Gintautas Tamulaitis, Virginijus Siksnys, Ashok S. Bhagwat, and Matthias Bochtler
Central base pair flipping and discrimination by PspGI
Nucleic Acids Research Advance Access published on October 1, 2008
Nucl. Acids Res. 2008 36: 6109-6117; doi:10.1093/nar/gkn622 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Arturas Meskauskas and Jonathan D. Dinman
Ribosomal protein L3 functions as a ‘rocker switch’ to aid in coordinating of large subunit-associated functions in eukaryotes and Archaea
Nucleic Acids Research Advance Access published on October 2, 2008
Nucl. Acids Res. 2008 36: 6175-6186; doi:10.1093/nar/gkn642 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Alexey N. Petrov, Arturas Meskauskas, Sara C. Roshwalb, and Jonathan D. Dinman
Yeast ribosomal protein L10 helps coordinate tRNA movement through the large subunit
Nucleic Acids Research Advance Access published on September 29, 2008
Nucl. Acids Res. 2008 36: 6187-6198; doi:10.1093/nar/gkn643 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Methods Online Back

Richard Cronn, Aaron Liston, Matthew Parks, David S. Gernandt, Rongkun Shen, and Todd Mockler
Multiplex sequencing of plant chloroplast genomes using Solexa sequencing-by-synthesis technology
Nucleic Acids Research Advance Access published on August 27, 2008
Nucl. Acids Res. 2008 36: e122; doi:10.1093/nar/gkn502 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Yang-Wei Lin, Hsin-Tsung Ho, Chih-Ching Huang, and Huan-Tsung Chang
Fluorescence detection of single nucleotide polymorphisms using a universal molecular beacon
Nucleic Acids Research Advance Access published on August 27, 2008
Nucl. Acids Res. 2008 36: e123; doi:10.1093/nar/gkn537 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Juliane Neupert, Daniel Karcher, and Ralph Bock
Design of simple synthetic RNA thermometers for temperature-controlled gene expression in Escherichia coli
Nucleic Acids Research Advance Access published on August 27, 2008
Nucl. Acids Res. 2008 36: e124; doi:10.1093/nar/gkn545 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Xiaochun Fan, Nathan Lamarre-Vincent, Qian Wang, and Kevin Struhl
Extensive chromatin fragmentation improves enrichment of protein binding sites in chromatin immunoprecipitation experiments
Nucleic Acids Research Advance Access published on September 2, 2008
Nucl. Acids Res. 2008 36: e125; doi:10.1093/nar/gkn535 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Sharon J. Diskin, Mingyao Li, Cuiping Hou, Shuzhang Yang, Joseph Glessner, Hakon Hakonarson, Maja Bucan, John M. Maris, and Kai Wang
Adjustment of genomic waves in signal intensities from whole-genome SNP genotyping platforms
Nucleic Acids Research Advance Access published on September 10, 2008
Nucl. Acids Res. 2008 36: e126; doi:10.1093/nar/gkn556 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Jung-Sik Kim, Challice Bonifant, Fred Bunz, William S. Lane, and Todd Waldman
Epitope tagging of endogenous genes in diverse human cell lines
Nucleic Acids Research Advance Access published on September 10, 2008
Nucl. Acids Res. 2008 36: e127; doi:10.1093/nar/gkn566 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Yu Chen, Jana Mandic, and Gabriele Varani
Cell-free selection of RNA-binding proteins using in vitro compartmentalization
Nucleic Acids Research Advance Access published on September 12, 2008
Nucl. Acids Res. 2008 36: e128; doi:10.1093/nar/gkn559 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Brent C. Satterfield, Michael R. Caplan, and Jay A. A. West
Tentacle probe sandwich assay in porous polymer monolith improves specificity, sensitivity and kinetics
Nucleic Acids Research Advance Access published on September 12, 2008
Nucl. Acids Res. 2008 36: e129; doi:10.1093/nar/gkn564 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Front-Matter/Back-Matter Back

Nucleic Acids Research: VOLUME 36 ISSUE 19 2008
Nucl. Acids Res. 2008 36: i; doi:10.1093/nar/gkn908 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Nucleic Acids Research
Nucl. Acids Res. 2008 36: ii; doi:10.1093/nar/gkn907 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Subscriptions
Nucl. Acids Res. 2008 36: iii; doi:10.1093/nar/gkn909 [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.