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Previous Next 		Contents: Volume 36, Number 3, February 2008   [Index by Author] 

Down Chemistry
Down Computational Biology
Down Genomics
Down Molecular Biology
Down Nucleic Acid Enzymes
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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 Back

Conor Crean, Yuriy Uvaydov, Nicholas E. Geacintov, and Vladimir Shafirovich
Oxidation of single-stranded oligonucleotides by carbonate radical anions: generating intrastrand cross-links between guanine and thymine bases separated by cytosines
Nucleic Acids Research Advance Access published on December 15, 2007
Nucl. Acids Res. 2008 36: 742-755; doi:10.1093/nar/gkm1092 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Barbara Puffer, Holger Moroder, Michaela Aigner, and Ronald Micura
2'-Methylseleno-modified oligoribonucleotides for X-ray crystallography synthesized by the ACE RNA solid-phase approach
Nucleic Acids Research Advance Access published on December 20, 2007
Nucl. Acids Res. 2008 36: 970-983; doi:10.1093/nar/gkm880 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Computational Biology Back

Leonor Saiz and Jose M. G. Vilar
Ab initio thermodynamic modeling of distal multisite transcription regulation
Nucleic Acids Research Advance Access published on December 1, 2007
Nucl. Acids Res. 2008 36: 726-731; doi:10.1093/nar/gkm1034 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Genomics Back

Ignacio E. Sánchez, Mariano Dellarole, Kevin Gaston, and Gonzalo de Prat Gay
Comprehensive comparison of the interaction of the E2 master regulator with its cognate target DNA sites in 73 human papillomavirus types by sequence statistics
Nucleic Acids Research Advance Access published on December 15, 2007
Nucl. Acids Res. 2008 36: 756-769; doi:10.1093/nar/gkm1104 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Jairo Rodriguez, Laura Vives, Mireia Jordà, Cristina Morales, Mar Muñoz, Elisenda Vendrell, and Miguel A. Peinado
Genome-wide tracking of unmethylated DNA Alu repeats in normal and cancer cells
Nucleic Acids Research Advance Access published on December 15, 2007
Nucl. Acids Res. 2008 36: 770-784; doi:10.1093/nar/gkm1105 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

So Nakagawa, Yoshihito Niimura, Takashi Gojobori, Hiroshi Tanaka, and Kin-ichiro Miura
Diversity of preferred nucleotide sequences around the translation initiation codon in eukaryote genomes
Nucleic Acids Research Advance Access published on December 17, 2007
Nucl. Acids Res. 2008 36: 861-871; doi:10.1093/nar/gkm1102 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Molecular Biology Back

Monika Swiatecka-Hagenbruch, Carola Emanuel, Boris Hedtke, Karsten Liere, and Thomas Börner
Impaired function of the phage-type RNA polymerase RpoTp in transcription of chloroplast genes is compensated by a second phage-type RNA polymerase
Nucleic Acids Research Advance Access published on December 15, 2007
Nucl. Acids Res. 2008 36: 785-792; doi:10.1093/nar/gkm1111 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Jimmy de Melo, Qing-Ping Zhou, Qi Zhang, Shunzhen Zhang, Mario Fonseca, Jeffrey T. Wigle, and David D. Eisenstat
Dlx2 homeobox gene transcriptional regulation of Trkb neurotrophin receptor expression during mouse retinal development
Nucleic Acids Research Advance Access published on December 17, 2007
Nucl. Acids Res. 2008 36: 872-884; doi:10.1093/nar/gkm1099 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

S. V. Avilov, E. Piemont, V. Shvadchak, H. de Rocquigny, and Y. Mély
Probing dynamics of HIV-1 nucleocapsid protein/target hexanucleotide complexes by 2-aminopurine
Nucleic Acids Research Advance Access published on December 17, 2007
Nucl. Acids Res. 2008 36: 885-896; doi:10.1093/nar/gkm1109 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Jurij Lah, Igor Drobnak, Marko Dolinar, and Gorazd Vesnaver
What drives the binding of minor groove-directed ligands to DNA hairpins?
Nucleic Acids Research Advance Access published on December 17, 2007
Nucl. Acids Res. 2008 36: 897-904; doi:10.1093/nar/gkm1110 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Steven West and Nicholas J. Proudfoot
Human Pcf11 enhances degradation of RNA polymerase II-associated nascent RNA and transcriptional termination
Nucleic Acids Research Advance Access published on December 17, 2007
Nucl. Acids Res. 2008 36: 905-914; doi:10.1093/nar/gkm1112 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Cecilia Angelelli, Alessandro Magli, Daniela Ferrari, Massimo Ganassi, Vittoria Matafora, Flavia Parise, Giorgia Razzini, Angela Bachi, Stefano Ferrari, and Susanna Molinari
Differentiation-dependent lysine 4 acetylation enhances MEF2C binding to DNA in skeletal muscle cells
Nucleic Acids Research Advance Access published on December 17, 2007
Nucl. Acids Res. 2008 36: 915-928; doi:10.1093/nar/gkm1114 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Darya Chetverina, Ekaterina Savitskaya, Oksana Maksimenko, Larisa Melnikova, Olga Zaytseva, Alexander Parshikov, Alexander V. Galkin, and Pavel Georgiev
Red flag on the white reporter: a versatile insulator abuts the white gene in Drosophila and is omnipresent in mini-white constructs
Nucleic Acids Research Advance Access published on December 17, 2007
Nucl. Acids Res. 2008 36: 929-937; doi:10.1093/nar/gkm992 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Tomoyuki Fukuda, Kazuto Kugou, Hiroyuki Sasanuma, Takehiko Shibata, and Kunihiro Ohta
Targeted induction of meiotic double-strand breaks reveals chromosomal domain-dependent regulation of Spo11 and interactions among potential sites of meiotic recombination
Nucleic Acids Research Advance Access published on December 20, 2007
Nucl. Acids Res. 2008 36: 984-997; doi:10.1093/nar/gkm1082 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Megan Mittelstadt, Andrea Frump, TuAnh Khuu, Vennece Fowlkes, Indhira Handy, Chandrashekhar V. Patel, and Rekha C. Patel
Interaction of human tRNA-dihydrouridine synthase-2 with interferon-induced protein kinase PKR
Nucleic Acids Research Advance Access published on December 20, 2007
Nucl. Acids Res. 2008 36: 998-1008; doi:10.1093/nar/gkm1129 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Ali Entezam and Karen Usdin
ATR protects the genome against CGG·CCG-repeat expansion in Fragile X premutation mice
Nucleic Acids Research Advance Access published on December 26, 2007
Nucl. Acids Res. 2008 36: 1050-1056; doi:10.1093/nar/gkm1136 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Nucleic Acid Enzymes Back

Josephine Wardle, Peter M. J. Burgers, Isaac K. O. Cann, Kate Darley, Pauline Heslop, Erik Johansson, Li-Jung Lin, Peter McGlynn, Jonathan Sanvoisin, Carrie M. Stith, and Bernard A. Connolly
Uracil recognition by replicative DNA polymerases is limited to the archaea, not occurring with bacteria and eukarya
Nucleic Acids Research Advance Access published on November 21, 2007
Nucl. Acids Res. 2008 36: 705-711; doi:10.1093/nar/gkm1023 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Jochen Gerber, Alarich Reiter, Robert Steinbauer, Steffen Jakob, Claus-Dieter Kuhn, Patrick Cramer, Joachim Griesenbeck, Philipp Milkereit, and Herbert Tschochner
Site specific phosphorylation of yeast RNA polymerase I
Nucleic Acids Research Advance Access published on December 15, 2007
Nucl. Acids Res. 2008 36: 793-802; doi:10.1093/nar/gkm1093 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Giedrius Gasiunas, Giedrius Sasnauskas, Gintautas Tamulaitis, Claus Urbanke, Dalia Razaniene, and Virginijus Siksnys
Tetrameric restriction enzymes: expansion to the GIY-YIG nuclease family
Nucleic Acids Research Advance Access published on December 17, 2007
Nucl. Acids Res. 2008 36: 938-949; doi:10.1093/nar/gkm1090 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Annalisa Izzo, Catherine Regnard, Violette Morales, Elisabeth Kremmer, and Peter B. Becker
Structure-function analysis of the RNA helicase maleless
Nucleic Acids Research Advance Access published on December 17, 2007
Nucl. Acids Res. 2008 36: 950-962; doi:10.1093/nar/gkm1108 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Maximilian J. Hartl, Benedikt Kretzschmar, Anne Frohn, Ali Nowrouzi, Axel Rethwilm, and Birgitta M. Wöhrl
AZT resistance of simian foamy virus reverse transcriptase is based on the excision of AZTMP in the presence of ATP
Nucleic Acids Research Advance Access published on December 20, 2007
Nucl. Acids Res. 2008 36: 1009-1016; doi:10.1093/nar/gkm1087 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Bokun Cheng, Elena P. Sorokin, and Yuk-Ching Tse-Dinh
Mutation adjacent to the active site tyrosine can enhance DNA cleavage and cell killing by the TOPRIM Gly to Ser mutant of bacterial topoisomerase I
Nucleic Acids Research Advance Access published on December 20, 2007
Nucl. Acids Res. 2008 36: 1017-1025; doi:10.1093/nar/gkm1126 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Dmitri Kamashev, Anna Balandina, Alexey K. Mazur, Paola B. Arimondo, and Josette Rouviere-Yaniv
HU binds and folds single-stranded DNA
Nucleic Acids Research Advance Access published on December 20, 2007
Nucl. Acids Res. 2008 36: 1026-1036; doi:10.1093/nar/gkm667 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

RNA Back

Roland Ivanyi-Nagy, Jean-Pierre Lavergne, Caroline Gabus, Damien Ficheux, and Jean-Luc Darlix
RNA chaperoning and intrinsic disorder in the core proteins of Flaviviridae
Nucleic Acids Research Advance Access published on November 22, 2007
Nucl. Acids Res. 2008 36: 712-725; doi:10.1093/nar/gkm1051 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Henry J. Haiser, Fedor V. Karginov, Gregory J. Hannon, and Marie A. Elliot
Developmentally regulated cleavage of tRNAs in the bacterium Streptomyces coelicolor
Nucleic Acids Research Advance Access published on December 15, 2007
Nucl. Acids Res. 2008 36: 732-741; doi:10.1093/nar/gkm1096 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Seol-Hoon Lee, Hyun-Sook Choi, Hana Kim, and Younghoon Lee
ERK is a novel regulatory kinase for poly(A) polymerase
Nucleic Acids Research Advance Access published on December 15, 2007
Nucl. Acids Res. 2008 36: 803-813; doi:10.1093/nar/gkm1091 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Joanne C. McGrail and Raymond T. O’Keefe
The U1, U2 and U5 snRNAs crosslink to the 5' exon during yeast pre-mRNA splicing
Nucleic Acids Research Advance Access published on December 15, 2007
Nucl. Acids Res. 2008 36: 814-825; doi:10.1093/nar/gkm1098 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Joe V. Chakkalakal, Pedro Miura, Guy Bélanger, Robin N. Michel, and Bernard J. Jasmin
Modulation of utrophin A mRNA stability in fast versus slow muscles via an AU-rich element and calcineurin signaling
Nucleic Acids Research Advance Access published on December 15, 2007
Nucl. Acids Res. 2008 36: 826-838; doi:10.1093/nar/gkm1107 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Aya Kitamura, Paul J. Jardine, Dwight L. Anderson, Shelley Grimes, and Hiroshi Matsuo
Analysis of intermolecular base pair formation of prohead RNA of the phage ø29 DNA packaging motor using NMR spectroscopy
Nucleic Acids Research Advance Access published on December 15, 2007
Nucl. Acids Res. 2008 36: 839-848; doi:10.1093/nar/gkm874 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Chen Dow-Tien, Tsai Yuan-Jhih, and Lin Alan
Creating a ribonuclease T-tat that preferentially recognizes and hydrolyzes HIV-1 TAR RNA in vitro and in vivo
Nucleic Acids Research Advance Access published on December 17, 2007
Nucl. Acids Res. 2008 36: 963-969; doi:10.1093/nar/gkm1118 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Hiroyuki Fuke and Mutsuhito Ohno
Role of poly (A) tail as an identity element for mRNA nuclear export
Nucleic Acids Research Advance Access published on December 20, 2007
Nucl. Acids Res. 2008 36: 1037-1049; doi:10.1093/nar/gkm1120 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Structural Biology Back

Kuo-Hsiang Tang, Marc Niebuhr, Ann Aulabaugh, and Ming-Daw Tsai
Solution structures of 2 : 1 and 1 : 1 DNA polymerase–DNA complexes probed by ultracentrifugation and small-angle X-ray scattering
Nucleic Acids Research Advance Access published on December 15, 2007
Nucl. Acids Res. 2008 36: 849-860; doi:10.1093/nar/gkm1101 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Methods Online Back

Yong Zhao, Hirotoshi Hoshiyama, Jerry W. Shay, and Woodring E. Wright
Quantitative telomeric overhang determination using a double-strand specific nuclease
Nucleic Acids Research Advance Access published on December 10, 2007
Nucl. Acids Res. 2008 36: e14; doi:10.1093/nar/gkm1063 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

John Arne Dahl and Philippe Collas
µChIP—a rapid micro chromatin immunoprecipitation assay for small cell samples and biopsies
Nucleic Acids Research Advance Access published on January 17, 2008
Nucl. Acids Res. 2008 36: e15; doi:10.1093/nar/gkm1158 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Karthikeyan Sivaraman, AswinSaiNarain Seshasayee, Patrick M. Tarwater, and Alexander M. Cole
Codon choice in genes depends on flanking sequence information—implications for theoretical reverse translation
Nucleic Acids Research Advance Access published on January 18, 2008
Nucl. Acids Res. 2008 36: e16; doi:10.1093/nar/gkm1181 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Steve Flanagin, Joel D. Nelson, David G. Castner, Oleg Denisenko, and Karol Bomsztyk
Microplate-based chromatin immunoprecipitation method, Matrix ChIP: a platform to study signaling of complex genomic events
Nucleic Acids Research Advance Access published on January 18, 2008
Nucl. Acids Res. 2008 36: e17; doi:10.1093/nar/gkn001 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Takuma Gondai, Kazuya Yamaguchi, Naoko Miyano-Kurosaki, Yuichirou Habu, and Hiroshi Takaku
Short-hairpin RNAs synthesized by T7 phage polymerase do not induce interferon
Nucleic Acids Research Advance Access published on January 21, 2008
Nucl. Acids Res. 2008 36: e18; doi:10.1093/nar/gkm1043 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

R. Ingram, C. Gao, J. LeBon, Q. Liu, R. J. Mayoral, S. S. Sommer, M. Hoogenkamp, A. D. Riggs, and C. Bonifer
PAP-LMPCR for improved, allele-specific footprinting and automated chromatin fine structure analysis
Nucleic Acids Research Advance Access published on January 21, 2008
Nucl. Acids Res. 2008 36: e19; doi:10.1093/nar/gkm1159 [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.