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Previous Next 		Contents: Volume 35, Number 8, April 2007   [Index by Author] 

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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.

Computational Biology Back

Steven Van Vooren, Bernard Thienpont, Björn Menten, Frank Speleman, Bart De Moor, Joris Vermeesch, and Yves Moreau
Mapping biomedical concepts onto the human genome by mining literature on chromosomal aberrations
Nucleic Acids Research Advance Access published on April 1, 2007
Nucl. Acids Res. 2007 35: 2533-2543; doi:10.1093/nar/gkm054 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Molecular Biology Back

Michaela Petz, Daniela Kozina, Heidemarie Huber, Tanja Siwiec, Joachim Seipelt, Wolfgang Sommergruber, and Wolfgang Mikulits
The leader region of Laminin B1 mRNA confers cap-independent translation
Nucleic Acids Research Advance Access published on March 29, 2007
Nucl. Acids Res. 2007 35: 2473-2482; doi:10.1093/nar/gkm096 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Jing Qu, Guang-Hui Liu, Bo Huang, and Chang Chen
Nitric oxide controls nuclear export of APE1/Ref-1 through S-nitrosation of Cysteines 93 and 310
Nucleic Acids Research Advance Access published on April 1, 2007
Nucl. Acids Res. 2007 35: 2522-2532; doi:10.1093/nar/gkl1163 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Smilja Teodorovic, Colleen D. Walls, and Heidi G. Elmendorf
Bidirectional transcription is an inherent feature of Giardia lamblia promoters and contributes to an abundance of sterile antisense transcripts throughout the genome
Nucleic Acids Research Advance Access published on April 1, 2007
Nucl. Acids Res. 2007 35: 2544-2553; doi:10.1093/nar/gkm105 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Geurt Schilders, Erwin van Dijk, and Ger J.M. Pruijn
C1D and hMtr4p associate with the human exosome subunit PM/Scl-100 and are involved in pre-rRNA processing
Nucleic Acids Research Advance Access published on April 4, 2007
Nucl. Acids Res. 2007 35: 2564-2572; doi:10.1093/nar/gkm082 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Yuk-Hang Chan and Joseph T. Y. Wong
Concentration-dependent organization of DNA by the dinoflagellate histone-like protein HCc3
Nucleic Acids Research Advance Access published on April 4, 2007
Nucl. Acids Res. 2007 35: 2573-2583; doi:10.1093/nar/gkm165 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Nina Østergaard Knudsen, Finn Cilius Nielsen, Lena Vinther, Ronni Bertelsen, Steen Holten-Andersen, Sascha Emilie Liberti, Robert Hofstra, Krista Kooi, and Lene Juel Rasmussen
Nuclear localization of human DNA mismatch repair protein exonuclease 1 (hEXO1)
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2609-2619; doi:10.1093/nar/gkl1166 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Cheryl Bolinger, Alper Yilmaz, Tiffiney Roberts Hartman, Melinda Butsch Kovacic, Soledad Fernandez, Jianxin Ye, Mary Forget, Patrick L. Green, and Kathleen Boris-Lawrie
RNA helicase A interacts with divergent lymphotropic retroviruses and promotes translation of human T-cell leukemia virus type 1
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2629-2642; doi:10.1093/nar/gkm124 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

I. Papapanagiotou, S. D. Streeter, P. D. Cary, and G. G. Kneale
DNA structural deformations in the interaction of the controller protein C.AhdI with its operator sequence
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2643-2650; doi:10.1093/nar/gkm129 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

E. Brasset, F. Bantignies, F. Court, S. Cheresiz, C. Conte, and C. Vaury
Idefix insulator activity can be modulated by nearby regulatory elements
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2661-2670; doi:10.1093/nar/gkm140 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Ming-Jiu Chen, Sheng-Mei Ma, Lavinia C. Dumitrache, and Paul Hasty
Biochemical and cellular characteristics of the 3' -> 5' exonuclease TREX2
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2682-2694; doi:10.1093/nar/gkm151 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Mikko M. Turunen, Thomas W. Dunlop, Carsten Carlberg, and Sami Väisänen
Selective use of multiple vitamin D response elements underlies the 1 {alpha},25-dihydroxyvitamin D3-mediated negative regulation of the human CYP27B1 gene
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2734-2747; doi:10.1093/nar/gkm179 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Guogen Mao, Xiaoyu Pan, Bei-Bei Zhu, Yanbin Zhang, Fenghua Yuan, Jian Huang, Mark A. Lovell, Maxwell P. Lee, William R. Markesbery, Guo-Min Li, and Liya Gu
Identification and characterization of OGG1 mutations in patients with Alzheimer's disease
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2759-2766; doi:10.1093/nar/gkm189 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Tzu-Huey Li, Hongjuan Zhao, Yue Peng, Jason Beliakoff, James D. Brooks, and Zijie Sun
A promoting role of androgen receptor in androgen-sensitive and -insensitive prostate cancer cells
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2767-2776; doi:10.1093/nar/gkm198 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Matheshwaran Saravanan, Kommireddy Vasu, Radhakrishnan Kanakaraj, Desirazu N. Rao, and Valakunja Nagaraja
R.KpnI, an HNH superfamily REase, exhibits differential discrimination at non-canonical sequences in the presence of Ca2+ and Mg2+
Nucleic Acids Research Advance Access published on April 11, 2007
Nucl. Acids Res. 2007 35: 2777-2786; doi:10.1093/nar/gkm114 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Nucleic Acid Enzymes Back

Xin Guan, Haibo Bai, Guoli Shi, Corey A. Theriot, Tapas K. Hazra, Sankar Mitra, and A-Lien Lu
The human checkpoint sensor Rad9–Rad1–Hus1 interacts with and stimulates NEIL1 glycosylase
Nucleic Acids Research Advance Access published on March 29, 2007
Nucl. Acids Res. 2007 35: 2463-2472; doi:10.1093/nar/gkm075 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Julien Bischerour and Ronald Chalmers
Base-flipping dynamics in a DNA hairpin processing reaction
Nucleic Acids Research Advance Access published on April 4, 2007
Nucl. Acids Res. 2007 35: 2584-2595; doi:10.1093/nar/gkm186 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Agnieszka Gembka, Magali Toueille, Ekaterina Smirnova, Rainer Poltz, Elena Ferrari, Giuseppe Villani, and Ulrich Hübscher
The checkpoint clamp, Rad9-Rad1-Hus1 complex, preferentially stimulates the activity of apurinic/apyrimidinic endonuclease 1 and DNA polymerase ß in long patch base excision repair
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2596-2608; doi:10.1093/nar/gkl1139 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Mickaël Ploquin, Galina V. Petukhova, Dany Morneau, Ugo Déry, Ali Bransi, Andrzej Stasiak, R. Daniel Camerini-Otero, and Jean-Yves Masson
Stimulation of fission yeast and mouse Hop2-Mnd1 of the Dmc1 and Rad51 recombinases
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2719-2733; doi:10.1093/nar/gkm174 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Petra Volná, Jordan Jarjour, Sarah Baxter, Steve R. Roffler, Raymond J. Monnat, Jr, Barry L. Stoddard, and Andrew M. Scharenberg
Flow cytometric analysis of DNA binding and cleavage by cell surface-displayed homing endonucleases
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2748-2758; doi:10.1093/nar/gkm182 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

RNA Back

Géraldine Joanny, Jacques Le Derout, Dominique Bréchemier-Baey, Valérie Labas, Joelle Vinh, Philippe Régnier, and Eliane Hajnsdorf
Polyadenylation of a functional mRNA controls gene expression in Escherichia coli
Nucleic Acids Research Advance Access published on March 29, 2007
Nucl. Acids Res. 2007 35: 2494-2502; doi:10.1093/nar/gkm120 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Qintong Li, Jeffrey J. Cooper, Gary H. Altwerger, Michael D. Feldkamp, Madeline A. Shea, and David H. Price
HEXIM1 is a promiscuous double-stranded RNA-binding protein and interacts with RNAs in addition to 7SK in cultured cells
Nucleic Acids Research Advance Access published on March 29, 2007
Nucl. Acids Res. 2007 35: 2503-2512; doi:10.1093/nar/gkm150 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Keizo Takano, Takashi Miki, Jun Katahira, and Yoshihiro Yoneda
NXF2 is involved in cytoplasmic mRNA dynamics through interactions with motor proteins
Nucleic Acids Research Advance Access published on April 1, 2007
Nucl. Acids Res. 2007 35: 2513-2521; doi:10.1093/nar/gkm125 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Lisa J. Scherer, Richard Frank, and John J. Rossi
Optimization and characterization of tRNA-shRNA expression constructs
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2620-2628; doi:10.1093/nar/gkm103 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Laurent Houzet, Jean Christophe Paillart, Fatima Smagulova, Stephan Maurel, Zakia Morichaud, Roland Marquet, and Marylène Mougel
HIV controls the selective packaging of genomic, spliced viral and cellular RNAs into virions through different mechanisms
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2695-2704; doi:10.1093/nar/gkm153 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Structural Biology Back

Anne De Cian and Jean-Louis Mergny
Quadruplex ligands may act as molecular chaperones for tetramolecular quadruplex formation
Nucleic Acids Research Advance Access published on March 29, 2007
Nucl. Acids Res. 2007 35: 2483-2493; doi:10.1093/nar/gkm098 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Peter Podbevsek, Nicholas V. Hud, and Janez Plavec
NMR evaluation of ammonium ion movement within a unimolecular G-quadruplex in solution
Nucleic Acids Research Advance Access published on April 4, 2007
Nucl. Acids Res. 2007 35: 2554-2563; doi:10.1093/nar/gkm138 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Sebastian Fenn, Zhihua Du, John K. Lee, Richard Tjhen, Robert M. Stroud, and Thomas L. James
Crystal structure of the third KH domain of human poly(C)-binding protein-2 in complex with a C-rich strand of human telomeric DNA at 1.6 Å resolution
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2651-2660; doi:10.1093/nar/gkm139 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Jun Yong Ha, Hye Kyong Kim, Do Jin Kim, Kyoung Hoon Kim, Sung Jin Oh, Hyung Ho Lee, Hye Jin Yoon, Hyun Kyu Song, and Se Won Suh
The recombination-associated protein RdgC adopts a novel toroidal architecture for DNA binding
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2671-2681; doi:10.1093/nar/gkm144 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Michal Jakób, Robert Kolodziejczyk, Marek Orlowski, Szymon Krzywda, Agnieszka Kowalska, Joanna Dutko-Gwózdz, Tomasz Gwózdz, Marian Kochman, Mariusz Jaskólski, and Andrzej Ozyhar
Novel DNA-binding element within the C-terminal extension of the nuclear receptor DNA-binding domain
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2705-2718; doi:10.1093/nar/gkm162 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Kohji Hizume, Sumiko Araki, Kenichi Yoshikawa, and Kunio Takeyasu
Topoisomerase II, scaffold component, promotes chromatin compaction in vitro in a linker-histone H1-dependent manner
Nucleic Acids Research Advance Access published on April 11, 2007
Nucl. Acids Res. 2007 35: 2787-2799; doi:10.1093/nar/gkm116 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Frederic C. Girard, Otmar M. Ottink, Kirsten A.M. Ampt, Marco Tessari, and Sybren S. Wijmenga
Thermodynamics and NMR studies on Duck, Heron and Human HBV encapsidation signals
Nucleic Acids Research Advance Access published on April 11, 2007
Nucl. Acids Res. 2007 35: 2800-2811; doi:10.1093/nar/gkm131 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Methods Online Back

George A. Follows, Mary E. Janes, Ludovic Vallier, Anthony R. Green, and Berthold Gottgens
Real-time PCR mapping of DNaseI-hypersensitive sites using a novel ligation-mediated amplification technique
Nucleic Acids Research Advance Access published on March 27, 2007
Nucl. Acids Res. 2007 35: e56; doi:10.1093/nar/gkm108 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Scott E. Martin, Tamara L. Jones, Cheryl L. Thomas, Philip L. Lorenzi, Dac A. Nguyen, Timothy Runfola, Michele Gunsior, John N. Weinstein, Paul K. Goldsmith, Eric Lader, Konrad Huppi, and Natasha J. Caplen
Multiplexing siRNAs to compress RNAi-based screen size in human cells
Nucleic Acids Research Advance Access published on March 28, 2007
Nucl. Acids Res. 2007 35: e57; doi:10.1093/nar/gkm141 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Loïc Hamon, David Pastré, Pauline Dupaigne, Cyrille Le Breton, Eric Le Cam, and Olivier Piétrement
High-resolution AFM imaging of single-stranded DNA-binding (SSB) protein—DNA complexes
Nucleic Acids Research Advance Access published on March 28, 2007
Nucl. Acids Res. 2007 35: e58; doi:10.1093/nar/gkm147 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Christine N. Zanghi, Ramil Sapinoro, Birgit Bradel-Tretheway, and Stephen Dewhurst
A tractable method for simultaneous modifications to the head and tail of bacteriophage lambda and its application to enhancing phage-mediated gene delivery
Nucleic Acids Research Advance Access published on March 28, 2007
Nucl. Acids Res. 2007 35: e59; doi:10.1093/nar/gkm146 [Abstract] [FREE Full Text] [Print PDF][Screen PDF]  

Gurman Singh Pall, Carles Codony-Servat, Jane Byrne, Leigh Ritchie, and Andrew Hamilton
Carbodiimide-mediated cross-linking of RNA to nylon membranes improves the detection of siRNA, miRNA and piRNA by northern blot
Nucleic Acids Research Advance Access published on April 2, 2007
Nucl. Acids Res. 2007 35: e60; doi:10.1093/nar/gkm112 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

David S. Kong, Peter A. Carr, Lu Chen, Shuguang Zhang, and Joseph M. Jacobson
Parallel gene synthesis in a microfluidic device
Nucleic Acids Research Advance Access published on April 2, 2007
Nucl. Acids Res. 2007 35: e61; doi:10.1093/nar/gkm121 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Florence Mauger, Keith Bauer, Cassandra D. Calloway, Jérémy Semhoun, Tetsuya Nishimoto, Thomas W. Myers, David H. Gelfand, and Ivo G. Gut
DNA sequencing by MALDI-TOF MS using alkali cleavage of RNA/DNA chimeras
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: e62; doi:10.1093/nar/gkm056 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Olga Matveeva, Yury Nechipurenko, Leo Rossi, Barry Moore, Pål Sætrom, Aleksey Y. Ogurtsov, John F. Atkins, and Svetlana A. Shabalina
Comparison of approaches for rational siRNA design leading to a new efficient and transparent method
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: e63; doi:10.1093/nar/gkm088 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material]  

Waiin Chan, Nina Costantino, Ruixue Li, Song Choon Lee, Qin Su, David Melvin, Donald L. Court, and Pentao Liu
A recombineering based approach for high-throughput conditional knockout targeting vector construction
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: e64; doi:10.1093/nar/gkm163 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Data]  

Corrigendum Back

C. Jolly and S. C. Lakhotia
Human sat III and Drosophila hsr omega transcripts: a common paradigm for regulation of nuclear RNA processing in stressed cells
Nucleic Acids Research Advance Access published on April 10, 2007
Nucl. Acids Res. 2007 35: 2812; doi:10.1093/nar/gkm128 [Extract] [FREE Full Text] [Print PDF][Screen PDF]  

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.