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Previous Next 		Contents: Volume 33, Number 22, 2005    [Index by Author] 
      Down Survey and Summary
      Down Articles
      Down Corrigendum
      Down Methods Online
 

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

Carine Barreau, Luc Paillard, and H. Beverley Osborne
AU-rich elements and associated factors: are there unifying principles?
Nucl. Acids Res. 2006 33: 7138-7150; doi:10.1093/nar/gki1012 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Articles:Back

Robert K. Neely, Dalia Daujotyte, Saulius Grazulis, Steven W. Magennis, David T. F. Dryden, Saulius Klimasauskas, and Anita C. Jones
Time-resolved fluorescence of 2-aminopurine as a probe of base flipping in M.HhaI–DNA complexes
Nucl. Acids Res. 2005 33: 6953-6960; doi:10.1093/nar/gki995 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Javier Cabello-Villegas and Edward P. Nikonowicz
Solution structure of {psi}32-modified anticodon stem–loop of Escherichia coli tRNAPhe
Nucl. Acids Res. 2005 33: 6961-6971; doi:10.1093/nar/gki1004 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Shikha Gupta and Katheryn Meek
The leucine rich region of DNA-PKcs contributes to its innate DNA affinity
Nucl. Acids Res. 2005 33: 6972-6981; doi:10.1093/nar/gki990 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Morgan C. Zittel and James L. Keck
Coupling DNA-binding and ATP hydrolysis in Escherichia coli RecQ: role of a highly conserved aromatic-rich sequence
Nucl. Acids Res. 2005 33: 6982-6991; doi:10.1093/nar/gki999 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Peter C. Anderson and Sandro Mecozzi
Identification of a 14mer RNA that recognizes and binds flavin mononucleotide with high affinity
Nucl. Acids Res. 2005 33: 6992-6999; doi:10.1093/nar/gki992 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Dalibor Blazek, Matjaz Barboric, Jiri Kohoutek, Irena Oven, and B. Matija Peterlin
Oligomerization of HEXIM1 via 7SK snRNA and coiled-coil region directs the inhibition of P-TEFb
Nucl. Acids Res. 2005 33: 7000-7010; doi:10.1093/nar/gki997 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Kalpana Bhargava and Linda L. Spremulli
Role of the N- and C-terminal extensions on the activity of mammalian mitochondrial translational initiation factor 3
Nucl. Acids Res. 2005 33: 7011-7018; doi:10.1093/nar/gki1007 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Chang Geng Peng and Masad J. Damha
Synthesis and hybridization studies of oligonucleotides containing 1-(2-deoxy-2-{alpha}-C-hydroxymethyl-ß-D-ribofuranosyl)thymine (2'-{alpha}-hm-dT)
Nucl. Acids Res. 2005 33: 7019-7028; doi:10.1093/nar/gki1003 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Stefano Piana
Structure and energy of a DNA dodecamer under tensile load
Nucl. Acids Res. 2005 33: 7029-7038; doi:10.1093/nar/gki1010 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Kristin Eisenschmidt, Thomas Lanio, András Simoncsits, Albert Jeltsch, Vera Pingoud, Wolfgang Wende, and Alfred Pingoud
Developing a programmed restriction endonuclease for highly specific DNA cleavage
Nucl. Acids Res. 2005 33: 7039-7047; doi:10.1093/nar/gki1009 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Remo Rohs, Itai Bloch, Heinz Sklenar, and Zippora Shakked
Molecular flexibility in ab initio drug docking to DNA: binding-site and binding-mode transitions in all-atom Monte Carlo simulations
Nucl. Acids Res. 2005 33: 7048-7057; doi:10.1093/nar/gki1008 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

David Choury, Jean-Claude Farré, Xavier Jordana, and Alejandro Araya
Gene expression studies in isolated mitochondria: Solanum tuberosum rps10 is recognized by cognate potato but not by the transcription, splicing and editing machinery of wheat mitochondria
Nucl. Acids Res. 2005 33: 7058-7065; doi:10.1093/nar/gki1017 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Haeyoung Jeong, Joung Han Yim, Choonghwan Lee, Sang-Haeng Choi, Yon Kyoung Park, Sung Ho Yoon, Cheol-Goo Hur, Ho-Young Kang, Dockyu Kim, Hyun Hee Lee, Kyun Hyang Park, Seung-Hwan Park, Hong-Seog Park, Hong Kum Lee, Tae Kwang Oh, and Jihyun F. Kim
Genomic blueprint of Hahella chejuensis, a marine microbe producing an algicidal agent
Nucl. Acids Res. 2005 33: 7066-7073; doi:10.1093/nar/gki1016 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Gopal P. Patel, Shuhua Ma, and Jnanankur Bag
The autoregulatory translational control element of poly(A)-binding protein mRNA forms a heteromeric ribonucleoprotein complex
Nucl. Acids Res. 2005 33: 7074-7089; doi:10.1093/nar/gki1014 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Sandeep Kumar Srivastava, Divya Dube, Neetu Tewari, Namrata Dwivedi, Rama Pati Tripathi, and Ravishankar Ramachandran
Mycobacterium tuberculosis NAD+-dependent DNA ligase is selectively inhibited by glycosylamines compared with human DNA ligase I
Nucl. Acids Res. 2005 33: 7090-7101; doi:10.1093/nar/gki1006 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Eun Shik Choi, Jin A Shin, Hyun Soo Kim, and Yeun Kyu Jang
Dynamic regulation of replication independent deposition of histone H3 in fission yeast
Nucl. Acids Res. 2005 33: 7102-7110; doi:10.1093/nar/gki1011 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Shu-ichi Nakano, Yuuki Uotani, Kazuya Uenishi, Masayuki Fujii, and Naoki Sugimoto
DNA base flipping by a base pair-mimic nucleoside
Nucl. Acids Res. 2005 33: 7111-7119; doi:10.1093/nar/gki1018 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Timo Lassmann and Erik L. L. Sonnhammer
Automatic assessment of alignment quality
Nucl. Acids Res. 2005 33: 7120-7128; doi:10.1093/nar/gki1020 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Vyacheslav V. Filichev, Birte Vester, Lykke H. Hansen, and Erik B. Pedersen
Easily denaturing nucleic acids derived from intercalating nucleic acids: thermal stability studies, dual duplex invasion and inhibition of transcription start
Nucl. Acids Res. 2005 33: 7129-7137; doi:10.1093/nar/gki1019 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Wojciech Kasprzak, Eckart Bindewald, and Bruce A. Shapiro
Structural polymorphism of the HIV-1 leader region explored by computational methods
Nucl. Acids Res. 2005 33: 7151-7163; doi:10.1093/nar/gki1015 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Srinivas A. Kandadai and Yingfu Li
Characterization of a catalytically efficient acidic RNA-cleaving deoxyribozyme
Nucl. Acids Res. 2006 33: 7164-7175; doi:10.1093/nar/gki1013 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Corrigendum:Back

Richard A. Notebaart, Martijn A. Huynen, Bas Teusink, Roland J. Siezen, and Berend Snel
Correlation between sequence conservation and the genomic context after gene duplication
Nucl. Acids Res. 2005 33: 7176; doi:10.1093/nar/gki1005 [Extract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Methods Online:Back

Susanna M. Lewis, Shuang Chen, Jeffrey N. Strathern, and Alison J. Rattray
New approaches to the analysis of palindromic sequences from the human genome: evolution and polymorphism of an intronic site at the NF1 locus
Nucl. Acids Res. 2005 33: e186; doi:10.1093/nar/gni189 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Karol L. Thompson, Barry A. Rosenzweig, P. Scott Pine, Jacques Retief, Yaron Turpaz, Cynthia A. Afshari, Hisham K. Hamadeh, Michael A. Damore, Michael Boedigheimer, Eric Blomme, Rita Ciurlionis, Jeffrey F. Waring, James C. Fuscoe, Richard Paules, Charles J. Tucker, Thomas Fare, Ernest M. Coffey, Yudong He, Patrick J. Collins, Kurt Jarnagin, Susan Fujimoto, Brigitte Ganter, Gretchen Kiser, Tamma Kaysser-Kranich, Joseph Sina, and Frank D. Sistare
Use of a mixed tissue RNA design for performance assessments on multiple microarray formats
Nucl. Acids Res. 2005 33: e187; doi:10.1093/nar/gni186 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Petra Langerak, Anders O. H. Nygren, Jan P. Schouten, and Heinz Jacobs
Rapid and quantitative detection of homologous and non-homologous recombination events using three oligonucleotide MLPA
Nucl. Acids Res. 2005 33: e188; doi:10.1093/nar/gni187 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Felix Dafhnis-Calas, Zhengyao Xu, Steve Haines, Sunir K. Malla, Margaret C. M. Smith, and William R. A. Brown
Iterative in vivo assembly of large and complex transgenes by combining the activities of {varphi}C31 integrase and Cre recombinase
Nucl. Acids Res. 2005 33: e189; doi:10.1093/nar/gni192 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Alice A. Chen, Austin M. Derfus, Salman R. Khetani, and Sangeeta N. Bhatia
Quantum dots to monitor RNAi delivery and improve gene silencing
Nucl. Acids Res. 2005 33: e190; doi:10.1093/nar/gni188 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Heather L. Newkirk, Joan H.M. Knoll, and Peter K. Rogan
Distortion of quantitative genomic and expression hybridization by Cot-1 DNA: mitigation of this effect
Nucl. Acids Res. 2005 33: e191; doi:10.1093/nar/gni190 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Request Permissions]  

Paul van den IJssel, Marianne Tijssen, Suet-Feung Chin, Paul Eijk, Beatriz Carvalho, Erik Hopmans, Henne Holstege, Dhinoth Kumar Bangarusamy, Jos Jonkers, Gerrit A. Meijer, Carlos Caldas, and Bauke Ylstra
Human and mouse oligonucleotide-based array CGH
Nucl. Acids Res. 2005 33: e192; doi:10.1093/nar/gni191 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Laura L. Elo, Leo Lahti, Heli Skottman, Minna Kyläniemi, Riitta Lahesmaa, and Tero Aittokallio
Integrating probe-level expression changes across generations of Affymetrix arrays
Nucl. Acids Res. 2005 33: e193; doi:10.1093/nar/gni193 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [Request Permissions]  

Ai-Di Gu, Hui Zhou, Chun-Hong Yu, and Liang-Hu Qu
A novel experimental approach for systematic identification of box H/ACA snoRNAs from eukaryotes
Nucl. Acids Res. 2005 33: e194; doi:10.1093/nar/gni185 [Abstract] [FREE Full Text] [Print PDF][Screen PDF] [Supplementary Material] [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.