| | Articles Monitoring tat peptide binding to TAR RNA by solid-state 31P–19F REDOR NMR Greg L. Olsen, Thomas E. Edwards, Pritilekha Deka, Gabriele Varani, Snorri Th. Sigurdsson, and Gary P. Drobny PMCID: PMC1151589 SW-ARRAY: a dynamic programming solution for the identification of copy-number changes in genomic DNA using array comparative genome hybridization data Thomas S. Price, Regina Regan, Richard Mott, Åsa Hedman, Ben Honey, Rachael J. Daniels, Lee Smith, Andy Greenfield, Ana Tiganescu, Veronica Buckle, Nicki Ventress, Helena Ayyub, Anita Salhan, Susana Pedraza-Diaz, John Broxholme, Jiannis Ragoussis, Douglas R. Higgs, Jonathan Flint, and Samantha J. L. Knight PMCID: PMC1151590 The 5′-AT-rich half-site of Maf recognition element: a functional target for bZIP transcription factor Maf Tomonori Yoshida, Tsuyoshi Ohkumo, Shoko Ishibashi, and Kunio Yasuda PMCID: PMC1156962 Identification of regulatory targets of tissue-specific transcription factors: application to retina-specific gene regulation Jiang Qian, Noriko Esumi, Yangjian Chen, Qingliang Wang, Itay Chowers, and Donald J. Zack PMCID: PMC1153713 Triplex-induced recombination and repair in the pyrimidine motif Jennifer M. Kalish, Michael M. Seidman, Daniel L. Weeks, and Peter M. Glazer PMCID: PMC1151591 A deoxyribozyme that synthesizes 2′,5′-branched RNA with any branch-site nucleotide Elizabeth D. Pratico, Yangming Wang, and Scott K. Silverman PMCID: PMC1153712 Polyamines stimulate the formation of mutagenic 1,N2-propanodeoxyguanosine adducts from acetaldehyde Jacob A. Theruvathu, Pawel Jaruga, Raghu G. Nath, Miral Dizdaroglu, and P. J. Brooks PMCID: PMC1156964 PCNA acts as a stationary loading platform for transiently interacting Okazaki fragment maturation proteins Anje Sporbert, Petra Domaing, Heinrich Leonhardt, and M. Cristina Cardoso PMCID: PMC1156965 Mapping the interaction of SmpB with ribosomes by footprinting of ribosomal RNA Natalia Ivanova, Michael Y. Pavlov, Elli Bouakaz, Måns Ehrenberg, and Lovisa Holmberg Schiavone PMCID: PMC1156966 Matrix metalloproteinase-1 up-regulation by hepatocyte growth factor in human dermal fibroblasts via ERK signaling pathway involves Ets1 and Fli1 Masatoshi Jinnin, Hironobu Ihn, Yoshihiro Mimura, Yoshihide Asano, Kenichi Yamane, and Kunihiko Tamaki PMCID: PMC1156961 Thermolytic CpG-containing DNA oligonucleotides as potential immunotherapeutic prodrugs Andrzej Grajkowski, Joao Pedras-Vasconcelos, Vivian Wang, Cristina Ausín, Sonja Hess, Daniela Verthelyi, and Serge L. Beaucage PMCID: PMC1156963 EID3 is a novel EID family member and an inhibitor of CBP-dependent co-activation Ann Båvner, Jason Matthews, Sabyasachi Sanyal, Jan-Åke Gustafsson, and Eckardt Treuter PMCID: PMC1159117 Human microRNA prediction through a probabilistic co-learning model of sequence and structure Jin-Wu Nam, Ki-Roo Shin, Jinju Han, Yoontae Lee, V. Narry Kim, and Byoung-Tak Zhang PMCID: PMC1159118 Distinct regions of RPB11 are required for heterodimerization with RPB3 in human and yeast RNA polymerase II Wagane J. Benga, Sylvie Grandemange, George V. Shpakovski, Elena K. Shematorova, Claude Kedinger, and Marc Vigneron PMCID: PMC1159119 MutS inhibits RecA-mediated strand transfer with methylated DNA substrates Melissa A. Calmann, James E. Evans, and M. G. Marinus PMCID: PMC1157099 Identification of novel restriction endonuclease-like fold families among hypothetical proteins Lisa N. Kinch, Krzysztof Ginalski, Leszek Rychlewski, and Nick V. Grishin PMCID: PMC1157100 A T-stem slip in human mitochondrial tRNALeu(CUN) governs its charging capacity Rui Hao, Ming-Wei Zhao, Zhan-Xi Hao, Yong-Neng Yao, and En-Duo Wang PMCID: PMC1157101 Evolutionary clues to eukaryotic DNA clamp-loading mechanisms: analysis of the functional constraints imposed on replication factor C AAA+ ATPases Andrew F. Neuwald PMCID: PMC1160110 Binding properties and evolution of homodimers in protein–protein interaction networks Iaroslav Ispolatov, Anton Yuryev, Ilya Mazo, and Sergei Maslov PMCID: PMC1160523 Ribonuclease PH plays a major role in the exonucleolytic maturation of CCA-containing tRNA precursors in Bacillus subtilis Tingyi Wen, Irina A. Oussenko, Olivier Pellegrini, David H. Bechhofer, and Ciarán Condon PMCID: PMC1160522 Codon usage comparison of novel genes in clinical isolates of Haemophilus influenzae John Gladitz, Kai Shen, Patricia Antalis, Fen Ze Hu, J. Christopher Post, and Garth D. Ehrlich PMCID: PMC1160521 Secondary structural characterization of oligonucleotide strands using electrospray ionization mass spectrometry Xinhua Guo, Michael F. Bruist, Darryl L. Davis, and Catherine M. Bentzley PMCID: PMC1164437 A computer program for the estimation of protein and nucleic acid sequence diversity in random point mutagenesis libraries Michael J. Volles and Peter T. Lansbury, Jr PMCID: PMC1166583 Archaeal Hel308 helicase targets replication forks in vivo and in vitro and unwinds lagging strands Colin P. Guy and Edward L. Bolt PMCID: PMC1168952 Identification of mixed di-cation forms of G-quadruplex in solution Primož Šket, Martin Črnugelj, and Janez Plavec PMCID: PMC1164438 Methods Online Real-time investigation of nucleic acids phosphorylation process using molecular beacons Zhiwen Tang, Kemin Wang, Weihong Tan, Changbei Ma, Jun Li, Lingfeng Liu, Qiuping Guo, and Xiangxian Meng PMCID: PMC1151592 Detection of single DNA molecules by multicolor quantum-dot end-labeling Aurélien Crut, Bénédicte Géron-Landre, Isabelle Bonnet, Stéphane Bonneau, Pierre Desbiolles, and Christophe Escudé PMCID: PMC1153714 High-throughput alternative splicing quantification by primer extension and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry Ron M. McCullough, Charles R. Cantor, and Chunming Ding PMCID: PMC1153715 Enhanced microarray performance using low complexity representations of the transcriptome Gaëlle Rondeau, Michael McClelland, Toan Nguyen, Rosana Risques, Yipeng Wang, Martin Judex, Ann H. Cho, and John Welsh PMCID: PMC1159120 Immobilized stem–loop structured probes as conformational switches for enzymatic detection of microbial 16S rRNA Benjamin Bockisch, Thomas Grunwald, Edzard Spillner, and Reinhard Bredehorst PMCID: PMC1159122 Conditional knockdown of Fgfr2 in mice using Cre-LoxP induced RNA interference Xavier Coumoul, Vivek Shukla, Cuiling Li, Rui-Hong Wang, and Chu-Xia Deng PMCID: PMC1159121 Corrigendum A systematic analysis of the silencing effects of an active siRNA at all single-nucleotide mismatched target sites Quan Du, Håkan Thonberg, Jue Wang, Claes Wahlestedt, and Zicai Liang PMCID: PMC1166582 Corrects: Quan Du, et al. A systematic analysis of the silencing effects of an active siRNA at all single-nucleotide mismatched target sites. Nucleic Acids Res. 2005; 33(5): 1671–1677. |
