| | Survey and Summary Computational disease gene identification: a concert of methods prioritizes type 2 diabetes and obesity candidate genes Nicki Tiffin, Euan Adie, Frances Turner, Han G. Brunner, Marc A. van Driel, Martin Oti, Nuria Lopez-Bigas, Christos Ouzounis, Carolina Perez-Iratxeta, Miguel A. Andrade-Navarro, Adebowale Adeyemo, Mary Elizabeth Patti, Colin A. M. Semple, and Winston Hide PMCID: PMC1475747 Xp54 and related (DDX6-like) RNA helicases: roles in messenger RNP assembly, translation regulation and RNA degradation Andrew Weston and John Sommerville PMCID: PMC1477856 A base pair at the bottom of the anticodon stem is reciprocally preferred for discrimination of cognate tRNAs by Escherichia coli lysyl- and glutaminyl-tRNA synthetases Jun-ichi Fukunaga, Satoshi Ohno, Kazuya Nishikawa, and Takashi Yokogawa PMCID: PMC1483225 Articles Human Rad51 protein displays enhanced homologous pairing of DNA sequences resembling those at genetically unstable loci Erica M. Seitz and Stephen C. Kowalczykowski PMCID: PMC1474073 Analysis of HIV-1 replication block due to substitutions at F61 residue of reverse transcriptase reveals additional defects involving the RNase H function Dibyakanti Mandal, Chandravanu Dash, Stuart F. J. Le Grice, and Vinayaka R. Prasad PMCID: PMC1474072 DNA looping by two-site restriction endonucleases: heterogeneous probability distributions for loop size and unbinding force Gregory J. Gemmen, Rachel Millin, and Douglas E. Smith PMCID: PMC1474071 The naturally occurring N6-threonyl adenine in anticodon loop of Schizosaccharomyces pombe tRNAi causes formation of a unique U-turn motif Eveline Lescrinier, Koen Nauwelaerts, Katia Zanier, Koen Poesen, Michael Sattler, and Piet Herdewijn PMCID: PMC1474066 Identification of multiple distinct Snf2 subfamilies with conserved structural motifs Andrew Flaus, David M. A. Martin, Geoffrey J. Barton, and Tom Owen-Hughes PMCID: PMC1474054 Hybridase activity of human ribonuclease-1 revealed by a real-time fluorometric assay Nicoletta Potenza, Vincenzo Salvatore, Annalucia Migliozzi, Valentina Martone, Valentina Nobile, and Aniello Russo PMCID: PMC1474055 Chromosome XII context is important for rDNA function in yeast Yeon-Hee Kim, Daisuke Ishikawa, Ho Phu Ha, Minetaka Sugiyama, Yoshinobu Kaneko, and Satoshi Harashima PMCID: PMC1474064 Depletion of SMN by RNA interference in HeLa cells induces defects in Cajal body formation Cyrille Girard, Henry Neel, Edouard Bertrand, and Rémy Bordonné PMCID: PMC1474063 Substitutions of Thr30 provide mechanistic insight into tryptophan-mediated activation of TRAP binding to RNA Vandana Payal and Paul Gollnick PMCID: PMC1474065 Protein complex compositions predicted by structural similarity Fred P. Davis, Hannes Braberg, Min-Yi Shen, Ursula Pieper, Andrej Sali, and M.S. Madhusudhan PMCID: PMC1474056 Polyadenylation of genomic RNA and initiation of antigenomic RNA in a positive-strand RNA virus are controlled by the same cis-element Mark J. M. van Ooij, Charlotta Polacek, Dirk H. R. F. Glaudemans, Judith Kuijpers, Frank J. M. van Kuppeveld, Raul Andino, Vadim I. Agol, and Willem J. G. Melchers PMCID: PMC1474053 Polyadenylation of ribosomal RNA in human cells Shimyn Slomovic, David Laufer, Dan Geiger, and Gadi Schuster PMCID: PMC1474067 Profiling Caenorhabditis elegans non-coding RNA expression with a combined microarray Housheng He, Lun Cai, Geir Skogerbø, Wei Deng, Tao Liu, Xiaopeng Zhu, Yudong Wang, Dong Jia, Zhihua Zhang, Yong Tao, Haipan Zeng, Muhammad Nauman Aftab, Yan Cui, Guozhen Liu, and Runsheng Chen PMCID: PMC1474057 New, extended hairpin form of the TAR-2 RNA domain points to the structural polymorphism at the 5′ end of the HIV-2 leader RNA Katarzyna Pachulska-Wieczorek, Katarzyna J. Purzycka, and Ryszard W. Adamiak PMCID: PMC1474061 The DNA polymerase λ is required for the repair of non-compatible DNA double strand breaks by NHEJ in mammalian cells Jean-Pascal Capp, François Boudsocq, Pascale Bertrand, Audrey Laroche-Clary, Philippe Pourquier, Bernard S. Lopez, Christophe Cazaux, Jean-Sébastien Hoffmann, and Yvan Canitrot PMCID: PMC1474058 Common determinants in DNA melting and helicase-catalysed DNA unwinding by papillomavirus replication protein E1 Sandrine Castella, Gregg Bingham, and Cyril M. Sanders PMCID: PMC1474052 Displacement of a DNA binding protein by Dda helicase Alicia K. Byrd and Kevin D. Raney PMCID: PMC1474059 Dominant-negative Pes1 mutants inhibit ribosomal RNA processing and cell proliferation via incorporation into the PeBoW-complex Thomas Grimm, Michael Hölzel, Michaela Rohrmoser, Thomas Harasim, Anastassia Malamoussi, Anita Gruber-Eber, Elisabeth Kremmer, and Dirk Eick PMCID: PMC1474060 Nitric oxide activation of Erk1/2 regulates the stability and translation of mRNA transcripts containing CU-rich elements Shuibang Wang, Jianhua Zhang, Stephanie Theel, Jennifer J. Barb, Peter J. Munson, and Robert L. Danner PMCID: PMC1475749 Structural analysis of hyperperiodic DNA from Caenorhabditis elegans Fernando Moreno-Herrero, Ralf Seidel, Steven M. Johnson, Andrew Fire, and Nynke H. Dekker PMCID: PMC1474062 Hepatitis B virus X protein and the estrogen receptor variant lacking exon 5 inhibit estrogen receptor signaling in hepatoma cells Juqiang Han, Lihua Ding, Bin Yuan, Xiao Yang, Xiaohui Wang, Jiezhi Li, Qiujun Lu, Cuifen Huang, and Qinong Ye PMCID: PMC1475750 Involvement of ![[var phi]](corehtml/pmc/pmcents/x03C6.gif) 29 DNA polymerase thumb subdomain in the proper coordination of synthesis and degradation during DNA replication Patricia Pérez-Arnaiz, José M. Lázaro, Margarita Salas, and Miguel de Vega PMCID: PMC1475753 Dynamic recruitment of transcription factors and epigenetic changes on the ER stress response gene promoters Giacomo Donati, Carol Imbriano, and Roberto Mantovani PMCID: PMC1475745 Distribution of gyrase and topoisomerase IV on bacterial nucleoid: implications for nucleoid organization Ya-Han Hsu, Meng-Wen Chung, and Tsai-Kun Li PMCID: PMC1475751 Characteristics of MuA transposase-catalyzed processing of model transposon end DNA hairpin substrates Anna-Helena Saariaho and Harri Savilahti PMCID: PMC1475752 An expectation-maximization algorithm for probabilistic reconstructions of full-length isoforms from splice graphs Yi Xing, Tianwei Yu, Ying Nian Wu, Meenakshi Roy, Joseph Kim, and Christopher Lee PMCID: PMC1475746 Pyrene binary probes for unambiguous detection of mRNA using time-resolved fluorescence spectroscopy Angel A. Martí, Xiaoxu Li, Steffen Jockusch, Zengmin Li, Bindu Raveendra, Sergey Kalachikov, James J. Russo, Irina Morozova, Sathyanarayanan V. Puthanveettil, Jingyue Ju, and Nicholas J. Turro PMCID: PMC1477857 Identifying an interaction site between MutH and the C-terminal domain of MutL by crosslinking, affinity purification, chemical coding and mass spectrometry Robert Ahrends, Jan Kosinski, Dieter Kirsch, Laura Manelyte, Luis Giron-Monzon, Lars Hummerich, Oliver Schulz, Bernhard Spengler, and Peter Friedhoff PMCID: PMC1483222 The nucleolar protein Esf2 interacts directly with the DExD/H box RNA helicase, Dbp8, to stimulate ATP hydrolysis Sander Granneman, ChieYu Lin, Erica A. Champion, Madhusudan R. Nandineni, Cornelia Zorca, and Susan J. Baserga PMCID: PMC1483223 Methods Online Aptamer mediated siRNA delivery Ted C. Chu, Karen Y. Twu, Andrew D. Ellington, and Matthew Levy PMCID: PMC1474074 Purification and preconcentration of genomic DNA from whole cell lysates using photoactivated polycarbonate (PPC) microfluidic chips Małgorzata A. Witek, Shawn D. Llopis, Abigail Wheatley, Robin L. McCarley, and Steven A. Soper PMCID: PMC1475748 Electrochemical detection of mismatched DNA using a MutS probe Minseon Cho, Sohyun Lee, Se-Young Han, Jin-Young Park, Md Aminur Rahman, Yoon-Bo Shim, and Changill Ban PMCID: PMC1483224 |
