| | Molecular Biology The leader region of Laminin B1 mRNA confers cap-independent translation Michaela Petz, Daniela Kozina, Heidemarie Huber, Tanja Siwiec, Joachim Seipelt, Wolfgang Sommergruber, and Wolfgang Mikulits PMCID: PMC1885646 Nitric oxide controls nuclear export of APE1/Ref-1 through S-nitrosation of Cysteines 93 and 310 Jing Qu, Guang-Hui Liu, Bo Huang, and Chang Chen PMCID: PMC1885639 Bidirectional transcription is an inherent feature of Giardia lamblia promoters and contributes to an abundance of sterile antisense transcripts throughout the genome Smilja Teodorovic, Colleen D. Walls, and Heidi G. Elmendorf PMCID: PMC1885649 C1D and hMtr4p associate with the human exosome subunit PM/Scl-100 and are involved in pre-rRNA processing Geurt Schilders, Erwin van Dijk, and Ger J.M. Pruijn PMCID: PMC1885644 Concentration-dependent organization of DNA by the dinoflagellate histone-like protein HCc3 Yuk-Hang Chan and Joseph T. Y. Wong PMCID: PMC1885672 Nuclear localization of human DNA mismatch repair protein exonuclease 1 (hEXO1) Nina Østergaard Knudsen, Finn Cilius Nielsen, Lena Vinther, Ronni Bertelsen, Steen Holten-Andersen, Sascha Emilie Liberti, Robert Hofstra, Krista Kooi, and Lene Juel Rasmussen PMCID: PMC1885640 RNA helicase A interacts with divergent lymphotropic retroviruses and promotes translation of human T-cell leukemia virus type 1 Cheryl Bolinger, Alper Yilmaz, Tiffiney Roberts Hartman, Melinda Butsch Kovacic, Soledad Fernandez, Jianxin Ye, Mary Forget, Patrick L. Green, and Kathleen Boris-Lawrie PMCID: PMC1885656 DNA structural deformations in the interaction of the controller protein C.AhdI with its operator sequence I. Papapanagiotou, S. D. Streeter, P. D. Cary, and G. G. Kneale PMCID: PMC1885659 Idefix insulator activity can be modulated by nearby regulatory elements E. Brasset, F. Bantignies, F. Court, S. Cheresiz, C. Conte, and C. Vaury PMCID: PMC1885662 Biochemical and cellular characteristics of the 3′  → 5′ exonuclease TREX2 Ming-Jiu Chen, Sheng-Mei Ma, Lavinia C. Dumitrache, and Paul Hasty PMCID: PMC1885668 Selective use of multiple vitamin D response elements underlies the 1 α,25-dihydroxyvitamin D3-mediated negative regulation of the human CYP27B1 gene Mikko M. Turunen, Thomas W. Dunlop, Carsten Carlberg, and Sami Väisänen PMCID: PMC1885674 Identification and characterization of OGG1 mutations in patients with Alzheimer's disease 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 PMCID: PMC1885677 A promoting role of androgen receptor in androgen-sensitive and -insensitive prostate cancer cells Tzu-Huey Li, Hongjuan Zhao, Yue Peng, Jason Beliakoff, James D. Brooks, and Zijie Sun PMCID: PMC1885678 R.KpnI, an HNH superfamily REase, exhibits differential discrimination at non-canonical sequences in the presence of Ca2+ and Mg2+ Matheshwaran Saravanan, Kommireddy Vasu, Radhakrishnan Kanakaraj, Desirazu N. Rao, and Valakunja Nagaraja PMCID: PMC1885652 RNA Polyadenylation of a functional mRNA controls gene expression in Escherichia coli Géraldine Joanny, Jacques Le Derout, Dominique Bréchemier-Baey, Valérie Labas, Joelle Vinh, Philippe Régnier, and Eliane Hajnsdorf PMCID: PMC1885654 HEXIM1 is a promiscuous double-stranded RNA-binding protein and interacts with RNAs in addition to 7SK in cultured cells Qintong Li, Jeffrey J. Cooper, Gary H. Altwerger, Michael D. Feldkamp, Madeline A. Shea, and David H. Price PMCID: PMC1885667 NXF2 is involved in cytoplasmic mRNA dynamics through interactions with motor proteins Keizo Takano, Takashi Miki, Jun Katahira, and Yoshihiro Yoneda PMCID: PMC1885657 Optimization and characterization of tRNA-shRNA expression constructs Lisa J. Scherer, Richard Frank, and John J. Rossi PMCID: PMC1885648 HIV controls the selective packaging of genomic, spliced viral and cellular RNAs into virions through different mechanisms Laurent Houzet, Jean Christophe Paillart, Fatima Smagulova, Stephan Maurel, Zakia Morichaud, Roland Marquet, and Marylène Mougel PMCID: PMC1885669 Structural Biology Quadruplex ligands may act as molecular chaperones for tetramolecular quadruplex formation Anne De Cian and Jean-Louis Mergny PMCID: PMC1885647 NMR evaluation of ammonium ion movement within a unimolecular G-quadruplex in solution Peter Podbevšek, Nicholas V. Hud, and Janez Plavec PMCID: PMC1895886 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 Sebastian Fenn, Zhihua Du, John K. Lee, Richard Tjhen, Robert M. Stroud, and Thomas L. James PMCID: PMC1885661 The recombination-associated protein RdgC adopts a novel toroidal architecture for DNA binding 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 PMCID: PMC1885664 Novel DNA-binding element within the C-terminal extension of the nuclear receptor DNA-binding domain Michał Jakób, Robert Kołodziejczyk, Marek Orłowski, Szymon Krzywda, Agnieszka Kowalska, Joanna Dutko-Gwóźdź, Tomasz Gwóźdź, Marian Kochman, Mariusz Jaskólski, and Andrzej Ożyhar PMCID: PMC1885670 Topoisomerase II, scaffold component, promotes chromatin compaction in vitro in a linker-histone H1-dependent manner Kohji Hizume, Sumiko Araki, Kenichi Yoshikawa, and Kunio Takeyasu PMCID: PMC1885653 Thermodynamics and NMR studies on Duck, Heron and Human HBV encapsidation signals Frederic C. Girard, Otmar M. Ottink, Kirsten A.M. Ampt, Marco Tessari, and Sybren S. Wijmenga PMCID: PMC1885660 Methods Online Real-time PCR mapping of DNaseI-hypersensitive sites using a novel ligation-mediated amplification technique George A. Follows, Mary E. Janes, Ludovic Vallier, Anthony R. Green, and Berthold Gottgens PMCID: PMC1885650 Multiplexing siRNAs to compress RNAi-based screen size in human cells 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 PMCID: PMC1885663 High-resolution AFM imaging of single-stranded DNA-binding (SSB) protein—DNA complexes Loïc Hamon, David Pastré, Pauline Dupaigne, Cyrille Le Breton, Eric Le Cam, and Olivier Piétrement PMCID: PMC1885666 A tractable method for simultaneous modifications to the head and tail of bacteriophage lambda and its application to enhancing phage-mediated gene delivery Christine N. Zanghi, Ramil Sapinoro, Birgit Bradel-Tretheway, and Stephen Dewhurst PMCID: PMC1885665 Carbodiimide-mediated cross-linking of RNA to nylon membranes improves the detection of siRNA, miRNA and piRNA by northern blot Gurman Singh Pall, Carles Codony-Servat, Jane Byrne, Leigh Ritchie, and Andrew Hamilton PMCID: PMC1885651 Parallel gene synthesis in a microfluidic device David S. Kong, Peter A. Carr, Lu Chen, Shuguang Zhang, and Joseph M. Jacobson PMCID: PMC1885655 DNA sequencing by MALDI-TOF MS using alkali cleavage of RNA/DNA chimeras Florence Mauger, Keith Bauer, Cassandra D. Calloway, Jérémy Semhoun, Tetsuya Nishimoto, Thomas W. Myers, David H. Gelfand, and Ivo G. Gut PMCID: PMC1885642 Comparison of approaches for rational siRNA design leading to a new efficient and transparent method Olga Matveeva, Yury Nechipurenko, Leo Rossi, Barry Moore, Pål Sætrom, Aleksey Y. Ogurtsov, John F. Atkins, and Svetlana A. Shabalina PMCID: PMC1885645 A recombineering based approach for high-throughput conditional knockout targeting vector construction Waiin Chan, Nina Costantino, Ruixue Li, Song Choon Lee, Qin Su, David Melvin, Donald L. Court, and Pentao Liu PMCID: PMC1885671 Computational Biology Mapping biomedical concepts onto the human genome by mining literature on chromosomal aberrations Steven Van Vooren, Bernard Thienpont, Björn Menten, Frank Speleman, Bart De Moor, Joris Vermeesch, and Yves Moreau PMCID: PMC1885641 Nucleic Acid Enzymes The human checkpoint sensor Rad9–Rad1–Hus1 interacts with and stimulates NEIL1 glycosylase Xin Guan, Haibo Bai, Guoli Shi, Corey A. Theriot, Tapas K. Hazra, Sankar Mitra, and A-Lien Lu PMCID: PMC1885643 Base-flipping dynamics in a DNA hairpin processing reaction Julien Bischerour and Ronald Chalmers PMCID: PMC1885676 The checkpoint clamp, Rad9-Rad1-Hus1 complex, preferentially stimulates the activity of apurinic/apyrimidinic endonuclease 1 and DNA polymerase β in long patch base excision repair Agnieszka Gembka, Magali Toueille, Ekaterina Smirnova, Rainer Poltz, Elena Ferrari, Giuseppe Villani, and Ulrich Hübscher PMCID: PMC1885638 Stimulation of fission yeast and mouse Hop2-Mnd1 of the Dmc1 and Rad51 recombinases Mickaël Ploquin, Galina V. Petukhova, Dany Morneau, Ugo Déry, Ali Bransi, Andrzej Stasiak, R. Daniel Camerini-Otero, and Jean-Yves Masson PMCID: PMC1885673 Flow cytometric analysis of DNA binding and cleavage by cell surface-displayed homing endonucleases Petra Volná, Jordan Jarjour, Sarah Baxter, Steve R. Roffler, Raymond J. Monnat, Jr, Barry L. Stoddard, and Andrew M. Scharenberg PMCID: PMC1885675 Corrigendum Human sat III and Drosophila hsr omega transcripts: a common paradigm for regulation of nuclear RNA processing in stressed cells C. Jolly and S. C. Lakhotia PMCID: PMC1885658 Corrects: Caroline Jolly, et al. Human sat III and Drosophila hsrω transcripts: a common paradigm for regulation of nuclear RNA processing in stressed cells. Nucleic Acids Res. 2006 November; 34(19): 5508–5514. |
