| | Articles Nucleic Acids Res. 2003 November 1; 31(21): 6063. doi: 10.1093/nar/gkg843.PMCID: PMC275482 SURVEY AND SUMMARY: Therapeutic modulation of endogenous gene function by agents with designed DNA-sequence specificities Taco G. Uil, Hidde J. Haisma, and Marianne G. Rots PMCID: PMC275457 SURVEY AND SUMMARY: Diversity of Type II restriction endonucleases that require two DNA recognition sites Merlind Mucke, Detlev H. Kruger, and Monika Reuter PMCID: PMC275478 8-Hydroxyguanine in a mutational hotspot of the c-Ha-ras gene causes misreplication, ‘action-at-a-distance’ mutagenesis and inhibition of replication Paweł Jałoszyński, Chikahide Masutani, Fumio Hanaoka, Ana Blanco Perez, and Susumu Nishimura PMCID: PMC275471 Exegesis: a procedure to improve gene predictions and its use to find immunoglobulin superfamily proteins in the human and mouse genomes Bernard de Bono and Cyrus Chothia PMCID: PMC275470 Identification of peptide inhibitors of pre-mRNA splicing derived from the essential interaction domains of CDC5L and PLRG1 Paul Ajuh and Angus I. Lamond PMCID: PMC275459 POLQ (Pol θ), a DNA polymerase and DNA-dependent ATPase in human cells Mineaki Seki, Federica Marini, and Richard D. Wood PMCID: PMC275456 Transcriptional response to DNA damage in the archaeon Sulfolobus solfataricus Vincenzo Salerno, Alessandra Napoli, Malcolm F. White, Mosè Rossi, and Maria Ciaramella PMCID: PMC275473 Cold-sensitive mutants of Taq DNA polymerase provide a hot start for PCR Milko B. Kermekchiev, Anatoly Tzekov, and Wayne M. Barnes PMCID: PMC275455 A role for c-Myc in the regulation of ribosomal RNA processing Isabel Schlosser, Michael Hölzel, Marlies Mürnseer, Helmut Burtscher, Ulrich H. Weidle, and Dirk Eick PMCID: PMC275450 Inhibition of pre-mRNA splicing by synthetic branched nucleic acids Sandra Carriero and Masad J. Damha PMCID: PMC275466 Gene positional changes relative to the nuclear substructure correlate with the proliferating status of hepatocytes during liver regeneration Apolinar Maya-Mendoza, Rolando Hernández-Muñoz, Patricio Gariglio, and Armando Aranda-Anzaldo PMCID: PMC275467 DNA mismatches and GC-rich motifs target transposition by the RAG1/RAG2 transposase Chia-Lun Tsai, Monalisa Chatterji, and David G. Schatz PMCID: PMC275461 Energetics of echinomycin binding to DNA Fenfei Leng, Jonathan B. Chaires, and Michael J. Waring PMCID: PMC275468 Poly(ADP-ribose) polymerase-1 is a survival factor for radiation-exposed intestinal epithelial stem cells in vivo Satoshi Ishizuka, Kareen Martin, Catherine Booth, Christopher S. Potten, Gilbert de Murcia, Alexander Bürkle, and Thomas B. L. Kirkwood PMCID: PMC275480 ssDNA-dependent colocalization of adeno-associated virus Rep and herpes simplex virus ICP8 in nuclear replication domains Regine Heilbronn, Markus Engstler, Stefan Weger, Antje Krahn, Christian Schetter, and Michael Boshart PMCID: PMC275469 Splice site prediction with quadratic discriminant analysis using diversity measure Lirong Zhang and Liaofu Luo PMCID: PMC275452 Recognition of threosyl nucleotides by DNA and RNA polymerases Veerle Kempeneers, Karen Vastmans, Jef Rozenski, and Piet Herdewijn PMCID: PMC275475 Groove-binding unsymmetrical cyanine dyes for staining of DNA: syntheses and characterization of the DNA-binding H. Jonas Karlsson, Maja Eriksson, Erik Perzon, Björn Åkerman, Per Lincoln, and Gunnar Westman PMCID: PMC275463 Groove-binding unsymmetrical cyanine dyes for staining of DNA: dissociation rates in free solution and electrophoresis gels Maja Eriksson, H. Jonas Karlsson, Gunnar Westman, and Björn Åkerman PMCID: PMC275464 The fragile X syndrome repeats form RNA hairpins that do not activate the interferon-inducible protein kinase, PKR, but are cut by Dicer Vaishali Handa, Tapas Saha, and Karen Usdin PMCID: PMC275460 Automated identification of RNA conformational motifs: theory and application to the HM LSU 23S rRNA Eli Hershkovitz, Emmanuel Tannenbaum, Shelley B. Howerton, Ajay Sheth, Allen Tannenbaum, and Loren Dean Williams PMCID: PMC275477 Repair of oxidative DNA damage by amino acids J. R. Milligan, J. A. Aguilera, A. Ly, N. Q. Tran, O. Hoang, and J. F. Ward PMCID: PMC275458 U2AF modulates poly(A) length control by the poly(A)-limiting element Haidong Gu and Daniel R. Schoenberg PMCID: PMC275465 Possible anti-recombinogenic role of Bloom’s syndrome helicase in double-strand break processing Rosine Onclercq-Delic, Patrick Calsou, Christine Delteil, Bernard Salles, Dora Papadopoulo, and Mounira Amor-Guéret PMCID: PMC275476 Functional modules by relating protein interaction networks and gene expression Sabine Tornow and H. W. Mewes PMCID: PMC275479 Functional dissection of the mouse tyrosinase locus control region identifies a new putative boundary activity Patricia Giraldo, Antonio Martínez, Lucía Regales, Alfonso Lavado, Angel García-Díaz, Ángel Alonso, Ana Busturia, and Lluís Montoliu PMCID: PMC275449 Transcription profiles of the bacterium Mycoplasma pneumoniae grown at different temperatures J. Weiner, III, C.-U. Zimmerman, H. W. H. Göhlmann, and R. Herrmann PMCID: PMC275481 Intrinsic differences between authentic and cryptic 5′ splice sites Xavier Roca, Ravi Sachidanandam, and Adrian R. Krainer PMCID: PMC275472 Human EFO1p exhibits acetyltransferase activity and is a unique combination of linker histone and Ctf7p/Eco1p chromatid cohesion establishment domains Aaron M. Bellows, Margaret A. Kenna, Lynne Cassimeris, and Robert V. Skibbens PMCID: PMC275453 Characterisation of new substrate specificities of Escherichia coli and Saccharomyces cerevisiae AP endonucleases Alexander A. Ishchenko, Guenhaël Sanz, Cyril V. Privezentzev, Andrei V. Maksimenko, and Murat Saparbaev PMCID: PMC275454 Matrix attachment region (MAR) properties and abnormal expansion of AT island minisatellites in FRA16B fragile sites in leukemic CEM cells Jennifer A. Jackson, Alex V. Trevino, Maryanne C. Herzig, Terence S. Herman, and Jan M. Woynarowski PMCID: PMC275474 Expanding the design horizon of antisense oligonucleotides with alpha-l-LNA Miriam Frieden, Signe M. Christensen, Nikolaj D. Mikkelsen, Christoph Rosenbohm, Charlotte A. Thrue, Majken Westergaard, Henrik F. Hansen, Henrik Ørum, and Troels Koch PMCID: PMC275462 Triplex hydration: nanosecond molecular dynamics simulation of the solvated triplex formed by mixed sequences Rajendra P. Ojha and Rakesh K. Tiwari PMCID: PMC275451 NAR Methods Online Enhanced crossover SCRATCHY: construction and high-throughput screening of a combinatorial library containing multiple non-homologous crossovers Yasuaki Kawarasaki, Karl E. Griswold, James D. Stevenson, Tzvia Selzer, Stephen J. Benkovic, Brent L. Iverson, and George Georgiou PMCID: PMC275483 Inducible shRNA expression for application in a prostate cancer mouse model Frank Czauderna, Ansgar Santel, Michael Hinz, Melanie Fechtner, Birgit Durieux, Gerald Fisch, Frauke Leenders, Wolfgang Arnold, Klaus Giese, Anke Klippel, and Jörg Kaufmann PMCID: PMC275484 Exploiting features of adenovirus replication to support mammalian kinase production Matt Cotten, Kerstin Stegmueller, Jan Eickhoff, Miriam Hanke, Katrin Herzberger, Thomas Herget, Axel Choidas, Henrik Daub, and Klaus Godl PMCID: PMC275485 Quantitative evaluation by minisequencing and microarrays reveals accurate multiplexed SNP genotyping of whole genome amplified DNA Lovisa Lovmar, Mona Fredriksson, Ulrika Liljedahl, Snaevar Sigurdsson, and Ann-Christine Syvänen PMCID: PMC275486 Short bioactive Spiegelmers to migraine-associated calcitonin gene-related peptide rapidly identified by a novel approach: Tailored-SELEX Axel Vater, Florian Jarosch, Klaus Buchner, and Sven Klussmann PMCID: PMC275487 Regulation of Cre recombinase by ligand-induced complementation of inactive fragments Nicolas Jullien, François Sampieri, Alain Enjalbert, and Jean-Paul Herman PMCID: PMC275488 DANCER: a program for digital anatomical reconstruction of gene expression data Matti Kankainen and Garry Wong PMCID: PMC275489 One step assembly of multiple DNA fragments with a designed order and orientation in Bacillus subtilis plasmid Kenji Tsuge, Kuniko Matsui, and Mitsuhiro Itaya PMCID: PMC275490 Efficient labeling of fission yeast Schizosaccharomyces pombe with thymidine and BUdR Jeffrey A. Hodson, Julie M. Bailis, and Susan L. Forsburg PMCID: PMC275491 Rapid purification of RNA secondary structures Stacy L. Gelhaus, William R. LaCourse, Nathan A. Hagan, Gaya K. Amarasinghe, and Daniele Fabris PMCID: PMC275492 |
