| | Articles RNA–protein crosslinking to AMP residues at internal positions in RNA with a new photocrosslinking ATP analog Celina Costas, Elizabeth Yuriev, Karen L. Meyer, Tina S. Guion, and Michelle M. Hanna PMCID: PMC103291 Flexible non-nucleotide linkers as loop replacements in short double helical RNAs Werner Pils and Ronald Micura PMCID: PMC103310 DNA sequence elements located immediately upstream of the –10 hexamer in Escherichia coli promoters: a systematic study Tom Burr, Jennie Mitchell, Annie Kolb, Steve Minchin, and Steve Busby PMCID: PMC103297 Functional analysis of the homeodomain protein SIX5 Sarah E. Harris, Catherine L. Winchester, and Keith J. Johnson PMCID: PMC103302 Whole genome sequence-enabled prediction of sequences performed for random PCR products of Escherichia coli Koichi Nishigaki, Ayumu Saito, Hasegawa Takashi, and Mohammed Naimuddin PMCID: PMC103271 Characterization of Candida albicans RNA triphosphatase and mutational analysis of its active site Yi Pei, Kevin Lehman, Ligeng Tian, and Stewart Shuman PMCID: PMC103306 DNA strand transfer catalyzed by vaccinia topoisomerase: ligation of DNAs containing a 3′ mononucleotide overhang Chonghui Cheng and Stewart Shuman PMCID: PMC103307 Site-specific modification and RNA crosslinking of the RNA-binding domain of PKR Richard J. Spanggord and Peter A. Beal PMCID: PMC103299 Structural basis for uracil DNA glycosylase interaction with uracil: NMR study Mahua Ghosh, N. Vinay Kumar, Umesh Varshney, and K. V. R. Chary PMCID: PMC103296 Intramolecular interaction of yeast TFIIB in transcription control Dong-Yi Zhang, Michael J. Dorsey, Warren P. Voth, Daniel J. Carson, Xiao Zeng, David J. Stillman, and Jun Ma PMCID: PMC103289 MeCP2 driven transcriptional repression in vitro: selectivity for methylated DNA, action at a distance and contacts with the basal transcription machinery Nikola K. Kaludov and Alan P. Wolffe PMCID: PMC103274 Thermodynamic parameters for DNA sequences with dangling ends Salvatore Bommarito, Nicolas Peyret, and John SantaLucia Jr PMCID: PMC103285 Surface plasmon resonance kinetic studies of the HIV TAR RNA kissing hairpin complex and its stabilization by 2-thiouridine modification T. Murlidharan Nair, David G. Myszka, and Darrell R. Davis PMCID: PMC103298 Identification of the Saccharomyces cerevisiae RNA:pseudouridine synthase responsible for formation of Ψ2819 in 21S mitochondrial ribosomal RNA I. Ansmant, S. Massenet, H. Grosjean, Y. Motorin, and C. Branlant PMCID: PMC103309 Sensitivity of human type II topoisomerases to DNA damage: stimulation of enzyme-mediated DNA cleavage by abasic, oxidized and alkylated lesions Michelle Sabourin and Neil Osheroff PMCID: PMC103304 Human Krüppel-like Factor 8: a CACCC-box binding protein that associates with CtBP and represses transcription Jane van Vliet, Jeremy Turner, and Merlin Crossley PMCID: PMC103308 Interaction of three-way DNA junctions with steroids Teru Kato, Kazuyoshi Yano, Kazunori Ikebukuro, and Isao Karube PMCID: PMC103303 Structures of the potassium-saturated, 2:1, and intermediate, 1:1, forms of a quadruplex DNA Vasilios M. Marathias and Philip H. Bolton PMCID: PMC103305 Accurate and rapid modeling of iron–bleomycin-induced DNA damage using tethered duplex oligonucleotides and electrospray ionization ion trap mass spectrometric analysis Andreas Harsch, Lisa A. Marzilli, Richard C. Bunt, Joanne Stubbe, and Paul Vouros PMCID: PMC103282 Identification of a transcription factor IIIA-interacting protein Rodney J. Moreland, Michael E. Dresser, Justin S. Rodgers, Bruce A. Roe, Joan W. Conaway, Ronald C. Conaway, and Jay S. Hanas PMCID: PMC103300 The human LEF-1 gene contains a promoter preferentially active in lymphocytes and encodes multiple isoforms derived from alternative splicing K. Hovanes, T. W. H. Li, and M. L. Waterman PMCID: PMC103301 Fission yeast Hrp1, a chromodomain ATPase, is required for proper chromosome segregation and its overexpression interferes with chromatin condensation Eung Jae Yoo, Yong Hwan Jin, Yeun Kyu Jang, Pernilla Bjerling, Mohammad Tabish, Seung Hwan Hong, Karl Ekwall, and Sang Dai Park PMCID: PMC103280 Functional characterization of Caenorhabditis elegans DNA topoisomerase IIIα You-Chan Kim, Junho Lee, and Hyeon-Sook Koo PMCID: PMC103277 NAR Methods Online Detection and mapping of mismatched base pairs in DNA molecules by atomic force microscopy Masato Tanigawa, Masanori Gotoh, Masayuki Machida, Takao Okada, and Michio Oishi PMCID: PMC103311 AFM characterization of single strand-specific endonuclease activity on linear DNA Kazuo Umemura, Fuji Nagami, Takao Okada, and Reiko Kuroda PMCID: PMC103312 Highly efficient solid phase synthesis of oligonucleotide analogs containing phosphorodithioate linkages Daniel C. Capaldi, Douglas L. Cole, and Vasulinga T. Ravikumar PMCID: PMC103313 Retro-recombination screening of a mouse embryonic stem cell genomic library Knut Woltjen, Gerard Bain, and Derrick E. Rancourt PMCID: PMC103314 Branch migration inhibition in PCR-amplified DNA: homogeneous mutation detection Alla Lishanski, Nurith Kurn, and Edwin F. Ullman PMCID: PMC103315 Microchip electrophoresis: a method for high-speed SNP detection Dieter Schmalzing, Alexei Belenky, Mark A. Novotny, Lance Koutny, Oscar Salas-Solano, Sameh El-Difrawy, Aram Adourian, Paul Matsudaira, and Daniel Ehrlich PMCID: PMC103316 A sensitive scanning technology for low frequency nuclear point mutations in human genomic DNA Xiao-Cheng Li-Sucholeiki and William G. Thilly PMCID: PMC103317 |
