Nucleic Acids Research

A Tetrahymena thermophila ribozyme-based indicator gene to detect transposition of marked retroelements in mammalian cells
pp. e49-e49(1)
Authors: Esnault C.; Casella J-F.; Heidmann T.

Ranking: a closer look on globalisation methods for normalisation of gene expression arrays
pp. e50-e50(1)
Authors: Kroll T.C.; Wölfl S.

Optimization of oligonucleotide-based DNA microarrays
pp. e51-e51(1)
Authors: Schwager C.; Richter A.; Ansorge W.; Relógio A.; Valcárcel J.

Replicational organization of three weakly expressed loci in Physarum polycephalum
pp. 2261-2269(9)
Authors: Swanston E.; Bailey J.; Maric C.; Pierron G.

Synergistic activation of the rat laminin 1 chain promoter by the gut-enriched Kruppel-like factor (GKLF/KLF4) and Sp1
pp. 2270-2279(10)
Authors: Higaki Y.; Schullery D.; Kawata Y.; Shnyreva M.; Abrass C.; Bomsztyk K.

Bacillus subtilis bacteriophage SPP1 hexameric DNA helicase, G40P, interacts with forked DNA
pp. 2280-2289(10)
Authors: Ayora S.; Weise F.; Mesa P.; Stasiak A.; Alonso J.C.

RNA polymerase II complexes in the very early phase of transcription are not susceptible to TFIIS-induced exonucleolytic cleavage
pp. 2290-2298(9)
Authors: Sijbrandi R.; Fiedler U.; Timmers H.T.M.

Enhanced efficiency through nuclear localization signal fusion on phage C31-integrase: activity comparison with Cre and FLPe recombinase in mammalian cells
pp. 2299-2306(8)
Authors: Andreas S.; Schwenk F.; Küter-Luks B.; Faust N.; Kühn R.

Tiny telomere DNA
pp. 2307-2315(9)
Authors: Trent J.O.; Ren J.; Qu X.; Chaires J.B.

Synteny between Arabidopsis thaliana and rice at the genome level: a tool to identify conservation in the ongoing rice genome sequencing project
pp. 2316-2328(13)
Authors: Salse J.; Piégu B.; Cooke R.; Delseny M.

Analysis of inhibitory action of modified U1 snRNAs on target gene expression: discrimination of two RNA targets differing by a 1 bp mismatch
pp. 2329-2339(11)
Authors: Liu P.; Gucwa A.; Stover M.L.; Buck E.; Lichtler A.; Rowe D.

Redox state of tumor suppressor p53 regulates its sequence-specific DNA binding in DNA-damaged cells by cysteine 277
pp. 2340-2348(9)
Authors: Buzek J.; Latonen L.; Kurki S.; Peltonen K.; Laiho M.

Human OGG1 undergoes serine phosphorylation and associates with the nuclear matrix and mitotic chromatin in vivo
pp. 2349-2357(9)
Authors: Dantzer F.; Luna L.; Bjørås M.; Seeberg E.

The yeast protein Xtc1 functions as a direct transcriptional repressor
pp. 2358-2364(7)
Authors: Traven A.; StareinQiM L.; ArneriM M.; Sopta M.

Epigenetic regulation of an IAP retrotransposon in the aging mouse: progressive demethylation and de-silencing of the element by its repetitive induction
pp. 2365-2373(9)
Authors: Lazar V.; Barbot W.; Dupressoir A.; Heidmann T.

Existence of efficient divalent metal ion-catalyzed and inefficient divalent metal ion-independent channels in reactions catalyzed by a hammerhead ribozyme
pp. 2374-2382(9)
Authors: Zhou J-M.; Zhou D-M.; Takagi Y.; Kasai Y.; Inoue A.; Baba T.; Taira K.

Measurements of weak interactions between truncated substrates and a hammerhead ribozyme by competitive kinetic analyses: implications for the design of new and efficient ribozymes with high sequence specificity
pp. 2383-2389(7)
Authors: Kasai Y.; Shizuku H.; Takagi Y.; Warashina M.; Taira K.

23S rRNA assisted folding of cytoplasmic malate dehydrogenase is distinctly different from its self-folding
pp. 2390-2397(8)
Authors: Sanyal S.C.; Pal S.; Chaudhuri S.; DasGupta C.

An alternatively spliced isoform of transcriptional repressor ATF3 and its induction by stress stimuli
pp. 2398-2406(9)
Authors: Hashimoto Y.; Zhang C.; Kawauchi J.; Imoto I.; Adachi M.T.; Inazawa J.; Amagasa T.; Hai T.; Kitajima S.

eCodonOpt: a systematic computational framework for optimizing codon usage in directed evolution experiments
pp. 2407-2416(10)
Authors: Moore G.L.; Maranas C.D.

Distinct proteins encoded by alternative transcripts of the PURG gene, located contrapodal to WRN on chromosome 8, determined by differential termination/polyadenylation
pp. 2417-2426(10)
Authors: Liu H.; Johnson E.M.

Interactions between p53, hMSH2–hMSH6 and HMG I(Y) on Holliday junctions and bulged bases
pp. 2427-2434(8)
Authors: Subramanian D.; Griffith J.D.

Design and characterization of decoy oligonucleotides containing locked nucleic acids
pp. 2435-2443(9)
Authors: Crinelli R.; Bianchi M.; Gentilini L.; Magnani M.

Phenotypic and genotypic variation in methylases involved in type II restriction-modification systems in Helicobacter pylori
pp. 2444-2452(9)
Authors: Takata T.; Aras R.; Tavakoli D.; Ando T.; Olivares A.Z.; Blaser M.J.

A novel type of conserved DNA-binding domain in the transcriptional regulators of the AlgR/AgrA/LytR family
pp. 2453-2459(7)
Authors: Nikolskaya A.N.; Galperin M.Y.

An efficient strategy for large-scale high-throughput transposon-mediated sequencing of cDNA clones
pp. 2460-2468(9)
Authors: Butterfield Y.S.N.; Marra M.A.; Asano J.K.; Chan S.Y.; Guin R.; Krzywinski M.I.; Lee S.S.; MacDonald K.W.K.; Mathewson C.A.; Olson T.E.; Pandoh P.K.; Prabhu A-L.; Schnerch A.; Skalska U.; Smailus D.E.; Stott J.M.; Tsai M.I.; Yang G.S.; Zuyderduyn S.D.; Schein J.E.; Jones S.J.M.

Systematic sequencing of cDNA clones using the transposon Tn5
pp. 2469-2477(9)
Authors: Green E.D.; Shevchenko Y.; Bouffard G.G.; Butterfield Y.S.N.; Blakesley R.W.; Hartley J.L.; Young A.C.; Marra M.A.; Jones S.J.M.; Touchman J.W.

Fast algorithms for large-scale genome alignment and comparison
pp. 2478-2483(6)
Authors: Delcher A.L.; Phillippy A.; Carlton J.; Salzberg S.L.

Evidence that DNase I hypersensitive site 5 of the human -globin locus control region functions as a chromosomal insulator in transgenic mice
pp. 2484-2491(8)
Authors: Li Q.; Zhang M.; Han H.; Rohde A.; Stamatoyannopoulos G.

The C-terminal region of Escherichia coli UvrC contributes to the flexibility of the UvrABC nucleotide excision repair system
pp. 2492-2500(9)
Authors: Turner J.J.; van der Marel G.A.; van Boom J.H.; Verhoeven E.E.A.; van Kesteren M.; Moolenaar G.F.; Goosen N.

Evidence for strong selective constraint acting on the nucleotide composition of 16S ribosomal RNA genes
pp. 2501-2507(7)
Authors: Wang H-c.; Hickey D.A.

ADA3-containing complexes associate with estrogen receptor alpha
pp. 2508-2514(7)
Authors: Benecke A.; Gaudon C.; Garnier J-M.; vom Baur E.; Chambon P.; Losson R.

Comprehensive analysis of amino acid and nucleotide composition in eukaryotic genomes, comparing genes and pseudogenes
pp. 2515-2523(9)
Authors: Echols N.; Harrison P.; Balasubramanian S.; Luscombe N.M.; Bertone P.; Zhang Z.; Gerstein M.

A novel family of mobile genetic elements is limited to the germline genome in Tetrahymena thermophila
pp. 2524-2537(14)
Authors: Wuitschick J.D.; Gershan J.A.; Lochowicz A.J.; Li S.; Karrer K.M.

Transfer RNA determinants for translational editing by Escherichia coli valyl-tRNA synthetase
pp. 2538-2545(8)
Authors: Tardif K.D.; Horowitz J.

Dominant genetic screen for cofactors that enhance antisense RNA-mediated gene silencing in fission yeast
pp. 2546-2554(9)
Authors: Raponi M.; Arndt G.M.

Novel products generated from 2-deoxyguanosine by hypochlorous acid or a myeloperoxidase–H₂O₂–Cl^– system: identification of diimino-imidazole and amino-imidazolone nucleosides
pp. 2555-2564(10)
Authors: Masuda M.; Friesen M.D.; Fenet B.; Suzuki T.; Ohshima H.

Acridine-modified, clamp-forming antisense oligonucleotides synergize with cisplatin to inhibit c-Myc expression and B16-F0 tumor progression
pp. 2565-2574(10)
Authors: Xu X.; Thomas S.D.; Miller D.M.; Stewart D.A.

Tracing the evolution of RNA structure in ribosomes
pp. 2575-2587(13)
Authors: Caetano-Anollés G.

Sequential binding of UV DNA damage binding factor and degradation of the p48 subunit as early events after UV irradiation
pp. 2588-2598(11)
Authors: McLenigan M.P.; Gonzalez M.; RapiM-Otrin V.; Bisi D.C.; Levine A.S.

Conserved codon composition of ribosomal protein coding genes in Escherichia coli, Mycobacterium tuberculosis and Saccharomyces cerevisiae: lessons from supervised machine learning in functional genomics
pp. 2599-2607(9)
Authors: Lin K.; Kuang Y.; Joseph J.S.; Kolatkar P.R.