Nucleic Acids Research

COMPUTATIONAL BIOLOGY:

Julie D. Thompson, Desmond G. Higgins, and Toby J. Gibson

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
Nucl. Acids Res. 1994 22: 4673-4680; doi:10.1093/nar/22.22.4673 [Abstract] [Print PDF] [Request Permissions]  

Mark Borodovsky, Kenneth E. Rudd, and Eugene V. Koonin

Intrinsic and extrinsic approaches for detecting genes in a bacterial genome
Nucl. Acids Res. 1994 22: 4756-4767; doi:10.1093/nar/22.22.4756 [Abstract] [Print PDF] [Request Permissions]  

Anders Krogh, I. Saira Mian, and David Haussler

A hidden Markov model that finds genes in E.coli DNA
Nucl. Acids Res. 1994 22: 4768-4778; doi:10.1093/nar/22.22.4768 [Abstract] [Print PDF] [Request Permissions]  

Gary Benson and Michael S. Waterman

A method for fast database search for all k-nucleotide repeats
Nucl. Acids Res. 1994 22: 4828-4836; doi:10.1093/nar/22.22.4828 [Abstract] [Print PDF] [Request Permissions]  

MOLECULAR BIOLOGY:

Masayuki Seki, Hiroshi Miyazawa, Shusuke Tada, Junn Yanagisawa, Tomoki Yamaoka, Shin-ichi Hoshino, Kazuo Ozawa, Toshihiko Eki, Masahiro Nogami, Katsuzumi Okumura, Hiroshi Taguchi, Fumio Hanaoka, and Takemi Enomoto

Molecular cloning of cDNA encoding human DNA helicase Q1 Which has homology to Escherichia coli Rec Q helicase and localization of the gene at chromosome 12p12
Nucl. Acids Res. 1994 22: 4566-4573; doi:10.1093/nar/22.22.4566 [Abstract] [Print PDF] [Request Permissions]  

Beat W. Schäfer, Thomas Czerny, Michele Bernasconi, Michele Genini, and Meinrad Busslinger

Molecular cloning and characterization of a human PAX-7 cDNA expressed in normal and neoplastic myocytes
Nucl. Acids Res. 1994 22: 4574-4582; doi:10.1093/nar/22.22.4574 [Abstract] [Print PDF] [Request Permissions]  

Jens Lykke-Andersen, Hoa Phan Thi-Ngoc, and Roger A. Garrett

DNA substrate specificity and cleavage kinetics of an archaeal homing-type endonuclease from Pyrobaculum organotrophum
Nucl. Acids Res. 1994 22: 4583-4590; doi:10.1093/nar/22.22.4583 [Abstract] [Print PDF] [Request Permissions]  

Linda C. Harris, Joanna S. Remack, and Thomas P. Brent

Identification of a 59 bp enhancer located at the first exon/intron boundary of the human O⁶-methylguanine DNA methyltransferease gene
Nucl. Acids Res. 1994 22: 4614-4619; doi:10.1093/nar/22.22.4614 [Abstract] [Print PDF] [Request Permissions]  

Alexander B. Kuzin, Natalia V. Lyubomirskaya, Bermet M. Khudaibergenova, Yurii V. llyin, and Aexander I. Kim

Precise excision of the retrotransposon gypsy from the forked and cut loci in a genetically unstable D.melanogaster strain
Nucl. Acids Res. 1994 22: 4641-4645; doi:10.1093/nar/22.22.4641 [Abstract] [Print PDF] [Request Permissions]  

Woojin Jeong and Changwon Kang

Start site selection at lacUV5 promoter affected by the sequence context around the initiation sites
Nucl. Acids Res. 1994 22: 4667-4672; doi:10.1093/nar/22.22.4667 [Abstract] [Print PDF] [Request Permissions]  

Eleni Ktistaki, Jean-Marc Lacorte, Nitsa Katrakili, Vassilis I. Zannis, and Iannis Talianidis

Transcriptional regulation of the apolipoprotein A-IV gene involves synergism between a proximal orphan receptor response element and a distant enhancer located in the upstream promoter region of the apolipoprotein C-III gene
Nucl. Acids Res. 1994 22: 4689-4696; doi:10.1093/nar/22.22.4689 [Abstract] [Print PDF] [Request Permissions]  

Stephen R. Coats, Yi Zhang, and Lloyd M. Epstein

Transcription of satellite 2 DNA from the newt is drivev by a snRNA type of promoter
Nucl. Acids Res. 1994 22: 4697-4704; doi:10.1093/nar/22.22.4697 [Abstract] [Print PDF] [Request Permissions]  

Michael L. Nedved and Gregory R. Moe

Cooperative, non-specific binding of a Zinc finger peptide to DNA
Nucl. Acids Res. 1994 22: 4705-4711; doi:10.1093/nar/22.22.4705 [Abstract] [Print PDF] [Request Permissions]  

Kimberly H. O'Donnell and Pieter C. Wensink

GAGA factor and TBF1 bind DNA elements that direct ubiquitous transcription of the Drosophila 1-tubulin gene
Nucl. Acids Res. 1994 22: 4712-4718; doi:10.1093/nar/22.22.4712 [Abstract] [Print PDF] [Request Permissions]  

Andrei S. Zolotukhin, Joe B. Harford, and Barbara K. Felber

Rev of human immunodeficiency virus and Rex of the human T-cell leukemia virus type I can counteract and mRNA downregulatory element of the transferrin receptor mRNA
Nucl. Acids Res. 1994 22: 4725-4732; doi:10.1093/nar/22.22.4725 [Abstract] [Print PDF] [Request Permissions]  

Bhavani G. Pathak, Jonathan C. Neumann, Michelle L. Croyle, and Jerry B. Lingrel

The presence of both negative and positive elements in the 5'-flanking sequence of the rat Na, K-ATPase 3 subunit gene are required for brain expression in transgenic mice
Nucl. Acids Res. 1994 22: 4748-4755; doi:10.1093/nar/22.22.4748 [Abstract] [Print PDF] [Request Permissions]  

Joanne L. Proffitt, Ela Sharma, and G. Eric Blair

Adenovirus 12-mediated down-regulation of the major histocompatibility complex (MHC) class I promoter: identification of a negative regulatory element responsive to Ad12 E1A
Nucl. Acids Res. 1994 22: 4779-4788; doi:10.1093/nar/22.22.4779 [Abstract] [Print PDF] [Request Permissions]  

Qin Yang, Michael G. Zwick, and Marvin R. Paule

Sequence organization of the Acanthamoeba rRNA intergenic spacer: identification of transcriptional enhancers
Nucl. Acids Res. 1994 22: 4798-4805; doi:10.1093/nar/22.22.4798 [Abstract] [Print PDF] [Request Permissions]  

Maurizio D'Esposito, Richard Mazzarella, Gina Pengue, Carmela Johns, Michele D'Urso, and David Schlessinger

PCR-based immortalization and screening of hierarchical pools of cDNAs
Nucl. Acids Res. 1994 22: 4806-4809; doi:10.1093/nar/22.22.4806 [Abstract] [Print PDF] [Request Permissions]  

Matthew P. Vincenti, Charles I. Coon, Oneil Lee, and Constance E. Brinckerhoff

Regulation of collagenase gene expression by IL–1ß requires transcriptional and post-transcriptional mechanisms
Nucl. Acids Res. 1994 22: 4818-4827; doi:10.1093/nar/22.22.4818 [Abstract] [Print PDF] [Request Permissions]  

RNA:

Anna Vader, Jørund Naess, Kari Haugli, Finn Haugli, and Steinar Johansen

Nucleolar introns from Physarum flavicomum contain insertion elements that may explain how mobile group I introns gained their open reading frames
Nucl. Acids Res. 1994 22: 4553-4559; doi:10.1093/nar/22.22.4553 [Abstract] [Print PDF] [Request Permissions]  

M. Wilhelm, F.X. Wilhelm, G. Keith, B. Agoutin, and T. Heyman

Yeast Ty1 retrotransposon: the minus-strand primer binding site and a cis-acting domain of the Ty1 RNA are both important for packaging of primer tRNA inside virus-like particles
Nucl. Acids Res. 1994 22: 4560-4565; doi:10.1093/nar/22.22.4560 [Abstract] [Print PDF] [Request Permissions]  

Hans E. Johansson, Graham J. Helsham, Brian S. Sproat, and Matthias W. Hentze

Target-specific arrest of mRNA tranlation by antisense 2'-O-alkyloligoribonucleotides
Nucl. Acids Res. 1994 22: 4591-4598; doi:10.1093/nar/22.22.4591 [Abstract] [Print PDF] [Request Permissions]  

Gary K. Yiu, Wei Gu, and Norman B. Hecht

Heterogeneity in the 5' untranslated region of mouse cytochrome c_T mRNAs leads to altered translational status of the mRNAs
Nucl. Acids Res. 1994 22: 4599-4606; doi:10.1093/nar/22.22.4599 [Abstract] [Print PDF] [Request Permissions]  

Livio Pellizzoni, Claudia Crossio, Nadia Campioni, Fabrizio Loreni, and Paola Pierandrei-Amaldi

Different forms of U15 snoRNA are encoded in the introns of the ribosomal protein S1 gene of Xenopus laevis
Nucl. Acids Res. 1994 22: 4607-4613; doi:10.1093/nar/22.22.4607 [Abstract] [Print PDF] [Request Permissions]  

Anthony S. Williams, Thomas C. Ingledue, III, Brian K. Kay, and William F. Marzluff

Changes in the stem-loop at the 3' terminus of histone mRNA affects its nucleocytoplasmic transport and cytoplasmic regulation
Nucl. Acids Res. 1994 22: 4660-4666; doi:10.1093/nar/22.22.4660 [Abstract] [Print PDF] [Request Permissions]  

Irena Lisitsky, Varda liveanu, and Gadi Schuster

RNA-binding activities of the different domains of a spinach chloroplast ribonucleoprotein
Nucl. Acids Res. 1994 22: 4719-4724; doi:10.1093/nar/22.22.4719 [Abstract] [Print PDF] [Request Permissions]  

John B.E. Burch and Dorene L. Davis

Alternative promoter usage and splicing options result in the differential expression of mRNAs encoding four isoforms of chicken VBP, a member of the PAR subfamily of bZIP transcription factors
Nucl. Acids Res. 1994 22: 4733-4741; doi:10.1093/nar/22.22.4733 [Abstract] [Print PDF] [Request Permissions]  

Frank Y. Chen, Francis M. Amara, and Jim A. Wright

Depfining a novel ribonucleotide reductase r1 mRNA cis element that binds to an unique cytoplasmic trans-acting protein
Nucl. Acids Res. 1994 22: 4796-4797; doi:10.1093/nar/22.22.4796 [Abstract] [Print PDF] [Request Permissions]  

CHEMISTRY:

Jean-Pierre Bongartz, Anne-Marie Aubertain, Pierre G. Milhaud, and Bernard Lebleu

Imporved biological activity of antisense oligonucleotides conjugated to a fusogenic peptide
Nucl. Acids Res. 1994 22: 4681-4688; doi:10.1093/nar/22.22.4681 [Abstract] [Print PDF] [Request Permissions]  

Ann-Joy Cheng and Michael W. Van Dyke

Oligodeoxyribonucleotide length and sequence effects on intermolecular purine—purine—pyrimidine triple-helix formation
Nucl. Acids Res. 1994 22: 4742-4747; doi:10.1093/nar/22.22.4742 [Abstract] [Print PDF] [Request Permissions]  

Gérard Godard, Jean-Christophe François, Isabelle Duroux, Ulysse Asseline, Marcel Chassignol, Nguyen Thuong, Claude Héléne, and Tula Saison-Behmoaras

Photochemically and chemically activatable antisense oligonucleotides: comparison of their reactivities towards DNA and RNA targets
Nucl. Acids Res. 1994 22: 4789-4795; doi:10.1093/nar/22.22.4789 [Abstract] [Print PDF] [Request Permissions]  

Andres Jäschke, Jens P. Fürste, Eckhard Nordhoff, Franz Hillenkamp, Dieter Cech, and Volker A. Erdmann

Synthesis and properties of oligodeoxyribonucleotide—polyethylene glycol conjugates
Nucl. Acids Res. 1994 22: 4810-4817; doi:10.1093/nar/22.22.4810 [Abstract] [Print PDF] [Request Permissions]  

METHODS:

Chwan-Hang Wang and Shu-Yuan Tschen

Affinity capture-polymerase chain reaction for quantitation of hepatitis B virus DNA
Nucl. Acids Res. 1994 22: 4837-4839; doi:10.1093/nar/22.22.4837 [Print PDF] [Request Permissions]  

Veerle A.M.C. Somers, Peter T.M. Moerkerk, James J. Murtagh, Jr, and Frederik B.J.M. Thunnissen

A rapid, reliable method for detection of known point mutations: Point-EXACCT
Nucl. Acids Res. 1994 22: 4840-4841; doi:10.1093/nar/22.22.4840 [Print PDF] [Request Permissions]  

Antoine Vekris

Simplified in vivo subcloning for easy handling of large sets of lambda ZAP clones
Nucl. Acids Res. 1994 22: 4842-4843; doi:10.1093/nar/22.22.4842 [Print PDF] [Request Permissions]  

Evelyne Rouer

Direct neutralization of alkaline-denatured plasmid DNA in sequencing protocol by the sequencing reagent itself
Nucl. Acids Res. 1994 22: 4844; doi:10.1093/nar/22.22.4844 [Print PDF] [Request Permissions]  

Stefan Kaluz and Anthony P.F. Flint

Ligation-independent cloning of PCR products with primers containing nonbase residues
Nucl. Acids Res. 1994 22: 4845; doi:10.1093/nar/22.22.4845 [Print PDF] [Request Permissions]  

Albert L. Dobi, Ken Matsumoto, Edit Santha, and Denes v. Agoston

Guanine specific chemical sequencing of DNA by osmium tetroxide
Nucl. Acids Res. 1994 22: 4846-4847; doi:10.1093/nar/22.22.4846 [Print PDF] [Request Permissions]  

E.G.D. Tuddenham, R. Schwaab, J. Seehafer, D.S. Millar, J. Gitschier, M. Higuchi, S. Bidichandani, J.M. Connor, L.W. Hoyer, A. Yoshioka, I.R. Peake, K. Olek, H.H. Kazazian, J.-M. Lavergne, F. Giannelli, S.E. Antonarakis, and D.N. Cooper

Haemophilia A: database of nucleotide substitutions, deletions, insertions and rearrangements of the factor VIII gene, second edition
Nucl. Acids Res. 1994 22: 4851-4868; doi:10.1093/nar/22.22.4851 [Abstract] [Print PDF] [Request Permissions]  

Erratum:

Haemophilia A: database of nucleotide substitutions, deletions, insertionsand rearrangements of the factory VIII gene, second edition
Nucl. Acids Res. 1994 22: 4850; doi:10.1093/nar/22.22.4850 [Abstract] [Print PDF] [Request Permissions]  

Author index:

Author index
Nucl. Acids Res. 1994 22: 4849; doi:10.1093/nar/22.22.4849 [Print PDF] [Request Permissions]  

ENZYMOLOGY:

Tinna Stevnsner, Ruchuang Ding, Mark Smulson, and Vilhelm A. Bohr

Inhibition of gene-specific repair of alkylation damage in cells deplated of poly(ADP-ribose) polymerase
Nucl. Acids Res. 1994 22: 4620-4624; doi:10.1093/nar/22.22.4620 [Abstract] [Print PDF] [Request Permissions]  

STRUCTURAL BIOLOGY:

Thomas Hermann, Thomas Meier, Matthias götte, and Hermann Heumann

The ‘helix clamp’ in HIV-1 reverse transcrptase: a new nucleic acide binding motif common in nucleic acid polymerases
Nucl. Acids Res. 1994 22: 4625-4633; doi:10.1093/nar/22.22.4625 [Abstract] [Print PDF] [Request Permissions]  

G. Manzini, N. Yathindra, and L.E. Xodo

Evidence for intramolecularly folded i-DNA structures in biologically relevant CCC-repeat sequences
Nucl. Acids Res. 1994 22: 4634-4640; doi:10.1093/nar/22.22.4634 [Abstract] [Print PDF] [Request Permissions]  

Catherine Milhé, Christophe Dhalluin, Robert P.P. Fuchs, and Fean-François Lefèvre

NMR evidence of the stabilisation by the carcinogen N-2-acetylaminofluorene of a frameshift mutagenesis intermediate
Nucl. Acids Res. 1994 22: 4646-4652; doi:10.1093/nar/22.22.4646 [Abstract] [Print PDF] [Request Permissions]  

Jan Rohozinski, John M. Hancock, and Max A. Keniry

Polycytosine regions contained in DNA hairpin loops interact via a four-stranded, parallel structure similar to the i-motif
Nucl. Acids Res. 1994 22: 4653-4659; doi:10.1093/nar/22.22.4653 [Abstract] [Print PDF] [Request Permissions]  

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