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ORCIDNucleic Acids Research, Volume 12
Volume 12, Number 1, January 1984
- Scott Meyers, Peter Friedland:
Knowledge-based simulation of genetic regulation in bacteriophage lambda. 1-9 - René Bach, Yumi Iwasaki, Peter Friedland:
Intelligent computational assistance for experiment design. 11-29 - Catherine Papanicolaou, Manolo Gouy, Jacques Ninio:
An energy model that predicts the correct folding of both the tRNA and the 5S RNA molecules. 31-44 - A. B. Jacobson, L. Good, J. Simonetti, Michael Zuker:
Some simple computational methods to improve the folding of large RNAs. 45-52 - Eliahu Comay, Ruth Nussinov
, Oded Comay:
An accelerated algorithm for calculating the secondary structure of single stranded RNAs. 53-66 - Paulien Hogeweg, Ben Hesper:
Energy directed folding of RNA sequences. 67-74 - Bruce A. Shapiro, Jacob V. Maizel, Lewis E. Lipkin, Kathleen M. Currey, Colin G. Whitney:
Generating non-overlapping displays of nucleic acid secondary structure. 75-88 - Satoru Kuhara, Fumihiro Matsuo, Syoichi Futamura, Atsushi Fujita, Takeshi Shinohara, Toshihisa Takagi, Yoshiyuki Sakaki:
GENAS: a database system for nucleic acid sequence analysis. 89-99 - Katsumi Isono:
A computer program package for storing and retrieving DNA/RNA and protein sequence data. 101-112 - Manfred Kröger, Anneliese Kröger-Block:
Extension of a flexible computer program for handling DNA sequence data. 113-120 - Manolo Gouy, F. Milleret, C. Mugnier, M. Jacobzone, Christian Gautier:
ACNUC: a nucleic acid sequence data base and analysis system. 121-127 - Thomas D. Schneider, Gary D. Stormo, Matthew A. Yarus, Larry Gold:
Delila system tools. 129-140 - J. M. Sobieski, K. N. Chen, J. C. Filiatreau, M. H. Pickett, George E. Fox:
16S rRNA oligonucleotide catalog data base. 141-148 - Minoru Kanehisa, James W. Fickett, W. B. Goad:
A relational database system for the maintenance and verification of the Los Alamos sequence library. 149-158 - Verner Paetkau:
A new rule for analyzing homologous coding sequences in DNA. 159-173 - James W. Fickett:
Fast optimal alignment. 175-179 - J. F. Collins, A. F. Coulson:
Applications of parallel processing algorithms for DNA sequence analysis. 181-192 - Manfred Kröger, Anneliese Kröger-Block:
Simplified computer programs for search of homology within nucleotide sequences. 193-201 - Minoru Kanehisa:
Use of statistical criteria for screening potential homologies in nucleic acid sequences. 203-213 - David J. Lipman, W. John Wilbur, Temple F. Smith, Michael S. Waterman:
On the statistical significance of nucleic acid similarities. 215-226 - G. Polner, L. Dorgai, L. Orosz:
PMAP, PMAPS: DNA physical map constructing programs. 227-236 - Michael S. Waterman, Temple F. Smith, H. L. Katcher:
Algorithms for restriction map comparisons. 237-242 - Jiri Novotny, Charles Auffray:
A program for prediction of protein secondary structure from nucleotide sequence data: application to histocompatibility antigens. 243-255 - A. Salemme, Anthony V. Furano:
A convenient method for locating sets of related short sequences in DNA sequences of any length. 257-262 - R. M. Abarbanel, Paul R. Wieneke, E. Mansfield, David A. Jaffe, Douglas L. Brutlag:
Rapid searches for complex patterns in biological molecules. 263-280 - G. Pierno, N. Barni, M. Candurro, M. Cipollaro, Annamaria Franzè, L. Juliano, M. F. Macchiato, G. Mastrocinque, C. Moscatelli, Vincenzo Scarlato:
Computer programs for the characterization of protein coding genes. 281-285 - Philipp Bucher, B. Bryan:
Signal search analysis: a new method to localize and characterize functionally important DNA sequences. 287-305 - Hannu Peltola, Hans Söderlund, Esko Ukkonen:
SEQAID: a DNA sequence assembling program based on a mathematical model. 307-321 - H. M. Martinez:
An RNA folding rule. 323-334 - Kenji Yamamoto, Yoshihiro Kitamura, Hiroshi Yoshikura:
Computation of statistical secondary structure of nucleic acids. 335-346 - G. J. Quigley, L. Gehrke, D. A. Roth, Philip E. Auron:
Computer-aided nucleic acid secondary structure modeling incorporating enzymatic digestion data. 347-366 - T. W. Stone, K. N. Potter:
A DNA analysis program designed for computer novices working in an industrial-research environment. 367-378 - Christopher C. Keller, M. Corcoran, Richard J. Roberts:
Computer programs for handling nucleic acid sequences. 379-386 - J. Devereux, P. Haeberli, O. Smithies:
A comprehensive set of sequence analysis programs for the VAX. 387-395 - Jean-Michel Claverie:
A common philosophy and FORTRAN 77 software package for implementing and searching sequence databases. 397-407 - A. H. Reisner, Carolyn A. Bucholtz:
Utilization of sequence libraries on a 16-bit mini computer with particular reference to high speed searching. 409-416 - Minoru Kanehisa, P. Klein, P. Greif, Charles DeLisi:
Computer analysis and structure prediction of nucleic acids and proteins. 417-428 - D. M. Lonsdale, T. P. Hodge, P. J. Stoehr:
A computer program for the management of small cosmid banks. 429-436 - Stephen Lombardi, Hollis Seidell, Stephen Pulford, Walter Dutton, Shirish Parekh:
Computer programs in nucleic acid synthesis: synthetic strategy development using solid-phase chemical techniques with data storage, retrieval and analysis capabilities. 437-446 - Philip Taylor:
A fast homology program for aligning biological sequences. 447-455 - D. R. Boswell, A. D. McLachlan:
Sequence comparison by exponentially-damped alignment. 457-464 - B. N. Stone, G. L. Griesinger, J. L. Modelevsky:
PLASMAP: an interactive computational tool for storage, retrieval and device-independent graphic display of conventional restriction maps. 465-471 - A. J. Gray, D. E. Beecher, M. V. Olson:
Computer-based image analysis of one-dimensional electrophoretic gels used for the separation of DNA restriction fragments. 473-491 - P. J. Russell, Richard E. Crandall, R. Feinbaum:
GELYSIS: Pascal-implemented analysis of one-dimensional electrophoresis gels. 493-498 - Rodger Staden:
A computer program to enter DNA gel reading data into a computer. 499-503 - Rodger Staden:
Computer methods to locate signals in nucleic acid sequences. 505-519 - Rodger Staden:
Graphic methods to determine the function of nucleic acid sequences. 521-538 - Michael Gribskov, J. Devereux, Richard R. Burgess:
The codon preference plot: graphic analysis of protein coding sequences and prediction of gene expression. 539-549 - Rodger Staden:
Measurements of the effects that coding for a protein has on a DNA sequence and their use for finding genes. 551-567 - Bruno Malthiery, Bernard Bellon, Dominique Giorgi, Bernard Jacq:
Apple II PASCAL programs for molecular biologists. 569-579 - Cary Queen, L. J. Korn:
A comprehensive sequence analysis program for the IBM personal computer. 581-599 - W. F. Schwindinger, J. R. Warner:
DNA sequence analysis on the IBM-PC. 601-604 - L. M. Lagrimini, S. T. Brentano, J. E. Donelson:
A DNA sequence analysis package for the IBM personal computer. 605-614 - Frederick R. Blattner, J. L. Schroeder:
A computer package for DNA sequence analysis. 615-617 - J. S. De Banzie, Evan W. Steeg, J. T. Lis:
Update for users of the Cornell sequence analysis package. 619-625 - P. A. Biro:
DNA sequence handling programs in BASIC for home computers. 627-631 - Andrew Lyall, Peter Hammond, Derek Brough, David Glover:
BIOLOG - a DNA sequence analysis system in PROLOG. 633-642 - J. Pustell, F. C. Kafatos:
A convenient and adaptable package of computer programs for DNA and protein sequence management, analysis and homology determination. 643-655 - M. Johnsen:
JINN, an integrated software package for molecular geneticists. 657-664 - V. A. Luckow, R. K. Littlewood, R. H. Rownd:
Interactive computer programs for the graphic analysis of nucleotide sequence data. 665-673 - M. Komaromy, H. Govan:
An inexpensive semi-automated sequence reader for the Apple II computer. 675-678 - T. Kieser:
DNAGEL: a computer program for determining DNA fragment sizes using a small computer equipped with a graphics tablet. 679-688 - J. I. Rood, J. M. Gawthorne:
Apple software for analysis of the size of restriction fragments. 689-694 - Claude V. Maina, Gary P. Nolan, Aladar A. Szalay:
Molecular weight determination program. 695-702 - R. Durand, F. Bregegere:
An efficient program to construct restriction maps from experimental data with realistic error levels. 703-716 - Gary P. Nolan, Claude V. Maina, Aladar A. Szalay:
Plasmid mapping computer program. 717-729 - Paul R. Caron:
KLONER; a computer program to simulate recombinant DNA strategies by restriction map manipulation. 731-737 - D. Shalloway, N. R. Deering:
Recombinant DNA data management at the restriction and functional site level. 739-750 - C. Thomas White, S. C. Hardies, C. A. Hutchison III, M. H. Edgell:
The diagonal-traverse homology search algorithm for locating similarities between two sequences. 751-766 - S. E. Zweig:
Analysis of large nucleic acid dot matrices on small computers. 767-776 - R. Arentzen, W. C. Ripka:
Introduction of restriction enzyme sites in protein-coding DNA sequences by site-specific mutagenesis not affecting the amino acid sequence: a computer program. 777-787 - Martin E. Mulligan, Diane K. Hawley, Robert Entriken, William R. McClure:
Escherichia coli promoter sequences predict in vitro RNA polymerase selectivity. 789-800 - Kazutada Watanabe, Kiyoshi Yasukawa, Koujiro Iso:
Graphic display of nucleic acid structure by a microcomputer. 801-809 - David W. Mount, Bruce Conrad:
Microcomputer programs for graphic analysis of nucleic acid and protein sequences. 811-817 - David W. Mount, Bruce Conrad:
Microcomputer programs for back translation of protein to DNA sequences and analysis of ambiguous DNA sequences. 819-823 - J. K. Vass, R. H. Wilson:
'ZSTATS' - a statistical analysis for potential Z-DNA sequences. 825-832 - R. E. Raupach:
Computer programs used to aid in the selection of DNA hybridization probes. 833-836 - Junghui Yang, Jianhong Ye, Douglas C. Wallace:
Computer selection of oligonucleotide probes from amino acid sequences for use in gene library screening. 837-843 - E. J. Gough, N. M. Gough:
Direct calculation of the sizes of DNA fragments separated by gel electrophoresis using programmes written for a pocket calculator. 845-853
Volume 12, Number 13, July 1984
- M. Nelson, C. Christ, I. Schildkraut:
Alteration of apparent restriction endonuclease recognition specificities by DNA methylases. 5165-5173 - Ramon Diaz, Sagrario Ortega:
Initiation of plasmid R1 replication in vitro is independent of transcription by host RNA polymerase. 5175-5191 - Siân Searle, David A. Gillespie, David J. Chiswell, John A. Wyke:
Analysis of the variations in proviral cytosine methylation that accompany transformation and morphological reversion in a line of Rous sarcoma virus-infected Rat-1 cells. 5193-5210 - Poul Valentin-Hansen, Karin Hammer, Jens Erik Løve Larsen, Ib Svendsen:
The internal regulated promoter of the deo operon of Escherichia coli K- 12. 5211-5224 - Hisayuki Nomiyama, Teruhisa Tsuzuki, Shoji Wakasugi, Makoto Fukuda, Kazunori Shimada:
Interruption of a human nuclear sequence homologous to mitochondrial DNA by a member of the KpnI 1.8 kb family. 5225-5234 - Etienne Pays, Marie-France Delauw, Monique Laurent, Maurice Steinert:
Possible DNA modification in GC dinucleotides of Trypanosoma brucei telomeric sequences; relationship with antigen gene transcription. 5235-5247 - Hans-Rainer Jaenichen, Michael Pech, Werner Lindenmaier, Norbert Wildgruber, Hans G. Zachau:
Composite human VK genes and a model of their evolution. 5249-5263 - Bernhard Straubinger, Michael Pech, Kathy Mühlebach, Hans-Rainer Jaenichen, Hans-Gunther Bauer, Hans G. Zachau:
Molecular footprints of human immunoglobulin gene evolution: a new sequence family. 5265-5275 - David A. Hartley, Kay E. Davies, Dennis Drayna, Ray L. White, Roberts Williamson:
A cytological map of the human X chromosome - evidence for non-random recombination. 5277-5285 - Stephanie H. Shanblatt, Arnold Revzin:
Kinetics of RNA polymerase-promoter complex formation: effects of nonspecific DNA-protein interactions. 5287-5306 - Kazutaka Ohmura, Kouji Nakamura, Hisato Yamazaki, Teruaki Shiroza, Kunio Yamane, Yoshifumi Jigami, Hideaki Tanaka, Koji Yoda, Makari Yamasaki, Gakuzo Tamura:
Length and structural effect of signal peptides derived from Bacillus subtilis alpha-amylase on secretion of Escherichia coli beta-lactamase in B. subtilis cells. 5307-5319 - A. Spassky, Sylvie Rimsky, H. Garreau, H. Buc:
H1a, an E. coli DNA-binding protein which accumulates in stationary phase, strongly compacts DNA in vitro. 5321-5340 - S. Sharma, T. Stark, R. E. Moses:
Distal regulatory functions for the uvrC gene of E. coli. 5341-5354 - N. Murphy, D. J. McConnell, B. A. Cantwell:
The DNA sequence of the gene and genetic control sites for the excreted B. subtilis enzyme beta-glucanase. 5355-5367 - J. B. Watson, D. W. Chandler, J. D. Gralla:
Specific termination of in vitro transcription by calf thymus RNA polymerase III. 5369-5384 - T. I. Serenkova, A. M. Mazo, T. D. Mashkova, I. Toots, A. Nigul, M. Ya Timofeeva, L. L. Kisselev:
The secondary structure of oocyte and somatic 5S ribosomal RNAs of the fish Misgurnus fossilis L. from nuclease hydrolyses and chemical modification data. 5385-5404 - P. Loidl, A. Loidl, B. Puschendorf, P. Grobner:
RNA polymerase activity and template activity of chromatin after butyrate induced hyperacetylation of histones in Physarum. 5405-5417 - P. P. Lankhorst, C. A. Haasnoot, C. Erkelens, Cornelis Altona:
Carbon-13 NMR in conformational analysis of nucleic acid fragments. 3. The magnitude of torsional angle epsilon in d(TpA) from CCOP and HCOP NMR coupling constants. 5419-5428 - Serge Boiteux, Joël Belleney, Bernard-Pierre Roques, Jacques Laval:
Two rotameric forms of open ring 7-methylguanine are present in alkylated polynucleotides. 5429-5439 - F. Takaiwa, K. Oono, Masahiro Sugiura:
The complete nucleotide sequence of a rice 17S rRNA gene. 5441-5448 - X. M. Yu, W. S. Reznikoff:
Deletion analysis of the CAP-cAMP binding site of the Escherichia coli lactose promoter. 5449-5464 - B. A. Morgan, E. Kellett, R. S. Hayward:
The wild-type nucleotide sequence of the rpoBC-attenuator region of Escherichia coli DNA and its implications for the nature of the rifd18 mutation. 5465-5470 - Martin J. Bishop, E. Thompson:
Fast computer search for similar DNA sequences. 5471-5474 - Rick P. Millane, J. K. Walker, S. Arnott, R. Chandrasekaran, D. L. Birdsall, R. L. Ratliff:
Structure of a pleiomeric form of poly d(AT): poly d(AT). 5475-5493 - P. O. O'Connell, M. Rosbash:
Sequence, structure, and codon preference of the Drosophila ribosomal protein 49 gene. 5495-5513 - P. Perrin:
Coding strategy differences between constant and variable segments of immunoglobulin genes. 5515-5527 - Jens G. Reich, H. Drabsch, A. Daumler:
On the statistical assessment of similarities in DNA sequences. 5529-5543
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