Volume 10,
Number 1,
February 1994
Articles
- A. Torelli, C. A. Robotti:
ADVANCE and ADAM: two algorithms for the analysis of global similarity between homologous informational sequences.
3-5
- E. Arakawa, H. Yoshikura, K. Yamamoto:
Some features on RNA folding structures of cytochrome c oxidase subunit II and cytochrome P450.
7-9
- Y. Ina:
ODEN: a program package for molecular evolutionary analysis and database search of DNA and amino acid sequences.
11-12
- V. B. Fedoseyeva, S. A. Otenko, A. A. Alexndrov:
Nucleotide sequence statistical analysis of pauses in RNA elongation by Escherichia coli RNA polymerase.
13-17
- Julie Dawn Thompson, Desmond G. Higgins, Toby J. Gibson:
Improved sensitivity of profile searches through the use of sequence weights and gap excision.
19-29
- Reinhard Doelz:
Hierarchical Access System for Sequence Libraries in Europe (HASSLE): a tool to access sequence databases remotely.
31-34
- L. Rosenthaler, Reinhard Doelz, L. Tosoni:
Simplified user poll and experience report language (SUPER): implementation and application.
35-39
- Gary J. Olsen, Hideo Matsuda, Ray Hagstrom, Ross A. Overbeek:
fastDNAmL: a tool for construction of phylogenetic trees of DNA sequences using maximum likelihood.
41-48
- Frank-Ulrich Gast:
A Macintosh program for the versatile generation of random nucleic acid sequences and their structural analysis.
49-51
- Burkhard Rost, Chris Sander, Reinhard Schneider:
PHD - an automatic mail server for protein secondary structure prediction.
53-60
- J. Jursa:
DNA modeller: an interactive program for modelling stacks of DNA base pairs on a microcomputer.
61-65
- John M. Hancock, John S. Armstrong:
SIMPLE34: an improved and enhanced implementation for VAX and Sun computers of the SIMPLE algorithm for analysis of clustered repetitive motifs in nucleotide sequences.
67-70
- M. P. Maradona:
Integrated software for probabilistic identification of microorganisms.
71-73
- Gisbert Schneider, Tilman Todt, Paul Wrede:
De novo design of peptides and proteins: machine-generated sequences by the PROSA program.
75-77
- Rainer Fuchs:
Fast protein block searches.
79-80
Volume 10,
Number 2,
April 1994
Articles
- M. Levin:
A Julia set model of field-directed morphogenesis: developmental biology and artificial life.
85-103
- L. Rosenthaler, Reinhard Doelz:
Simplified user poll and experience report language (SUPER): implementation and application.
105-109
- M. S. Chapman:
Sequence similarity scores and the inference of structure-function relationships.
111-119
- David S. Wishart, Robert F. Boyko, Leigh Willard, Frederic M. Richards, Brian D. Sykes:
SEQSEE: a comprehensive program suite for protein sequence analysis.
121-132
- R. G. Duggleby:
Calculation of the molecular weight of proteins from electrophoretic and gel exclusion chromatographic experiments.
133-135
- P. J. Monardo, T. Boutell, J. I. Garrels, G. I. Latter:
A distributed system for two-dimensional gel analysis.
137-143
- F. Rodriguez, A. Altibelli, A. Lopez:
BUILD: a program generator for modelling experimental biological data.
145-151
- H. Cantalloube, C. Nahum, A. Achour, T. Lehner, Isabelle Callebaut, Arsène Burny, B. Bizzini, Jean Paul Mornon, D. Zagury, J. F. Zagury:
Automat: a novel software system for the systematic search for protein (or DNA) similarities with a notable application to autoimmune diseases and AIDS.
153-161
- M. Kamimura, Y. Takahashi:
Phi-psi conformational pattern clustering of protein amino acid residues using the potential function method.
163-169
- Rainer Fuchs:
Predicting protein function: a versatile tool for the Apple Macintosh.
171-178
- K. U. Frohlich:
Sequence Similarity Presenter: a tool for the graphic display of similarities of long sequences for use in presentations.
179-183
- J. M. Lacroix:
DNA fragment size determination on agarose gel by using the application GEL.
185-187
- Sudhir Kumar, Koichiro Tamura, Masatoshi Nei:
MEGA: Molecular Evolutionary Genetics Analysis software for microcomputers.
189-191
- H. Blocker, D. N. Lincoln:
The 'shortmer' approach to nucleic acid sequence analysis. I: Computer simulation of sequencing projects to find economical primer sets.
193-197
- Dominic A. Clark, Christopher J. Rawlings:
Intelligent Systems for Molecular Biology: review of the first international conference [published erratum appears in Comput Appl Biosci 1994 10(3)].
199-205
- W. A. Gilbert:
FarFetch - an Internet-based sequence entry server.
207-208
- B. K. Tizard, J. A. Stanton, N. G. Laing:
DiffScreen: the merging of image subtraction and molecular genetics for the rapid analysis of differentially screened cDNA libraries.
209-210
- A. Laferriere, Daniel Gautheret, Robert Cedergren:
An RNA pattern matching program with enhanced performance and portability.
211-212
- O. Gefeller, T. Bregenzer:
Computer programs for exact nonparametric inference.
213-214
Volume 10,
Number 3,
June 1994
Articles
- X. Huang:
An algorithm for identifying regions of a DNA sequence that satisfy a content requirement.
219-225
- X. Huang:
On global sequence alignment.
227-235
- G. A. Lambert:
Software-controlled testing for antidromic activation of single neurones.
237-241
- B. Golding:
Exploratory analysis of multiple sequence alignments using phylogenies.
243-247
- J. A. Inglehart, P. C. Nelson:
On the limitations of automated restriction mapping.
249-261
- Elias Zintzaras, N. P. Brown, A. Kowald:
Growing a classification tree using the apparent misclassification rate.
263-271
- F. Dardel:
MC-Fit: using Monte-Carlo methods to get accurate confidence limits on enzyme parameters.
273-275
- Fabio E. Penotti:
A distributed system for DNA/protein database similarity searches.
277-280
- P. R. Reeves, L. Farnell, R. Lan:
MULTICOMP: a program for preparing sequence data for phylogenetic analysis.
281-284
- Malcolm F. Wilkins, Colin W. Morris, Lynne Boddy:
A comparison of Radial Basis Function and backpropagation neural networks for identification of marine phytoplankton from multivariate flow cytometry data.
285-294
- E. M. el-Mansi, G. C. Dawson, C. F. Bryce:
Steady-state modelling of metabolic flux between the tricarboxylic acid cycle and the glyoxylate bypass in Escherichia coli.
295-299
- Erik L. L. Sonnhammer, Richard Durbin:
A workbench for large-scale sequence homology analysis.
301-307
- P. Zhang, E. A. Schon, S. G. Fischer, E. Cayanis, J. Weiss, S. Kistler, Philip E. Bourne:
An algorithm based on graph theory for the assembly of contigs in physical mapping of DNA.
309-317
- Victor B. Strelets, Andrey A. Ptitsyn, Luciano Milanesi, Hwa A. Lim:
Data bank homology search algorithm with linear computation complexity.
319-322
- W. G. Hoeck:
InfoTrac TFD: a microcomputer implementation of the Transcription Factor Database TFD with a graphical user interface.
323-327
- T. N. Bryant:
A bacterial identification teaching exercise revisited.
329-334
- S. A. Sammons, D. P. Dykes:
OLGCG: an OPEN LOOK interface to the GCG sequence analysis package.
335-339
- L. B. Ellis, R. P. Milius:
Valid and invalid implementations of GOR secondary structure predictions.
341-348
- Carol Soderlund, Christian Burks:
GRAM and genfragII: solving and testing the single-digest, partially ordered restriction map problem.
349-358
- T. N. Bryant:
A program for reordering coded data.
359-360
- Prakash M. Nadkarni, S. T. Reeders, J. Zhou:
A modification of the ALIGN program to assist visual interpretation of mutated sequences.
361-362
Volume 10,
Number 4,
July 1994
Articles
- K. W. Hart, David B. Searls, G. Christian Overton:
SORTEZ: a relational translator for NCBI's ASN.1 database.
369-378
- Osamu Gotoh:
Further improvement in methods of group-to-group sequence alignment with generalized profile operations.
379-387
- Florence Corpet, B. Michot:
RNAlign program: alignment of RNA sequences using both primary and secondary structures.
389-399
- A. Gleizes, Alain Hénaut:
A global approach for contig construction.
401-408
- Andrey Rzhetsky, Masatoshi Nei:
METREE: a program package for inferring and testing minimum-evolution trees.
409-412
- Rainer Fuchs:
Sequence analysis by electronic mail: a tool for accessing Internet e- mail servers.
413-417
- Jin Kim, Sakti Pramanik, M. J. Chung:
Multiple sequence alignment using simulated annealing.
419-426
- C. S. Tung, E. S. Carter II:
Nucleic acid modeling tool (NAMOT): an interactive graphic tool for modeling nucleic acid structures.
427-433
- L. W. Wright, J. B. Lichter, John Reinitz, M. A. Shifman, Kenneth K. Kidd, Perry L. Miller:
Computer-assisted restriction mapping: an integrated approach to handling experimental uncertainty.
435-442
- A. Fire:
A four-dimensional digital image archiving system for cell lineage tracing and retrospective embryology.
443-447
- M. R. Mautino:
A computer program for construction of circular restriction maps.
449-452
- Claudine Landes, Jean-Loup Risler:
Fast databank searching with a reduced amino-acid alphabet.
453-454
- W. Miller, Mark Boguski:
A note about computing all local alignments.
455-456
- Roman L. Tatusov, Eugene V. Koonin:
A simple tool to search for sequence motifs that are conserved in BLAST outputs.
457-459
Volume 10,
Number 5,
September 1994
Articles
- Chiara Scapoli, A. Rodriguez-Larralde, Stefano Volinia, M. Beretta, Italo Barrai:
Identification of a set of frequent decanucleotides in plants and in animals.
465-470
- D. Bray, S. Lay:
Rapid numerical integration algorithm for finding the equilibrium state of a system of coupled binding reactions.
471-476
- M. Farza, A. Cheruy:
BIOESTIM: software for automatic design of estimators in bioprocess engineering.
477-488
- Carlo Caporale, Ciro Sepe, Carla Caruso, Pasquale Petrilli, Vincenzo Buonocore:
An algorithm to determine protein sequence alignment by utilizing data obtained from a peptide mixture and individual peptides.
489-494
- J. Clotet, Juan Cedano, Enrique Querol:
An Excel spreadsheet computer program combining algorithms for prediction of protein structural characteristics.
495-500
- Roberto Gambari, Stefano Volinia, Carlo Nesti, Chiara Scapoli, Italo Barrai:
A set of Alu-free frequent decamers from mammalian genomes enriched in transcription factor signals.
501-508
- Oswaldo Trelles-Salazar, Emilio L. Zapata, José María Carazo:
On an efficient parallelization of exhaustive sequence comparison algorithms on message passing architectures.
509-511
- Y. Elkind, B. Nir, J. I. Weller:
Maximum likelihood estimation of quantitative trait loci parameters with the aid of genetic markers using a standard statistical package.
513-517
- Klaus Heumann, David G. George, Hans-Werner Mewes:
A new concept of sequence data distribution on wide area networks.
519-526
- L. A. Parodi, C. A. Granatir, Gerald M. Maggiora:
A consensus procedure for predicting the location of alpha-helical transmembrane segments in proteins.
527-535
- Janos Posfai, Z. Szaraz, Richard J. Roberts:
VISA: Visual Sequence Analysis for the comparison of multiple amino acid sequences.
537-544
- Mansoor A. S. Saqi, Roger A. Sayle:
PdbMotif--a tool for the automatic identification and display of motifs in protein structures.
545-546
- Kenta Nakai, T. Tokimori, A. Ogiwara, I. Uchiyama, T. Niiyama:
Gnome - an Internet-based sequence analysis tool.
547-550
- L. L. Walsh:
Navigating the Brookhaven Protein Data Bank.
551-557
- J. Altimiras, M. Feliu, A. Aissaoui, L. Tort:
Computing heart rate variability using spectral analysis techniques: HRVUAB, a ready-to-use program.
559-562
- J. T. Niemi, P. Mantsala:
TRACTOR, a program to locate subclones in a nucleotide sequence using only one sequencing reaction.
563-566
- Michael L. Engle, Christian Burks:
GenFrag 2.1: new features for more robust fragment assembly benchmarks.
567-568
- Yves Van de Peer, Rupert De Wachter:
TREECON for Windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment.
569-570
Volume 10,
Number 6,
December 1994
Articles
- Weider Chang, Ilya N. Shindyalov, Calton Pu, Philip E. Bourne:
Design and application of PDBlib, a C++ macromolecular class library.
575-586
- Adam Godzik, Jeffrey Skolnick:
Flexible algorithm for direct multiple alignment of protein structures and sequences.
587-596
- Y. V. Kondrakhin, V. V. Shamin, Nikolay A. Kolchanov:
Construction of a generalized consensus matrix for recognition of vertebrate pre-mRNA 3'-terminal processing sites.
597-603
- V. A. Shepelev, N. V. Yanishevsky:
Multidimensional dot-matrices.
605-611
- Ying Xu, Richard J. Mural, Edward C. Uberbacher:
Constructing gene models from accurately predicted exons: an application of dynamic programming.
613-623
- Yuhong Wang, Rolf A. Prade, James Griffith, William E. Timberlake, Jonathan Arnold:
ODS_BOOTSTRAP: assessing the statistical reliability of physical maps by bootstrap resampling.
625-634
- Gisbert Schneider, Johannes Schuchhardt, Paul Wrede:
Artificial neural networks and simulated molecular evolution are potential tools for sequence-oriented protein design.
635-645
- Pankaj Agarwal:
Simulation of aggregation in Dictyostelium using the Cell Programming Language.
647-655
- T. N. Bryant:
Identifying correct bacteriological vocabulary: software to look up RKC codes and statements.
657-660
- Victor V. Solovyev, Asaf A. Salamov:
Predicting alpha-helix and beta-strand segments of globular proteins.
661-669
- Steven W. Smith, Ross A. Overbeek, Carl R. Woese, W. Gilbert, P. M. Gillevet:
The genetic data environment an expandable GUI for multiple sequence analysis.
671-675
- M. L. Cain, L. W. Murray:
Non-linear regression models to estimate the size of DNA fragments.
677-680
- S. R. Wilson, P. J. Solomon:
Estimates for different stages of HIV/AIDS disease.
681-683
- M. G. Claros, Gunnar von Heijne:
TopPred II: an improved software for membrane protein structure predictions.
685-686
- David S. Wishart, Robert F. Boyko, Brian D. Sykes:
Constrained multiple sequence alignment using XALIGN.
687-688
Copyright © Tue Nov 17 01:21:42 2009
by Michael Ley (ley@uni-trier.de)
