Literature DB >> 3003673

A comprehensive package for DNA sequence analysis in FORTRAN IV for the PDP-11.

J Arnold, V K Eckenrode, K Lemke, G J Phillips, S W Schaeffer.   

Abstract

A computer package written in Fortran-IV for the PDP-11 minicomputer is described. The package's novel features are: software for voice-entry of sequence data; a less memory intensive algorithm for optimal sequence alignment; and programs that fit statistical models to nucleic acid and protein sequences.

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Year:  1986        PMID： 3003673      PMCID： PMC339390          DOI： 10.1093/nar/14.1.239

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  37 in total

1.  MAXAMIZE. A DNA sequencing strategy advisor.

Authors:  R Bach; P Friedland; D L Brutlag; L Kedes
Journal:  Nucleic Acids Res       Date:  1982-01-11       Impact factor: 16.971

2.  Electrostatic potential molecular surfaces.

Authors:  P K Weiner; R Langridge; J M Blaney; R Schaefer; P A Kollman
Journal:  Proc Natl Acad Sci U S A       Date:  1982-06       Impact factor: 11.205

3.  GENESIS, a knowledge-based genetic engineering simulation system for representation of genetic data and experiment planning.

Authors:  P Friedland; L Kedes; D Brutlag; Y Iwasaki; R Bach
Journal:  Nucleic Acids Res       Date:  1982-01-11       Impact factor: 16.971

4.  Matrix program to analyze primary structure homology.

Authors:  J Novotny
Journal:  Nucleic Acids Res       Date:  1982-01-11       Impact factor: 16.971

5.  Pattern recognition in nucleic acid sequences. I. A general method for finding local homologies and symmetries.

Authors:  W B Goad; M I Kanehisa
Journal:  Nucleic Acids Res       Date:  1982-01-11       Impact factor: 16.971

6.  H curves, a novel method of representation of nucleotide series especially suited for long DNA sequences.

Authors:  E Hamori; J Ruskin
Journal:  J Biol Chem       Date:  1983-01-25       Impact factor: 5.157

7.  A large database DNA sequence handling program with generalized searching specifications.

Authors:  P A Stockwell
Journal:  Nucleic Acids Res       Date:  1982-01-11       Impact factor: 16.971

8.  A statistical test for comparing several nucleotide sequences.

Authors:  R D Sege; B E Saxberg
Journal:  Nucleic Acids Res       Date:  1982-01-11       Impact factor: 16.971

9.  The universal dinucleotide asymmetry rules in DNA and the amino acid codon choice.

Authors:  R Nussinov
Journal:  J Mol Evol       Date:  1981       Impact factor: 2.395

10.  A computer program to search for tRNA genes.

Authors:  R Staden
Journal:  Nucleic Acids Res       Date:  1980-02-25       Impact factor: 16.971
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  6 in total

1.  The application of Markov chain analysis to oligonucleotide frequency prediction and physical mapping of Drosophila melanogaster.

Authors:  A J Cuticchia; R Ivarie; J Arnold
Journal:  Nucleic Acids Res       Date:  1992-07-25       Impact factor: 16.971

2.  Mono- through hexanucleotide composition of the sense strand of yeast DNA: a Markov chain analysis.

Authors:  J Arnold; A J Cuticchia; D A Newsome; W W Jennings; R Ivarie
Journal:  Nucleic Acids Res       Date:  1988-07-25       Impact factor: 16.971

3.  DNA sequence evolution of the amylase multigene family in Drosophila pseudoobscura.

Authors:  C J Brown; C F Aquadro; W W Anderson
Journal:  Genetics       Date:  1990-09       Impact factor: 4.562

4.  The effect of codon usage on the oligonucleotide composition of the E. coli genome and identification of over- and underrepresented sequences by Markov chain analysis.

Authors:  G J Phillips; J Arnold; R Ivarie
Journal:  Nucleic Acids Res       Date:  1987-03-25       Impact factor: 16.971

5.  Mono- through hexanucleotide composition of the Escherichia coli genome: a Markov chain analysis.

Authors:  G J Phillips; J Arnold; R Ivarie
Journal:  Nucleic Acids Res       Date:  1987-03-25       Impact factor: 16.971

6.  Induction of a growth-phase-dependent promoter triggers transcription of bolA, an Escherichia coli morphogene.

Authors:  M Aldea; T Garrido; C Hernández-Chico; M Vicente; S R Kushner
Journal:  EMBO J       Date:  1989-12-01       Impact factor: 11.598
  6 in total

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