Literature DB >> 3753784

A convenient and adaptable microcomputer environment for DNA and protein sequence manipulation and analysis.

J Pustell, F C Kafatos.   

Abstract

We describe the further development of a widely used package of DNA and protein sequence analysis programs for microcomputers (1,2,3). The package now provides a screen oriented user interface, and an enhanced working environment with powerful formatting, disk access, and memory management tools. The new GenBank floppy disk database is supported transparently to the user and a similar version of the NBRF protein database is provided. The programs can use sequence file annotation to automatically annotate printouts and translate or extract specified regions from sequences by name. The sequence comparison programs can now perform a 5000 X 5000 bp analysis in 12 minutes on an IBM PC. A program to locate potential protein coding regions in nucleic acids, a digitizer interface, and other additions are also described.

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Year:  1986        PMID： 3753784      PMCID： PMC339432          DOI： 10.1093/nar/14.1.479

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


  11 in total

1.  Rapid and sensitive protein similarity searches.

Authors:  D J Lipman; W R Pearson
Journal:  Science       Date:  1985-03-22       Impact factor: 47.728

2.  A convenient and adaptable package of DNA sequence analysis programs for microcomputers.

Authors:  J Pustell; F C Kafatos
Journal:  Nucleic Acids Res       Date:  1982-01-11       Impact factor: 16.971

3.  Improved estimation of DNA fragment lengths from Agarose gels.

Authors:  H E Schaffer; R R Sederoff
Journal:  Anal Biochem       Date:  1981-07-15       Impact factor: 3.365

4.  Measurements of the effects that coding for a protein has on a DNA sequence and their use for finding genes.

Authors:  R Staden
Journal:  Nucleic Acids Res       Date:  1984-01-11       Impact factor: 16.971

5.  A high speed, high capacity homology matrix: zooming through SV40 and polyoma.

Authors:  J Pustell; F C Kafatos
Journal:  Nucleic Acids Res       Date:  1982-08-11       Impact factor: 16.971

6.  A convenient and adaptable package of computer programs for DNA and protein sequence management, analysis and homology determination.

Authors:  J Pustell; F C Kafatos
Journal:  Nucleic Acids Res       Date:  1984-01-11       Impact factor: 16.971

7.  The codon preference plot: graphic analysis of protein coding sequences and prediction of gene expression.

Authors:  M Gribskov; J Devereux; R R Burgess
Journal:  Nucleic Acids Res       Date:  1984-01-11       Impact factor: 16.971

8.  Cuticle protein genes of Drosophila: structure, organization and evolution of four clustered genes.

Authors:  M Snyder; M Hunkapiller; D Yuen; D Silvert; J Fristrom; N Davidson
Journal:  Cell       Date:  1982-07       Impact factor: 41.582

9.  Automation of the computer handling of gel reading data produced by the shotgun method of DNA sequencing.

Authors:  R Staden
Journal:  Nucleic Acids Res       Date:  1982-08-11       Impact factor: 16.971

10.  DNA sequences of yeast H3 and H4 histone genes from two non-allelic gene sets encode identical H3 and H4 proteins.

Authors:  M M Smith; O S Andrésson
Journal:  J Mol Biol       Date:  1983-09-25       Impact factor: 5.469
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  27 in total

1.  Nonuniform evolution of duplicated, developmentally controlled chorion genes in a silkmoth.

Authors:  S G Tsitilou; F C Kafatos
Journal:  J Mol Evol       Date:  1989-11       Impact factor: 2.395

2.  The 3' ends of two genes in the Balbiani ring c locus of Chironomus thummi.

Authors:  H Bäumlein; J Pustell; U Wobus; S T Case; F C Kafatos
Journal:  J Mol Evol       Date:  1986       Impact factor: 2.395

3.  cDNA cloning of human plasminogen activator-inhibitor from endothelial cells.

Authors:  D Ginsburg; R Zeheb; A Y Yang; U M Rafferty; P A Andreasen; L Nielsen; K Dano; R V Lebo; T D Gelehrter
Journal:  J Clin Invest       Date:  1986-12       Impact factor: 14.808

4.  Interactive molecular biology computing.

Authors:  J M Pustell
Journal:  Nucleic Acids Res       Date:  1988-03-11       Impact factor: 16.971

5.  Cloning, nucleotide sequence, and characterization of genes encoding the secretion function of the Pasteurella haemolytica leukotoxin determinant.

Authors:  C A Strathdee; R Y Lo
Journal:  J Bacteriol       Date:  1989-02       Impact factor: 3.490

6.  The legumin gene family: structure and evolutionary implications of Vicia faba B-type genes and pseudogenes.

Authors:  U Heim; R Schubert; H Bäumlein; U Wobus
Journal:  Plant Mol Biol       Date:  1989-12       Impact factor: 4.076

7.  A monoclonal antibody to von Willebrand factor (vWF) inhibits factor VIII binding. Localization of its antigenic determinant to a nonadecapeptide at the amino terminus of the mature vWF polypeptide.

Authors:  W F Bahou; D Ginsburg; R Sikkink; R Litwiller; D N Fass
Journal:  J Clin Invest       Date:  1989-07       Impact factor: 14.808

8.  Extensive homology between the leukotoxin of Pasteurella haemolytica A1 and the alpha-hemolysin of Escherichia coli.

Authors:  C A Strathdee; R Y Lo
Journal:  Infect Immun       Date:  1987-12       Impact factor: 3.441

9.  Different mitochondrial gene orders among insects: exchanged tRNA gene positions in the COII/COIII region between an orthopteran and a dipteran species.

Authors:  H R Haucke; G Gellissen
Journal:  Curr Genet       Date:  1988-11       Impact factor: 3.886

10.  Characterization of the DNA polymerase gene of human herpesvirus 6.

Authors:  I A Teo; B E Griffin; M D Jones
Journal:  J Virol       Date:  1991-09       Impact factor: 5.103
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