Home LiteratureArticle Details
PMID: 6546431 Published · ppublish English Journal Article

A comprehensive sequence analysis program for the IBM personal computer.

Nucleic acids research ·Vol. 12 ·No. 1 Pt 2 ·1984-01-11 ·Pages 581-99

Queen C, Korn LJ

Abstract

We have developed a versatile program for the analysis of nucleic acid and protein sequences on the IBM Personal Computer. The program is interactive and self-instructing. It contains all the features generally found in sequence analysis programs on large computers, including extensive homology routines, as well as new procedures for the entry of sequence data. The program contains facilities to store and utilize the entire Nucleic Acid Sequence Data Bank. We have devised a new algorithm to find restriction enzyme sites, which allows our microcomputer program to find all sites on a small plasmid for 100 different enzymes in 1 to 2 minutes.

MeSH Terms
Amino Acid Sequence Animals Base Sequence Codon Computers DNA/genetics Genes Mice Microcomputers Plasmids Repetitive Sequences, Nucleic Acid Software
Chemicals
Codon DNA
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Queen C
Korn L J
References (39)
39 references, click to expand
  1. Sequence of the 16 S-23 s spacer region in two ribosomal RNA operons of Escherichia coli.
    J Biol Chem. 1979 May 10;254(9):3264-71 PMID: 372188
  2. The origin of replication of plasmid p15A and comparative studies on the nucleotide sequences around the origin of related plasmids.
    Cell. 1983 Jan;32(1):119-29 PMID: 6186390
  3. Nucleotide sequence of cloned cDNA for bovine corticotropin-beta-lipotropin precursor.
    Nature. 1979 Mar 29;278(5703):423-7 PMID: 221818
  4. Structure and genomic organization of the mouse dihydrofolate reductase gene.
    Cell. 1980 Feb;19(2):355-64 PMID: 6244105
  5. Sequence and sequence variation within the 1.688 g/cm3 satellite DNA of Drosophila melanogaster.
    J Mol Biol. 1979 Dec 5;135(2):465-81 PMID: 231676
  6. Computer analysis of nucleic acids and proteins.
    Methods Enzymol. 1980;65(1):595-609 PMID: 6154871
  7. Deletions of distal sequence after termination of transcription at the end of the tryptophan operon in E. coli.
    Cell. 1980 Apr;19(4):829-36 PMID: 6991123
  8. Analysis of a drosophila tRNA gene cluster.
    Cell. 1980 Apr;19(4):889-95 PMID: 6769590
  9. Sequence of retrovirus provirus resembles that of bacterial transposable elements.
    Nature. 1980 Jun 19;285(5766):550-4 PMID: 6250038
  10. Cloned human and mouse kappa immunoglobulin constant and J region genes conserve homology in functional segments.
    Cell. 1980 Nov;22(1 Pt 1):197-207 PMID: 6775818
  11. Structure, organization and evolution of developmentally regulated chorion genes in a silkmoth.
    Cell. 1980 Dec;22(3):855-67 PMID: 7460015
  12. An eleven-base-pair sequence determines the specificity of DNA uptake in Haemophilus transformation.
    Gene. 1980 Nov;11(3-4):311-8 PMID: 6260577
  13. Nucleotide sequence of the initiation site for ribosomal RNA transcription in Drosophila melanogaster: comparison of genes with and without insertions.
    Proc Natl Acad Sci U S A. 1981 Mar;78(3):1513-7 PMID: 6262809
  14. Site-specific cleavage by T1 RNase of U-1 RNA in u-1 ribonucleoprotein particles.
    Proc Natl Acad Sci U S A. 1981 Mar;78(3):1562-6 PMID: 6165013
  15. Nucleotide sequence of Escherichia coli trpE. Anthranilate synthetase component I contains no tryptophan residues.
    J Mol Biol. 1981 Feb 15;146(1):45-54 PMID: 7021857
  16. Intramolecular integration within Moloney murine leukemia virus DNA.
    J Virol. 1981 Oct;40(1):164-72 PMID: 6457158
  17. Sequence of U1 RNA from Drosophila melanogaster: implications for U1 secondary structure and possible involvement in splicing.
    Nucleic Acids Res. 1981 Dec 11;9(23):6351-68 PMID: 6172778
  18. Evolution of human immunoglobulin kappa J region genes.
    J Biol Chem. 1982 Feb 10;257(3):1516-22 PMID: 6276389
  19. Regulation of the S10 ribosomal protein operon in E. coli: nucleotide sequence at the start of the operon.
    Cell. 1981 Oct;26(2 Pt 2):205-11 PMID: 7037196
  20. Structure and evolution of goat gamma-, beta C- and beta A-globin genes: three developmentally regulated genes contain inserted elements.
    Cell. 1981 Dec;27(2 Pt 1):359-69 PMID: 6277503
  21. Incompletely base-paired flip-flop terminal loops link the two DNA strands of the vaccinia virus genome into one uninterrupted polynucleotide chain.
    Cell. 1982 Feb;28(2):315-24 PMID: 7060133
  22. SEQ: a nucleotide sequence analysis and recombination system.
    Nucleic Acids Res. 1982 Jan 11;10(1):279-94 PMID: 7063402
  23. Microcomputer programs for DNA sequence analysis.
    Nucleic Acids Res. 1982 Jan 11;10(1):31-8 PMID: 6278408
  24. Two-dimensional graphic analysis of DNA sequence homologies.
    Nucleic Acids Res. 1982 Jan 11;10(1):365-74 PMID: 7063405
  25. Improved estimation of secondary structure in ribonucleic acids.
    Nat New Biol. 1973 Nov 14;246(150):40-1 PMID: 4519026
  26. Prediction of protein conformation.
    Biochemistry. 1974 Jan 15;13(2):222-45 PMID: 4358940
  27. Computer analysis of nucleic acid regulatory sequences.
    Proc Natl Acad Sci U S A. 1977 Oct;74(10):4401-5 PMID: 270683
  28. A rho-dependent termination site in the gene coding for tyrosine tRNA su3 of Escherichia coli.
    Nature. 1978 Mar 30;272(5652):423-8 PMID: 345126
  29. The sequence of the chromosomal mouse beta-globin major gene: homologies in capping, splicing and poly(A) sites.
    Cell. 1978 Dec;15(4):1125-32 PMID: 569555
  30. Nucleotide sequence of Xenopus borealis oocyte 5S DNA: comparison of sequences that flank several related eucaryotic genes.
    Cell. 1978 Dec;15(4):1145-56 PMID: 264240
  31. Apple II software for M13 shotgun DNA sequencing.
    Nucleic Acids Res. 1982 Jan 11;10(1):39-49 PMID: 6278410
  32. Improvements to a program for DNA analysis: a procedure to find homologies among many sequences.
    Nucleic Acids Res. 1982 Jan 11;10(1):449-56 PMID: 6174938
  33. A convenient and adaptable package of DNA sequence analysis programs for microcomputers.
    Nucleic Acids Res. 1982 Jan 11;10(1):51-9 PMID: 6278412
  34. A symmetrical six-base-pair target site sequence determines Tn10 insertion specificity.
    Cell. 1982 Jan;28(1):155-63 PMID: 6279310
  35. Nucleotide sequence of the transforming gene of avian myeloblastosis virus.
    Science. 1982 Jun 25;216(4553):1421-3 PMID: 6283631
  36. An interactive graphics program for comparing and aligning nucleic acid and amino acid sequences.
    Nucleic Acids Res. 1982 May 11;10(9):2951-61 PMID: 7099970
  37. Long internal direct repeat in Epstein-Barr virus DNA.
    J Virol. 1982 Oct;44(1):286-94 PMID: 6292491
  38. Portable microcomputer software for nucleotide sequence analysis.
    Nucleic Acids Res. 1982 Oct 25;10(20):6451-63 PMID: 6184674
  39. Structure of simian virus 40 recombinants that contain both host and viral DNA sequences. II. The structure of variant 1103 and its comparison to variant CVPS/1P2 (EcoRI res).
    J Biol Chem. 1979 May 10;254(9):3592-7 PMID: 218975
Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
0305-1048
DOI
10.1093/nar/12.1part2.581
Published
1984-01-11
Pages
581-99
Language
English
Region
England
NLM ID
0411011
PMCID
PMC321072
Subset
IM
External Links
PubMed source DOI: 10.1093/nar/12.1part2.581 PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2