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Site Specific Codon B

Add MS 86694 : 1985-1994

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  • Title:
    Site Specific Codon B
  • Collection Area: Western Manuscripts
  • Reference: Add MS 86694
  • Creation Date: 1985-1994
  • Extent and Access:
    Extent: 5 sub-folders and 1 loose item

  • Language: English
  • Contents and Scope:
    Contents:

    Some items are undated.

    Folder marked 'CODON BIAS in gap, ompA. Summaries and calculations 'testq''.

    • Computer printout of listing for 'newbias2'; 6 Sep 1994.
    • Handwritten notes and figures relating to 'testing neighbours of K, T in threonine, glycine'.
    • Table showing intergenetic data for salmonella, photocopy.
    • Handwritten notes relating to testing Qs, attached is a computer printout.

    Folder marked 'Codon bias theory + correspondence and dynamics of synthesis'.

    • Letter to Maynard Smith from Adam Eyre-Walker (Department of Biological Sciences, Rutgers University); 7 May 1994.
    • Letter to Maynard Smith from Montgomery Slatkin (Laboratoire Genome et Populations, Universite de Montpellier); 3 Jan 1994.
    • Letter from Maynard Smith to Montgomery Slatkin, attaching notes relating to optimal codon; 17 Jan 1994?
    • Letter to Maynard Smith from Montgomery Slatkin; 1 Feb 1994.
    • Letter to Maynard Smith from Montgomery Slatkin; 9 May 1994.
    • Letter from Maynard Smith to Montgomery Slatkin; 8 Jun 1994.
    • Letter to Maynard Smith from Montgomery Slatkin; 1 Jul 1994.
    • Handwritten notes on codon bias in bacteria.

    Loose item

    • Handwritten table showing residue, codons, tRNAs, usage in gap and comments.

    Folder marked 'Codon bias in gap gem "newbias", "newbias2", "pribias", "pribias2".'

    • Computer printout of a run of "pribias2" on eco2.gap10; 10 Oct 1993.
    • Computer printout for "newbias" run on gap10; 9 Sep 1994.
    • Computer printout of "newbias2" & "pribias"; 10 Oct 1994.
    • Computer printout of run of "newbias2" on eco2.coligap; 11 Oct 1994.
    • Handwritten notes relating to 'codon bias in gap and ompA'; 12 Oct 1994.
    • Computer printout for "newbias" listing and runs of eco2.proneg and eco2.proompa; 13 Feb 1995.
    • Computer printout for run of "newbias2" on profile, omitting strain 9; 28 Sep undated.
    • Computer printout of a run of "newbias2" on gap 10; 10 Oct undated.
    • Computer printout for "pribias" table 2.
    • Computer printout of runs of "newbias2" on gap 10.
    • Computer printout for '10data.doc'.
    • Computer printouts of runs of "newbias2" on 'eco2.gap10'.
    • Computer printout of "newbias" run on 'eco2.salgap'.
    • Computer printout for 'ecoli gap sequences 9 strains'.
    • Computer printouts for 'proneg.seq' and 'proompa.seq'.
    • Handwritten notes relating to 'newbias'.
    • Computer printouts on 'Ecoli gap xx'.
    • Computer printouts on "newbias" run on 'eco2.gap10'
    • Computer printout showing effect if amino acids in gap.

    Folder marked 'Codon Bias in ompA, "newbias2", "pribias2"'.

    • Computer printout of "pribias2" using 'eco2.ompa10'.
    • Computer printout for 'ompa10.Maynard Smith'.
    • Computer printout showing 'analysis of eco2.ompa10' with runs of "newbias2" and "pribias2".

    Folder marked 'Yarus & Folley RxxR YxxY programm "yarus"'

    • Handwritten notes relating to analysis of Yarus and Folley [data], including a computer printout.
    • M. Yarus, and L. S. Folley, 'Sense codons are found in specific contexts', Journal of Molecular Biology , 182 (1985), 529-540. Includes handwritten notes.

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