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  • reassortment database

    a database of influenza reassortments is needed !

    let's make a list, so to find the most likely candidates
    for M**flu reassortments

    AFAIK there is no overall such list, but some papers are published for special
    cases or reassortments in the past.
    Please help to search for these and to complete the collection


    year
    reassorting strains
    reassortment-type
    differences in the 8 segments between the reassortant and the first reassortanting strain in 1/100%

    Code:
    1957: 1918H1N1(a)+avian H2N2(b)    :  abababaa     6,175,  3,358,  6,489,  5,  7
    1968: 1957H2N2+avian H3N2          :  ababaaaa    34, 50, 29,484, 21, 33,  9, 25    
    1969: 1968H3N2 + H2N2              :  aabaabbb     2,  3, 27,  5,  1, 23, 17, 15
    1971:                              :  abaaabbb
    1972: 1968H3N2 + H2N2              :  bababcaa    27,  9, 29, 23, 28, 35, 13, 14
    2002: 1972H3N2 + 1977H1N1          :  aaabaaaa    46, 57, 49,475, 52, 80, 41, 44
    
    1998: swine  "triple reassortant"
    
    2006: CEID23=  swine+avian   : baaaaaaa
          H2N3 CEID23 +avian H2N3    :  aabbabaa 
    
    2007?: swine H3N1
    2009: sw1998+swEU                  :  aaaaabba
    I'm interested in expert panflu damage estimates
    my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

  • #2
    Re: reassortment database

    Since you're showing reassorts, wouldn't it make more sense to track similarities, since a reassorted segment is the same as an earlier sequence?

    .
    "The next major advancement in the health of American people will be determined by what the individual is willing to do for himself"-- John Knowles, Former President of the Rockefeller Foundation

    Comment


    • #3
      Re: reassortment database

      still only one google-hit for "reassortment database"


      reassortments are not so often, and they are essential for
      influenza-evolution so it makes sense to store them,
      analyze them, tabulize them.

      Species jumping and pandemics are usually caused by reassortments.

      Analyzing flu evolution in all 8 segments is often difficult and confusing
      because of reassortments. Resolve the confusion once and
      document it for others so it's easier for them.

      Also a tool where you can enter a flu-virus and the database
      gives ancestry in all 8 segments.
      Make one hypothetical=calculated/estimated genome
      for each reassortment

      so any new virus can easily be checked for its reassortment-type
      I'm interested in expert panflu damage estimates
      my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

      Comment


      • #4
        Re: reassortment database

        see also this thread:

        -----------------------------------------
        idea: walk through the papers and extract the
        reassortment-sequences from it
        ------------------------------------
        idea: systematically search all flu-genomes for reassortments and
        calculate the likely reassorting-event-parents and child
        and store them
        -------------------------------------------

        we should also store how well the genomes spread in what
        immunity-surrounding and its virulences (estimates)
        humans,cell-cultures,animals

        -------------------------------------------

        process/evaluate/examine the database for similarities,patterns,
        statistics to predict which genomes reassort how well with which others

        ------------------------------------------------------

        also make a passages database, what mutations develope after
        passages in ferrets,mice,cell-cultures
        I'm interested in expert panflu damage estimates
        my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

        Comment

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