In article <9308311856.AA03849 at genetics.com> mcolbert at GENETICS.COM writes:
>Hello,
>>I am looking for information on neural network packages that can be used for
>protein and nucleic acid sequence analysis. Specifically, we have novel
>sequences and want to see what (if anything) they may be similar to within the
>databases. The colleague I am asking this question for has already run
>traditional types of homology searches (blast,fasta) with not much success.
>The profile analysis offered in the GCG package is more sensitive than a
>traditional homology search, but creating a profile requires having multiple
>sequences that you align and search with, and we have only one sequence at a
>time. I have done some work with neural networks (very limited) so we
>thought we would at least ask around.
>>Any ideas?
>>Thanks.
>>-Maureen Colbert
>mcolbert at genetics.com
I know of two neural net applications ;-
Dmitrij Frishmann & Patrick Argos (1992)
"Recognition of distantly related protein sequences using conserved Motifs and
Neural Nets"
Jonathan Hirst & Michael Sternberg (1992)
"Evaluation of protein motif recognition by neural networks"
Both presented at "Genes, Proteins and Computers - 2nd International Conference
on Computing in Molecular Biology" Chester (UK), September 1992
Frishmann at the time was at EMBL and a netfind shows him to be reachable as :
frishman at embl-heidelberg.de
also Argos can be mailed at:
argos at embl-heidelberg.de
I couldnt narrow down the icrf search theree are 27 domains at icrf - try
posting to postmaster at icrf.ac.uk they may be able to give you Hirst and Sternberg's
email addresses.
Bon Chance!
Tony P. (mbpcr at seqnet.dl.ac.uk AKA parsons_a at snd01.pcr.co.uk)
