promotor and database-search?

Tom Schneider toms at fcs260c2.ncifcrf.gov
Wed Jan 27 20:15:57 EST 1993


In article <1993Jan27.182937.12863 at gserv1.dl.ac.uk>
Bianca (HABERMANN at AIMP.UNA.AC.AT) writes:

| Suppose you had promotor sequences of several - functionally related - genes
| with a conserved sequence motif in common,

Two sequence recognizers can have identical consensus sequences, and yet
recognize different patterns.  Therefore you should not use consensus
sequences.  Instead, make sequence logos of the sequences you have at hand and
compare them to the sequence logos of other sites.  The results will be highly
sensitive and mathematically much more sensible.

See:

@article{Stephens.Schneider.Splice,
author = "R. M. Stephens
  and T. D. Schneider",
title = "Features of spliceosome evolution and function
inferred from an analysis of the information at human splice sites",
journal = "J. Mol. Biol.",
volume = "228",
pages = "1124-1136",
year = "1992"}

Regards,

  Tom Schneider
  National Cancer Institute
  Laboratory of Mathematical Biology
  Frederick, Maryland  21702-1201
  toms at ncifcrf.gov



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