In order to clarify this matter, I think that the following
modification could be made to the documentation:
"Informational entropy is calculated from a table of overlapping DNA
triplet frequencies, using equation 1 in Andrzej Konopka, J. Theor.
Biol. 107: 697-704 (1984). The use of overlapping triplets smooths
the frame effect."
At 00:53 26/02/2006, Joel Huberman wrote:
Dear Artemis-users List,
I have found that making graphs of DNA sequences with the
"Informational Entropy" function (under the Graph menu) appears to
provide useful information regarding potential replication origin
locations, at least in S. pombe DNA. I would like to know exactly how
"Informational Entropy" is calculated. The Artemis instruction manual
refers the reader to an article by Andrzej Konopka in J. Theor. Biol.
107: 697-704 (1984). Unfortunately, that article describes multiple
ways of calculating informational entropy. Does anyone know which of
these methods is used in Artemis?
Thanks,
Joel Huberman
*********************************
Dr. Joel A. Huberman
Professor of Cellular & Molecular Biology
Department of Cancer Genetics
Roswell Park Cancer Institute
Elm & Carlton Streets
Buffalo, NY 14263-0001
(716) 845-3047 Phone
(716) 845-8126 FAX
[EMAIL PROTECTED]
http://asajj.roswellpark.org/huberman/jh.html
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