PROMOTER SCAN 1.6 for PC and UNIX
Dan S. Prestridge, Ph.D.
danp at biosci.cbs.umn.edu
Fri Dec 22 10:43:01 EST 1995
ANNOUNCING THE AVAILABILITY OF PROMOTER SCAN version 1.60 for IBM PC &
PROMOTER SCAN Version 1.60 for both IBM PC and UNIX computers
are now available. (Macintosh and VAX VMS versions are not available,
or planned at this time).
Improvements in UNIX version 1.60 (over version 1.50) are:
1) The TATA box prediction has been improved, recognizing
approximately 10% more TATA boxes. Also, the TATA box is now used to
predict the Transcription Start Site (TSS). In our test set, PROMOTER
SCAN reports that 72% of recognized promoters contained TATA boxes;
and of those, the TSS is reported to within +- 10 bases of the actual
TSS. PROMOTER SCAN will recognize about 70% of primate promoter
sequences, and correctly report the TSS within 10 bases of the actual
TSS in 50% of primate promoter sequences, with a false positive
promoter prediction rate of about 1 in 17,200 non-promoter bases.
2) PROMOTER SCAN now reports the signals that it uses in determining a
promoter sequence. The name of the binding factor, its location,
strand, and significance weighting are reported (the weighting is used
only in discriminating promoter sequences from non-promoter sequences
and is NOTrelated to the overall quality of the signal, or as a
measure of it's being an actual binding site or not).
For information on how to obtain the latest copy of PROMOTER SCAN,
send requests to danp at biosci.cbs.umn.edu
Dan S. Prestridge, Ph.D. E-mail: DANP at BIOSCI.CBS.UMN.EDU
Director Telephone: (612) 625-3744
Advanced Biosciences Computing Center Fax: (612) 625-5780
University of Minnesota
1479 Gortner Ave.
St. Paul, MN 55108
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