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Dan S. Prestridge, Ph.D. danp at biosci.cbs.umn.edu
Tue Dec 19 18:33:56 EST 1995


 PROMOTER SCAN Version 1.60 for UNIX is now available. The program for
 IBM PCs is NOT YET READY, and will be announced at a later date.
Please  DO NOT send requests to 'send the PC version when ready'. It
will be announced soon.
 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 NOT related 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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