From landsman@quagga Tue Sep 16 12:23:59 1997 Return-Path: Received: from ray.nlm.nih.gov by frodo.nlm.nih.gov id MAA24208; Tue, 16 Sep 1997 12:23:58 -0400 Received: from quagga.nlm.nih.gov by ray.nlm.nih.gov id MAA10073; Tue, 16 Sep 1997 12:23:08 -0400 Received: by quagga.nlm.nih.gov (950413.SGI.8.6.12/5.6) id MAA07713; Tue, 16 Sep 1997 12:23:06 -0400 From: "David Landsman" Message-Id: <9709161223.ZM7711@quagga> Date: Tue, 16 Sep 1997 12:23:06 -0400 X-Mailer: Z-Mail (3.2.3 08feb96 MediaMail) To: ncbi-seminar@quagga Subject: Seminar - Tuesday September 30th at 11am. - 38A/8th Floor Conf. Room Cc: toms@ncifcrf.gov Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Length: 1581 X-IMAPbase: 1000759409 2 Status: O X-Status: X-Keywords: X-UID: 1 Tom Schneider of NCI, LMMB (Lab of Mathematical Biology) will present a seminar as scheduled above. The title of his talk will be: Logos and walkers: graphical analysis of splice junctions and other binding sites, with clinical application Abstract: A graphical method is presented for displaying how binding proteins and other macromolecules interact with individual bases of nucleotide sequences. Characters representing the sequence are either oriented normally and placed above a line indicating favorable contact, or upside-down and placed below the line indicating unfavorable contact. The positive or negative height of each letter shows the contribution of that base to the average sequence conservation of the binding site, as represented by a sequence logo. These sequence `walkers' can be stepped along raw sequence data to visually search for binding sites. Many walkers, for the same or different proteins, can be simultaneously placed next to a sequence to create a quantitative map of a complex genetic region. One can alter the sequence to quantitatively engineer binding sites. Database anomalies can be visualized by placing a walker at the recorded positions of a binding molecule and by comparing this to locations found by scanning the nearby sequences. The sequence can also be altered to predict whether a change is a polymorphism or a mutation for the recognizer being modeled. See http://www-lmmb.ncifcrf.gov/~toms/bitcs.html for more. David Landsman From landsman@quagga Wed Sep 17 18:10:44 1997 Return-Path: Received: from ray.nlm.nih.gov by frodo.nlm.nih.gov id SAA24610; Wed, 17 Sep 1997 18:10:43 -0400 Received: from quagga.nlm.nih.gov by ray.nlm.nih.gov id SAA27247; Wed, 17 Sep 1997 18:09:45 -0400 Received: by quagga.nlm.nih.gov (950413.SGI.8.6.12/5.6) id SAA01303; Wed, 17 Sep 1997 18:09:45 -0400 From: "David Landsman" Message-Id: <9709171809.ZM1301@quagga> Date: Wed, 17 Sep 1997 18:09:45 -0400 X-Mailer: Z-Mail (3.2.3 08feb96 MediaMail) To: ncbi-seminar@quagga Subject: Seminar - Tuesday September 30th at 12pm. - 38A/8th Floor Conf. Room Cc: toms@ncifcrf.gov Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Length: 1665 Status: RO X-Status: X-Keywords: X-UID: 2 I have rescheduled Tom Schneider's seminar due to the overlap/conflict with the Ken Buetow seminar. I hope that it is standing room only after this.... David Tom Schneider of NCI, LMMB (Lab of Mathematical Biology) will present a seminar as scheduled above. The title of his talk will be: Logos and walkers: graphical analysis of splice junctions and other binding sites, with clinical application Abstract: A graphical method is presented for displaying how binding proteins and other macromolecules interact with individual bases of nucleotide sequences. Characters representing the sequence are either oriented normally and placed above a line indicating favorable contact, or upside-down and placed below the line indicating unfavorable contact. The positive or negative height of each letter shows the contribution of that base to the average sequence conservation of the binding site, as represented by a sequence logo. These sequence `walkers' can be stepped along raw sequence data to visually search for binding sites. Many walkers, for the same or different proteins, can be simultaneously placed next to a sequence to create a quantitative map of a complex genetic region. One can alter the sequence to quantitatively engineer binding sites. Database anomalies can be visualized by placing a walker at the recorded positions of a binding molecule and by comparing thisto locations found by scanning the nearby sequences. The sequence can also be altered to predict whether a change is a polymorphism or a mutation for the recognizer being modeled. See http://www-lmmb.ncifcrf.gov/~toms/bitcs.html for more. David Landsman