[med-svn] r7037 - trunk/packages/rostlab/profnet/trunk/debian

[Laszlo Kajan]

Author: lkajan-guest
Date: 2011-06-16 13:22:07 +0000 (Thu, 16 Jun 2011)
New Revision: 7037

Modified:
   trunk/packages/rostlab/profnet/trunk/debian/README.Debian
Log:
reference to publications provided in debian/README.Debian - only for prof

Modified: trunk/packages/rostlab/profnet/trunk/debian/README.Debian
===================================================================
--- trunk/packages/rostlab/profnet/trunk/debian/README.Debian	2011-06-16 11:34:54 UTC (rev 7036)
+++ trunk/packages/rostlab/profnet/trunk/debian/README.Debian	2011-06-16 13:22:07 UTC (rev 7037)
@@ -5,7 +5,7 @@
 for each particular network architecture, changing certain constants
 in the source code.  Therefore, there is a binary for every network
 architecture used.  Note: certain array structures are intentionally
-indexed out of bounds in some of the binaries.
+indexed out of bounds in some of the binaries!
 
 Q: Why so many binary packages?
 -------------------------------
@@ -19,4 +19,15 @@
 architecture updates is not planned since a complete reimplementation
 of these networks with a neural network library is already underway.
 
- -- Laszlo Kajan <lkajan at rostlab.org>  Tue, 14 Jun 2011 18:50:52 +0200
+Publications of predictors that use these neural networks
+---------------------------------------------------------
+Note: this list contains references only to the secondary structure and
+accessibility predictor (profnet-prof and profphd-net).
+References for the other methods are provided in the man pages of the
+respective methods' predictor commands, e.g. profbval(1).
+
+* Rost, B. and Sander, C. (1994a). Combining evolutionary information and neural networks to predict protein secondary structure. Proteins, 19(1), 55-72.
+* Rost, B. and Sander, C. (1994b). Conservation and prediction of solvent accessibility in protein families. Proteins, 20(3), 216-26.
+* Rost, B., Casadio, R., Fariselli, P., and Sander, C. (1995). Transmembrane helices predicted at 95 Protein Sci, 4(3), 521-33.
+
+-- Laszlo Kajan <lkajan at rostlab.org>  Tue, 14 Jun 2011 18:50:52 +0200