Sorry for the spam but I wrote a tiny article talking about ossec and malware 
detection. Maybe it could be interesting for you:

http://virtualminds.es/blog/index.php/2010/03/using-ossec-sec-for-malware-detection.html

Greetings

IƱaki R.

On Fri, Apr 16, 2010 at 04:18:07AM -0700, Dave S wrote:
> A common way viruses get past protections is by users plugging in
> portable storage devices like USB drives.
> If that's the case, OSSEC couldn't block that because OSSEC can only
> respond to events *after* they happen.
> 
> You could, however, detect more quickly when an infection occurs and
> take an action like quarantining the node.
> You could setup a test PC in a lab on an isolated network running
> ossec agent, then infect the machine and see what system changes it
> makes.
> From this, you could create custom rules that target this infection
> more precisely, tie those rules to an active response script that, for
> example, shuts down the PC or sets the firewall to block everything.
> Have it kick off an email to you, then you could check with the user
> immediately to see what they did.
> 
> 
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