---------- Forwarded message ----------
From: Jesse Dill <jwdill@gmail.com>
Date: Tue, Feb 28, 2012 at 2:59 PM
Subject: ecRNH* unfolding analysis - optical tweezers data
To: John Chodera <jchodera@berkeley.edu>


Hi John,

I'm finally making progress on the RNase H data processing.

Here's a link to a .mat file of data from RNase H, consisting of cell arrays of force jump trajectories: http://optimaltweezers.com/archive/links/2012-02-28_ecRNH_concat_trajectories.mat (~34 MB)

I've included one array (ecRNH_all_noArtifacts) with all the data I collected that didn't show significant artifacts or drift issues. I think that we can focus on the 13-18 pN force range, though there are a couple of traces at 12 pN that may be suitable for analysis as well (my guess is not, as there are so few and the refolding kinetics from the unfolding intermediate are superfast). This is higher priority than the other, so if you only have time/resources to run one analysis, please do this one.

The other cell array (ecRNH_521) is a data set that seems to be unfolding slower at higher forces. It's unclear to me if I've got a bug in my analysis software or if it's just due to some issue that wasn't obvious when i was collecting the original data (my best guess is that a second bead might have fallen into the trap). I included it because the data traces are very clear (aside from a slight feedback rebound in the starts of the traces due to the feedback), and I was curious if your BHMM analysis might shed some light on what's going on.

The data are formatted as cell arrays of Nx3 arrays, where the three columns are time, extension and force.

-Jesse