20140304 Higley collaboration meeting

Shunting level study: steady state

A) inhibition on shaft at either .5 or .6
  1) measure SL along dendrite
  2) measure SL in spine heads for spine moving along dend.

B) Inhibition in spine head for neck at .5 or .6
  3) SL along dendrite
  4) SL in spine heads

5) Redo above with a dendrite covered in spines
prediction: might change the SL decay space constant

20140311

6) plot the voltages for each case (interested in thinking
about time constants)

It turns out the voltages are pretty much locked to -65
because the reversal potential for the leak current was set to
-65 and the inhibitory conductance was set to -65.

I can circumvent this by setting the leak and inhibitory reversal
potential to -60, -70 respectively: use a special switch called
study_voltage to change this.

7) What about for transients? How does the ~SL change?
Consider modeling EPSg being effected by IPSg's

8) Proposed ?

20140305

9) see how the above changes with passive vs active model

20140417

10) I recalled that the task I needed to do was check for zeros in the
Traub.mod mechanisms.  Ted believes this could have been the problem
with the impedance class crashing. There are probably ModelDB models
with the needed checks

11) Do the integration problem in such a way that it can be farmed out
as an embarrassingly parallel problem.

20140418

Here is the integration problem:

1) Have an EPSP generated at a fixed position on a spine attached to
the middle of a shaft.  Measure the peak of the EPSP in the
originating spine head and the adjacent location on the shaft as well
as along the shaft and in a spine that moves along the shaft.  Graph
these peak voltages.  Study with an ipsp from inhibition on a spine or
inhibition on the shaft, each of which throughout the spine.

20140420

Create the integration problem in a seperate folder "integration"
Create a readme that starts to describe this new study by using the
20140418 notes.

20140628

In rereading 20140311 I want to determine if it would reflect biology
better to have the inhibitory reversal be -60 and the leak potential
to be -70.  Need to look up the reversal potential of leak and the
reversal potential of inhibitory channels.

20140715

From the readme notes I see that there were so far unexplainable
problems with the synapse. Considering that I introduced the synapse I
should go back to the basic exp2syn until I figure out what happened?
Maybe the exp2syn will have similar problems - let's see.

The basic task again is to have an EPSP introduced at a spine on the
middle of the dendrite and IPSP introduced on either the shaft or a
spine that varies over the length of the dendrite.  Try it first with
a smooth shaft and then a shaft covered with spines.

