Differences

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--- methods:sop:experimentnumbering [2023/07/14 14:27] – created ohardt
+++ methods:sop:experimentnumbering [2024/05/17 20:42] (current) – [Protocol Shorthand] ohardt
@@ Line 13: / Line 13: @@
 ==== Protocol Shorthand ====
-In order to make it easy to understand the general procedure of an experiment, we use a shorthand notation.  Usually, this is part of file names related to an experiment, and also the main data folder containing these data files.
+In order to quickly communicate the general procedure of an experiment, we use a shorthand notation.  Usually, this is part of file names related to an experiment, and also the main data folder containing these data files.
-The steps of the experiment, i.e., the experimental phases, are listed in sequence in this notation.  Here is an example for such a descriptor: **S(5mX3d) R(24h) P(O)**.  This refers to an object recognition experiment in which animals first participated in Sampling (**S**), where each Sampling trial took 5 min (**5m**), one trial per day for 3 days (**3d**). After the last day of Sampling, there was a memory retention interval (**R**) of 24 hours (**24h**), and then followed the Probe trial (**P**), in which we tested novel object recognition (**O**).
+The steps of the experiment, i.e., the experimental phases, are listed in sequence in this notation.  Here is an example for such a descriptor: **S(5mX3d) R(24h) P(O)**.  This refers to an object recognition experiment in which animals first participated in Sampling (**S**), where each Sampling trial took 5 min (**5m**), one trial per day for 3 days (**3d**). After the last day of Sampling, there was a memory retention interval (**R**) of 24 hours (**24h**), and then followed the Probe trial (**P**), in which we tested novel object recognition (**O**).  We only note the duration of the probe trial if it is different from our standard length of 3 minutes.
+==== More examples for notations ====
+  - **S(10m) R(1h) P(L)**: A single, 5 minute long Sampling trial followed 1 hour later with an object location recognition Probe trial.
+  - **S(5mX7d) R(1d) dHC(3d, 3Y vs 3A, AM-PM) R(1d) P(L)**: Seven days of 5 min long sampling trials, one day later infusions started.  Drug GluA2-3Y or GluA2-3A were infused into the dorsal hippocampus AM and PM for 3 consecutive days. The next day, a Probe trial for novel object location recognition followed.
+  - **[dHC(MB v V) R(15m) S(5m)]X3d R(1d) P(O)** For 3 consecutive days, animals were first infused with MB or Vehicle into the dorsal hippocampus, and 15 min later, the participated in a 5 minute long sampling trial. One day after the last sampling trial, animals participated in a probe trial for object memory.
+  - **dHC(AP5 vs Ctrl) R(20m) CFC(Ctxt C, 240s, 3xUS[1s, 0.9 mA, 90s ISI], 180s) R(24h) T(Ctxt C, 600s)**.  This is a contextual fear conditioning experiment (CFC). First, animals were infused into the dorsal hippocampus with AP5 or Control drug, then, 20 min later, contextual fear conditioning was run in Context C, where after 240 seconds the first of 3 shocks was delivered.  Each shock lasted 1 second, was 0.9 mA strong, and the shocks were separated from one another by an inter stimulus interval of 90 seconds.  The animals remained 180 seconds after the last shock in the context.  Twenty-four hours later, the test was administered in Context C, and the test took 600 seconds.