AP

neuron/soma.md

@@ -2,9 +2,14 @@
 
 Qui comprendiamo:
 
-- BEH-SOMA: il soma
+- SOMA: il soma
+- VGSC-SOMA-H: Na ion channels. Open only when VDB high
+- VGSC-SOMA-M: Na ion channels. Open only when VDB medium
+- VGSC-SOMA-L: Na ion channels. Open only when VDB low
 
-## BEH-SOMA: Container
+## SOMA: Container
+
+---
 
 **Simplified behaviors**:
 
@@ -54,11 +59,18 @@ Qui comprendiamo:
 ---
 
 ```Gen
-container: BEH-SOMA
+container: SOMA
 
   expansion: 
-    - VGSC-SOMA ( fullness: 50x, active: 20x, emptiness: 10x ) 
+    - VGSC-SOMA-H ( fullness: 50x, active: 20x, emptiness: 10x ) 
-      # modulated_by: TUN-SOMA-VCGG # possible/actual
+      # modulated_by: VGSC-SOMA-H-TUN # possible/actual
+
+    - VGSC-SOMA-M ( fullness: 50x, active: 20x, emptiness: 10x ) 
+      # modulated_by: VGSC-SOMA-M-TUN # possible/actual
+
+    - VGSC-SOMA-L ( fullness: 50x, active: 20x, emptiness: 10x ) 
+      # modulated_by: VGSC-SOMA-L-TUN # possible/actual
+
 
   tub_local:
 
@@ -66,27 +78,21 @@ container: BEH-SOMA
 
     - Na
 
-    - AP
-
-    - bAP
-
     - Ca2+
 
   tub_intricated:  
     - SpikeTrainTraces ( contained_in: DAY-N )
 ```
 
-### ms: behaviors SOMA
+### ms: behaviors
 
 #### CheckVDB: Context
 
-As dendrites deliver current (VDB​), the soma acts like a capacitor. It "stores" this charge in the form of membrane potential. VSOMA is proxy for the Coulombs of charge building up on the somatic membrane.
+As dendrites deliver current (VDB​), the soma acts like a capacitor. It "stores" this charge in the form of membrane potential. This contextualizes VGSC-SOMA to open ion channels that let Na+ ions in.
-
-Contestualizziamo in maniera Fixed?
 
 ```Gen
 context: CheckVDB
-  contained_by: BEH-SOMA
+  contained_by: SOMA
 
   in_context: Fixed
   rf: ( active: 60x )
@@ -101,55 +107,29 @@ context: CheckVDB
     out_context: VDBLow
 ```
 
-##### AddVSOMAMax: Episode
+#### CheckSomaSpike: Context
+
+The initiation and duration of a spike
 
 ```Gen
-episode: AddVSOMAMax
+context: CheckSomaSpike
-  contained_by: BEH-SOMA
+  contained_by: SOMA
 
-  in_context: VDBMax
+  in_context: Fixed
-  rf: ( active: 2x )
+  rf: ( active: 60x )
 
- hypothesis: NOT (VSOMA full)
+  condition: ( Na fullness OR APOngoing )
-  action: [VSOMA increase]
+    out_context: AP
-  trace: 
+    out_context: bAP
-```
-
-##### AddVSOMAMed: Episode
-
-```Gen
-episode: AddVSOMAMed
-  contained_by: BEH-SOMA
-
-  in_context: VDBMedium
-  rf: ( active: 4x )
-
- hypothesis: NOT (VSOMA full)
-  action: [VSOMA increase]
-  trace: 
-```
-
-##### AddVSOMALow: Episode
-
-```Gen
-episode: AddVSOMALow
-  contained_by: BEH-SOMA
-
-  in_context: VDBLow
-  rf: ( active: 8x )
-
- hypothesis: NOT (VSOMA full)
-  action: [VSOMA increase]
-  trace: 
 ```
 
 #### SomaSpike: Episode
 
 ```Gen
 episode: SomaSpike
-  contained_by: BEH-SOMA
+  contained_by: SOMA
 
-  in_context: 
+  in_context: AP
   rf: ( active: 8x )
 
  hypothesis: 
@@ -157,13 +137,13 @@ episode: SomaSpike
   trace: 
 ```
 
-#### ClearVSOMA: Episode
+#### ClearNa: Episode
 
 ```Gen
-episode: ClearVSOMA
+episode: ClearNa
-  contained_by: BEH-SOMA
+  contained_by: SOMA
 
-  in_context: 
+  in_context: AP
   rf: ( active: 8x )
 
  hypothesis: 
@@ -171,11 +151,11 @@ episode: ClearVSOMA
   trace: 
 ```
 
-### sec: behaviors SOMA
+### sec: behaviors
 
-### min: behaviors SOMA
+### min: behaviors
 
-#### TUN-SOMA-VCGG: Tuner
+#### VGSC-SOMA-TUN: Tuner
 
 ```Gen
 tuner: VGSC-SOMA-TUN
@@ -196,7 +176,7 @@ tuner: VGSC-SOMA-TUN
 
 ```Gen
 context: Check
-  contained_by: TUN-SOMA-VCGG
+  contained_by: VGSC-SOMA-TUN
 
   in_context: TunPossible
   rf: ( active: 60x )
@@ -219,22 +199,20 @@ episode: ?
   trace: 
 ```
 
-## VGSC-SOMA: Container
+## VGSC-SOMA-H: Container
 
 Voltage Gated Sodium Channel
 
 ```Gen
-container: VGSC-SOMA
+container: VGSC-SOMA-H
 
 ```
 
-### ms: behaviors SOMA-VGSC
+### Episode1
-
-#### Episode1
 
 ```Gen
 episode: ??
-  contained_by: VGSC-SOMA
+  contained_by: VGSC-H-SOMA
 
   in_context: xxx
   rf: ( active: 1x )
@@ -244,4 +222,48 @@ episode: ??
   trace: None
 ```
 
-##
+## VGSC-SOMA-M: Container
+
+Voltage Gated Sodium Channel
+
+```Gen
+container: VGSC-SOMA-M
+
+```
+
+### Episode2
+
+```Gen
+episode: ??
+  contained_by: VGSC-M-SOMA
+
+  in_context: xxx
+  rf: ( active: 1x )
+
+  hypothesis:  
+  action: 
+  trace: None
+```
+
+## VGSC-SOMA-L: Container
+
+Voltage Gated Sodium Channel
+
+```Gen
+container: VGSC-SOMA-M
+
+```
+
+### Episode3
+
+```Gen
+episode: ??
+  contained_by: VGSC-L-SOMA
+
+  in_context: xxx
+  rf: ( active: 1x )
+
+  hypothesis:  
+  action: 
+  trace: None
+```