ampa clearance

neuron/BEH-BD.md

@@ -48,7 +48,7 @@ The simplifications imply that:
 The only behavior we model:
 
 - Linear summation of spine EPSPs into V_dend each ms
-- Uniform bAP distribution to all spines on soma firing
+- Uniform bAP distribution to all spines on soma firing. In this case the dendrites acts as a cable, relaying the bAp to Postsynapse. No modelling needed.
 
 ---
 
@@ -63,15 +63,6 @@ The only behavior we model:
   V_dend *= (1 - dt / tau_dend)
   tau_dend is the membrane time constant of the branch
 - V_dend passed to soma each ms (read externally)
-- If soma fires this ms (step in soma_spike_train):
-  V_bAP = V_bAP_peak   (uniform across all spines)
-- V_bAP decays each ms
-  V_bAP += (0 - V_bAP) * dt / tau_bAP
-- V_bAP broadcast to all spines as shared variable
-  each spine reads V_bAP in its NMDA coincidence gate:
-  V_total = V_post + V_bAP
-  Mg_block_removal = V_total / (V_total + V_NMDA_half)
-  Ca_post += k_NMDA * NT_cleft * Mg_block_removal
 
 — seconds:
 
@@ -91,8 +82,12 @@ Container: BEH-BD
   include:
     BEH-POST.md
 
- expansion:
+  expansion:
-  - BEH-POST ( full: 50x, active: 0x, empty: 10x ) 
+    - BEH-POST ( full: 50x, active: 0x, empty: 10x ) 
-    # managed_by: BEH-EXH or BEH-INH from winnertakeall
+      # managed_by: BEH-EXH or BEH-INH from winnertakeall
-    # developed_by: DEV-BD-BEH-POST-TUB from DEV-N
+      # developed_by: DEV-BD-BEH-POST-TUB from DEV-N
+
+  tub_local:
+    - CaBD ( full: 50x, active: 0x, empty: 10x ) 
+
 ```

neuron/BEH-POST.md

@@ -170,6 +170,8 @@ container: BEH-POST
   - BEH-POST-AMPA ( full: 10x, active: 5x, empty: 2x )
    # modulated_by: TUN-POST-IC # possible/actual
 
+  - BEH-POST-NA-CLEAR ( full: 1x, active: 1x, empty: 0x )
+
  tub_local:
   - Ca2+ ( full: 60x, active: 30x, empty: 0x )
 
@@ -181,6 +183,7 @@ container: BEH-POST
 
  tub_intricated:
   - Nt ( contained_by: BEH-SYN )
+  - CaBD ( contained_by: BEH-BD )
 
  context_intricated:
   - bAp ( contained_by: BEH-SOMA )
@@ -190,12 +193,12 @@ container: BEH-POST
 
 ![post-ltp-ltd.png](.attachments/post-ltp-ltd.png)
 
-#### CheckConditionsPostMs:Context
+#### CheckNa:Context
 
-Contestualizziamo in maniera Fixed? Oppure possiamo ricevere un contesto da SYN? Cmq anche li dovrebbe girare?
+Contestualizziamo in maniera Fixed?
 
 ```Gen
-context: CheckConditionsPostMs
+context: CheckNa
   contained_by: BEH-POST
 
   in_context: Fixed
@@ -211,10 +214,10 @@ context: CheckConditionsPostMs
     out_context: NaLow
 ```
 
-#### NDMAOpenMaximum: Episode
+#### CaNDMAEnterMax: Episode
 
 ```Gen
-episode: NDMAOpenMaximum
+episode: CaNDMAEnterMax
   contained_by: BEH-POST
 
   in_context: bAp AND (NaMax OR NaMedium)
@@ -225,10 +228,10 @@ episode: NDMAOpenMaximum
   trace: 
 ```
 
-#### NDMAOpenMedium: Episode
+#### CaNDMAEnterMed: Episode
 
 ```Gen
-episode: NDMAOpenMedium
+episode: CaNDMAEnterMed
   contained_by: BEH-POST
 
   in_context: (bAp AND NaLow) OR (NOT bAP AND NaMax) 
@@ -239,10 +242,10 @@ episode: NDMAOpenMedium
   trace: 
 ```
 
-#### NDMAOpenLow: Episode
+#### CaNDMAEnterLow: Episode
 
 ```Gen
-episode: NDMAOpenLow
+episode: CaNDMAEnterLow
   contained_by: BEH-POST
 
   in_context: NOT bAP AND NaMedium 
@@ -269,6 +272,35 @@ episode: CaClearance
     trace: None
 ```
 
+#### CheckCa:Context
+
+Contestualizziamo in maniera Fixed?
+
+```Gen
+context: CheckNa
+  contained_by: BEH-POST
+
+  in_context: Fixed
+  rf: ( active: 60x )
+
+  condition: (Ca2+ fullness)
+    out_context: CaMax
+
+  condition: (Ca2+ mediumness)
+    out_context: CaMedium 
+
+  condition: (Ca2+ emptiness)
+    out_context: CaLow
+```
+
+##### CaBdEnterMax:Episode
+
+##### CaBdEnterMed:Episode
+
+##### CaBdEnterMin:Episode
+
+##### CaBdClearance:Episode
+
 ### sec: behaviors POST
 
 #### :Context
@@ -307,10 +339,10 @@ context: CheckNTPost
     out_context: NTFull
 ```
 
-#### AmpaOpenMaximum: Episode
+#### NaAMPAEnterMax: Episode
 
 ```Gen
-episode: AmpaOpenMaximum
+episode: NaAMPAEnterMax
   contained_by: BEH-POST-AMPA
 
   in_context: NTFull
@@ -321,10 +353,10 @@ episode: AmpaOpenMaximum
   trace: 
 ```
 
-#### AmpaOpenMedium: Episode
+#### NaAMPAEnterMed: Episode
 
 ```Gen
-episode: AmpaOpenMedium
+episode: NaAMPAEnterMed
   contained_by: BEH-POST-AMPA
 
   in_context: NTMedium
@@ -335,16 +367,16 @@ episode: AmpaOpenMedium
   trace: 
 ```
 
-## BEH-POST-AMPA-CLEAR: Container
+## BEH-POST-NA-CLEAR: Container
 
 ```Gen
-container: BEH-POST-AMPA-CLEAR
+container: BEH-POST-NA-CLEAR
 
  context_intricated:
   - Na ( contained_by: BEH-POST )
 ```
 
-### ms: behaviors AMPA-CLEAR
+### ms: behaviors NAClearance
 
 #### NaClearance